Index

_

__getitem__() (RoadRunner_python.ExecutableModel method) __init__() (RoadRunner method)

__setitem__() (RoadRunner_python.ExecutableModel method) _COMPARTMENT (SelectionRecord attribute)

A

absolute_tolerance (CVODE.Integrator attribute) addAssignmentRule() (RoadRunner.RoadRunner method) addCompartment() (RoadRunner.RoadRunner method) addDelay() (RoadRunner.RoadRunner method) addEvent() (RoadRunner.RoadRunner method) addEventAssignment() (RoadRunner.RoadRunner method) addParameter() (RoadRunner.RoadRunner method) addPriority() (RoadRunner.RoadRunner method) addRateRule() (RoadRunner.RoadRunner method) addReaction() (RoadRunner.RoadRunner method), [1] addSpeciesConcentration() (RoadRunner.RoadRunner method) addTrigger() (RoadRunner.RoadRunner method) ALL (SelectionRecord attribute)

ALL_DEPENDENT (SelectionRecord attribute) ALL_DEPENDENT_AMOUNT (SelectionRecord attribute) ALL_DEPENDENT_CONCENTRATION (SelectionRecord attribute) ALL_INDEPENDENT (SelectionRecord attribute) ALL_INDEPENDENT_AMOUNT (SelectionRecord attribute) ALL_INDEPENDENT_CONCENTRATION (SelectionRecord attribute) allow_approx (SteadyStateSolver attribute) ALLOW_EVENTS_IN_STEADY_STATE_CALCULATIONS (RoadRunner.Config attribute) allow_presimulation (SteadyStateSolver attribute) AMOUNT (SelectionRecord attribute) approx_maximum_steps (SteadyStateSolver attribute) approx_time (SteadyStateSolver attribute) approx_tolerance (SteadyStateSolver attribute)

B

BOUNDARY (SelectionRecord attribute) BOUNDARY_AMOUNT (SelectionRecord attribute)

BOUNDARY_CONCENTRATION (SelectionRecord attribute) broyden_method (SteadyStateSolver attribute)

C

clearModel() (RoadRunner.RoadRunner method) COMPARTMENT (SelectionRecord attribute) Compiler (class in RoadRunner) CONCENTRATION (SelectionRecord attribute) conservedMoieties (RoadRunner.LoadSBMLOptions attribute)

conservedMoietyAnalysis (RoadRunner.RoadRunner attribute) CONSREVED_MOIETY (SelectionRecord attribute) CONTROL (SelectionRecord attribute) convert() (RoadRunner.PyConservedMoietyConverter method) createSelection() (RoadRunner method) CURRENT (SelectionRecord attribute)

D

DEPENDENT (SelectionRecord attribute) disableConsoleLogging() (RoadRunner.Logger static method)

disableFileLogging() (RoadRunner.Logger static method) disableLogging() (RoadRunner.Logger static method)

E

EIGENVALUE (SelectionRecord attribute) EIGENVALUE_COMPLEX (SelectionRecord attribute) ELASTICITY (SelectionRecord attribute)

ELEMENT (SelectionRecord attribute) enableConsoleLogging() (RoadRunner.Logger static method) enableFileLogging() (RoadRunner.Logger static method) epsilon (Euler-and-Runge-Kutta.Integrator attribute)

F

FLOATING (SelectionRecord attribute) FLOATING_AMOUNT (SelectionRecord attribute)

FLOATING_AMOUNT_RATE (SelectionRecord attribute) FLOATING_CONCENTRATION (SelectionRecord attribute) FLOATING_CONCENTRATION_RATE (SelectionRecord attribute)

G

getAllTimeCourseComponentIds() (RoadRunner_python.ExecutableModel method) getAvailableIntegrators() (RoadRunner.RoadRunner method) getBoundarySpeciesAmounts() (RoadRunner_python.ExecutableModel method) getBoundarySpeciesConcentrationIds() (RoadRunner_python.ExecutableModel method) getBoundarySpeciesConcentrations() (RoadRunner_python.ExecutableModel method) getBoundarySpeciesIds() (RoadRunner_python.ExecutableModel method) getCC() (RoadRunner.RoadRunner method) getColoredOutput() (RoadRunner.Logger static method) getCompartmentIds() (RoadRunner_python.ExecutableModel method) getCompartmentVolumes() (RoadRunner_python.ExecutableModel method) getCompiler() (RoadRunner method) (RoadRunner.Compiler method) getCompilerLocation() (RoadRunner.Compiler method) getConfigFilePath() (RoadRunner.Config static method) getConfigurationXML() (RoadRunner.RoadRunner method) getConservationMatrix() (RoadRunner.RoadRunner method) getConservedMoietyIds() (RoadRunner_python.ExecutableModel method) getConservedMoietyValues() (RoadRunner_python.ExecutableModel method) getCopyrightStr() (in module roadrunner) getCurrentLevelAsString() (RoadRunner.Logger static method) getCurrentSBML() (RoadRunner.RoadRunner method) getDefaultTargetTriple() (RoadRunner.Compiler method) getDependentFloatingSpeciesIds() (RoadRunner_python.ExecutableModel method) getDependentRatesOfChange() (RoadRunner.RoadRunner method) getDescription() (Solver method) getDiffStepSize() (RoadRunner.RoadRunner method) getDisplayName() (Solver method) getDocument() (RoadRunner.PyConservedMoietyConverter method) getEE() (RoadRunner.RoadRunner method) getEigenValueIds() (RoadRunner.RoadRunner method) getEventIds() (RoadRunner_python.ExecutableModel method) getExistingIntegratorNames() (RoadRunner.RoadRunner method) getExtendedVersionInfo() (RoadRunner.RoadRunner method) getFileName() (RoadRunner.Logger static method) getFloatingSpeciesAmounts() (RoadRunner_python.ExecutableModel method) getFloatingSpeciesConcentrationIds() (RoadRunner_python.ExecutableModel method) getFloatingSpeciesConcentrations() (RoadRunner_python.ExecutableModel method) getFloatingSpeciesIds() (RoadRunner_python.ExecutableModel method) getFloatingSpeciesInitAmountIds() (RoadRunner_python.ExecutableModel method) getFloatingSpeciesInitAmounts() (RoadRunner_python.ExecutableModel method) getFloatingSpeciesInitConcentrationIds() (RoadRunner_python.ExecutableModel method) getFloatingSpeciesInitConcentrations() (RoadRunner_python.ExecutableModel method) getFormattingPattern() (RoadRunner.Logger static method) getFrequencyResponse() (RoadRunner.RoadRunner method) getFullEigenValues() (RoadRunner.RoadRunner method) getFullJacobian() (RoadRunner.RoadRunner method) getFullStoichiometryMatrix() (RoadRunner.RoadRunner method) getGlobalParameterIds() (RoadRunner_python.ExecutableModel method) getGlobalParameterValues() (RoadRunner_python.ExecutableModel method) getHint() (Solver method) getHostCPUName() (RoadRunner.Compiler method) getIds() (RoadRunner method) getIndependentFloatingSpeciesIds() (RoadRunner_python.ExecutableModel method) getIndependentRatesOfChange() (RoadRunner.RoadRunner method) getInfo() (RoadRunner.RoadRunner method) (RoadRunner_python.ExecutableModel method) getInstanceCount() (RoadRunner.RoadRunner method) getInstanceID() (RoadRunner.RoadRunner method) getIntegrationMethod() (Integrator method) getIntegrator() (RoadRunner.RoadRunner method) getIntegratorByName() (RoadRunner.RoadRunner method) getKMatrix() (RoadRunner.RoadRunner method) getL0Matrix() (RoadRunner.RoadRunner method) getLevel() (RoadRunner.Logger static method) getLinkMatrix() (RoadRunner.RoadRunner method) getListener() (Integrator method)

getModel() (RoadRunner.RoadRunner method) getModelName() (RoadRunner_python.ExecutableModel method) getName() (Solver method) getNrMatrix() (RoadRunner.RoadRunner method) getNumBoundarySpecies() (RoadRunner_python.ExecutableModel method) getNumCompartments() (RoadRunner_python.ExecutableModel method) getNumConservedMoieties() (RoadRunner_python.ExecutableModel method) getNumEvents() (RoadRunner_python.ExecutableModel method) getNumFloatingSpecies() (RoadRunner_python.ExecutableModel method) getNumGlobalParameters() (RoadRunner_python.ExecutableModel method) getNumParams() (Solver method) getNumRateRules() (RoadRunner_python.ExecutableModel method) getNumReactions() (RoadRunner_python.ExecutableModel method) getParamDesc() (Solver method) getParamDisplayName() (Solver method) getParamHint() (Solver method) getParamName() (Solver method) getParamPromotedSBML() (RoadRunner.RoadRunner method) getProcessTriple() (RoadRunner.Compiler method) getRatesOfChange() (RoadRunner.RoadRunner method) getReactionIds() (RoadRunner_python.ExecutableModel method) getReactionRates() (RoadRunner_python.ExecutableModel method) getReducedEigenValues() (RoadRunner.RoadRunner method) getReducedJacobian() (RoadRunner.RoadRunner method) getReducedStoichiometryMatrix() (RoadRunner.RoadRunner method) getSBML() (RoadRunner.RoadRunner method) getScaledConcentrationControlCoefficientMatrix() (RoadRunner.RoadRunner method) getScaledElasticityMatrix() (RoadRunner.RoadRunner method) getScaledFloatingSpeciesElasticity() (RoadRunner.RoadRunner method) getScaledFluxControlCoefficientMatrix() (RoadRunner.RoadRunner method) getSelectedValues() (RoadRunner.RoadRunner method) getSetting() (Solver method) getSettings() (Solver method) getSettingsRepr() (Solver method) getSteadyStateSolver() (RoadRunner.RoadRunner method) getSteadyStateThreshold() (RoadRunner.RoadRunner method) getSteadyStateValues() (RoadRunner.RoadRunner method) getSteadyStateValuesNamedArray() (RoadRunner.RoadRunner method) getStoichiometry() (RoadRunner_python.ExecutableModel method) getSupportCodeFolder() (RoadRunner.Compiler method) getTime() (RoadRunner_python.ExecutableModel method) getType() (Solver method) getuCC() (RoadRunner.RoadRunner method) getuEE() (RoadRunner.RoadRunner method) getUnscaledConcentrationControlCoefficientMatrix() (RoadRunner.RoadRunner method) getUnscaledElasticityMatrix() (RoadRunner.RoadRunner method) getUnscaledFluxControlCoefficientMatrix() (RoadRunner.RoadRunner method) getUnscaledParameterElasticity() (RoadRunner.RoadRunner method) getUnscaledSpeciesElasticity() (RoadRunner.RoadRunner method) getValue() (RoadRunner method) (RoadRunner.RoadRunner method) (Solver method) getValueAsBool() (Solver method) getValueAsChar() (Solver method) getValueAsDouble() (Solver method) getValueAsFloat() (Solver method) getValueAsInt() (Solver method) getValueAsLong() (Solver method) getValueAsString() (Solver method) getValueAsUChar() (Solver method) getValueAsUInt() (Solver method) getValueAsULong() (Solver method) getVersion() (RoadRunner:.Compiler method) getVersionStr() (in module roadrunner) gillespie() (RoadRunner.RoadRunner method) GLOBAL_PARAMETER (SelectionRecord attribute)

H

hasValue() (Solver method)

I

INDEPENDENT (SelectionRecord attribute) index (RoadRunner.SelectionRecord attribute) INITIAL (SelectionRecord attribute) INITIAL_FLOATING_AMOUNT (SelectionRecord attribute) INITIAL_FLOATING_CONCENTRATION (SelectionRecord attribute)

initial_time_step (CVODE.Integrator attribute) (Gillespie.Integrator attribute) integrate() (Integrator method) internalOneStep() (RoadRunner.RoadRunner method) isModelLoaded() (RoadRunner.RoadRunner method) items() (RoadRunner_python.ExecutableModel method)

K

keys() (RoadRunner_python.ExecutableModel method)

L

levelToString() (RoadRunner.Logger static method) linearity (SteadyStateSolver attribute) listTestModels() (in module roadrunner) load() (RoadRunner.RoadRunner method) LoadSBMLOptions (class in RoadRunner) LOADSBMLOPTIONS_CONSERVED_MOIETIES (RoadRunner.Config attribute) LOADSBMLOPTIONS_MUTABLE_INITIAL_CONDITIONS (RoadRunner.Config attribute) LOADSBMLOPTIONS_OPTIMIZE_CFG_SIMPLIFICATION (RoadRunner.Config attribute) LOADSBMLOPTIONS_OPTIMIZE_DEAD_CODE_ELIMINATION (RoadRunner.Config attribute) LOADSBMLOPTIONS_OPTIMIZE_DEAD_INST_ELIMINATION (RoadRunner.Config attribute) LOADSBMLOPTIONS_OPTIMIZE_GVN (RoadRunner.Config attribute) LOADSBMLOPTIONS_OPTIMIZE_INSTRUCTION_COMBINING (RoadRunner.Config attribute) LOADSBMLOPTIONS_OPTIMIZE_INSTRUCTION_SIMPLIFIER (RoadRunner.Config attribute) LOADSBMLOPTIONS_PERMISSIVE (RoadRunner.Config attribute) LOADSBMLOPTIONS_READ_ONLY (RoadRunner.Config attribute)

LOADSBMLOPTIONS_RECOMPILE (RoadRunner.Config attribute) LOADSBMLOPTIONS_USE_MCJIT (RoadRunner.Config attribute) loadSBMLSettings() (Integrator method) loadState() (RoadRunner.RoadRunner method) loadTestModel() (in module roadrunner) log() (RoadRunner.Logger static method) LOG_CRITICAL (RoadRunner.Logger attribute) LOG_CURRENT (RoadRunner.Logger attribute) LOG_DEBUG (RoadRunner.Logger attribute) LOG_ERROR (RoadRunner.Logger attribute) LOG_FATAL (RoadRunner.Logger attribute) LOG_INFORMATION (RoadRunner.Logger attribute) LOG_NOTICE (RoadRunner.Logger attribute) LOG_TRACE (RoadRunner.Logger attribute) LOG_WARNING (RoadRunner.Logger attribute)

M

max_output_rows (Gillespie.Integrator attribute) MAX_OUTPUT_ROWS (RoadRunner.Config attribute) maximum_adams_order (CVODE.Integrator attribute) maximum_bdf_order (CVODE.Integrator attribute) maximum_iterations (SteadyStateSolver attribute) maximum_num_steps (CVODE.Integrator attribute) maximum_time_step (CVODE.Integrator attribute) (Euler-and-Runge-Kutta.Integrator attribute) (Gillespie.Integrator attribute)

minimum_damping (SteadyStateSolver attribute) minimum_time_step (CVODE.Integrator attribute) (Euler-and-Runge-Kutta.Integrator attribute) (Gillespie.Integrator attribute) model (RoadRunner.RoadRunner attribute) module roadrunner multiple_steps (CVODE.Integrator attribute) mutableInitialConditions (RoadRunner.LoadSBMLOptions attribute)

N

noDefaultSelections (RoadRunner.LoadSBMLOptions attribute)

nonnegative (Gillespie.Integrator attribute)

O

oneStep() (RoadRunner.RoadRunner method)

P

p1 (RoadRunner.SelectionRecord attribute) p2 (RoadRunner.SelectionRecord attribute)

presimulation_maximum_steps (SteadyStateSolver attribute) presimulation_time (SteadyStateSolver attribute) PyConservedMoietyConverter (class in RoadRunner)

R

RATE (SelectionRecord attribute) REACTION (SelectionRecord attribute) REACTION_RATE (SelectionRecord attribute) readConfigFile() (RoadRunner.Config static method) readOnly (RoadRunner.LoadSBMLOptions attribute) recompile (RoadRunner.LoadSBMLOptions attribute) regenerateModel() (RoadRunner method) relative_tolerance (CVODE.Integrator attribute) (SteadyStateSolver attribute) removeCompartment() (RoadRunner.RoadRunner method) removeEvent() (RoadRunner method) removeEventAssignment() (RoadRunner.RoadRunner method) removeParameter() (RoadRunner.RoadRunner method) removeReaction() (RoadRunner.RoadRunner method) removeRules() (RoadRunner.RoadRunner method) removeSpecies() (RoadRunner.RoadRunner method) reset() (RoadRunner.RoadRunner method) (RoadRunner_python.ExecutableModel method) resetAll() (RoadRunner.RoadRunner method) (RoadRunner_python.ExecutableModel method) resetParameter() (RoadRunner.RoadRunner method) resetSelectionLists() (RoadRunner method) resetSettings() (Solver method) resetToOrigin() (RoadRunner.RoadRunner method) (RoadRunner_python.ExecutableModel method) restart() (Integrator method) roadrunner module RoadRunner (built-in class) Roadrunner.getSimulationData() (in module RoadRunner) roadrunner.Integrator (built-in class) RoadRunner.plot() (in module RoadRunner) roadrunner.Solver (built-in class) roadrunner.SteadyStateSolver (built-in class) RoadRunner.SteadyStateSolver (class in RoadRunner) ROADRUNNER_DISABLE_PYTHON_DYNAMIC_PROPERTIES (RoadRunner.Config attribute) ROADRUNNER_DISABLE_WARNINGS (RoadRunner.Config attribute) RoadRunner_getExtendedVersionInfo() (in module roadrunner) RoadRunner_getParamPromotedSBML() (in module roadrunner) rr::Compiler (C++ class) rr::Compiler::getCompiler (C++ function) rr::Compiler::getCompilerLocation (C++ function) rr::Compiler::getDefaultCompiler (C++ function) rr::Compiler::getDefaultTargetTriple (C++ function) rr::Compiler::getHostCPUName (C++ function) rr::Compiler::getProcessTriple (C++ function) rr::Compiler::getSupportCodeFolder (C++ function) rr::Compiler::getVersion (C++ function) rr::Compiler::New (C++ function) rr::Compiler::setCompiler (C++ function) rr::Compiler::setCompilerLocation (C++ function) rr::Compiler::setSupportCodeFolder (C++ function) rr::Compiler::~Compiler (C++ function) rr::Config (C++ class) rr::Config::getBool (C++ function) rr::Config::getConfigFilePath (C++ function) rr::Config::getDouble (C++ function) rr::Config::getInt (C++ function) rr::Config::getKeyList (C++ function) rr::Config::getString (C++ function) rr::Config::getValue (C++ function) rr::Config::Keys (C++ enum) rr::Config::Keys::ALLOW_EVENTS_IN_STEADY_STATE_CALCULATIONS (C++ enumerator) rr::Config::Keys::CONFIG_END (C++ enumerator) rr::Config::Keys::CVODE_MIN_ABSOLUTE (C++ enumerator) rr::Config::Keys::CVODE_MIN_RELATIVE (C++ enumerator) rr::Config::Keys::K_ROWS_PER_WRITE (C++ enumerator) rr::Config::Keys::LLJIT_NUM_THREADS (C++ enumerator) rr::Config::Keys::LLJIT_OPTIMIZATION_LEVEL (C++ enumerator) rr::Config::Keys::LLVM_BACKEND (C++ enumerator) rr::Config::Keys::LLVM_SYMBOL_CACHE (C++ enumerator) rr::Config::Keys::LOADSBMLOPTIONS_CONSERVED_MOIETIES (C++ enumerator) rr::Config::Keys::LOADSBMLOPTIONS_MUTABLE_INITIAL_CONDITIONS (C++ enumerator) rr::Config::Keys::LOADSBMLOPTIONS_OPTIMIZE_CFG_SIMPLIFICATION (C++ enumerator) rr::Config::Keys::LOADSBMLOPTIONS_OPTIMIZE_DEAD_CODE_ELIMINATION (C++ enumerator) rr::Config::Keys::LOADSBMLOPTIONS_OPTIMIZE_DEAD_INST_ELIMINATION (C++ enumerator) rr::Config::Keys::LOADSBMLOPTIONS_OPTIMIZE_GVN (C++ enumerator) rr::Config::Keys::LOADSBMLOPTIONS_OPTIMIZE_INSTRUCTION_COMBINING (C++ enumerator) rr::Config::Keys::LOADSBMLOPTIONS_OPTIMIZE_INSTRUCTION_SIMPLIFIER (C++ enumerator) rr::Config::Keys::LOADSBMLOPTIONS_PERMISSIVE (C++ enumerator) rr::Config::Keys::LOADSBMLOPTIONS_READ_ONLY (C++ enumerator) rr::Config::Keys::LOADSBMLOPTIONS_RECOMPILE (C++ enumerator) rr::Config::Keys::LOADSBMLOPTIONS_USE_MCJIT (C++ enumerator) rr::Config::Keys::LOGGER_LOG_FILE_PATH (C++ enumerator) rr::Config::Keys::MAX_OUTPUT_ROWS (C++ enumerator) rr::Config::Keys::METABOLIC_CONTROL_ANALYSIS_DIFFERENTIAL_STEP_SIZE (C++ enumerator) rr::Config::Keys::METABOLIC_CONTROL_ANALYSIS_FLUX_THRESHOLD (C++ enumerator) rr::Config::Keys::METABOLIC_CONTROL_ANALYSIS_STEADY_STATE_THRESHOLD (C++ enumerator) rr::Config::Keys::MODEL_RESET (C++ enumerator) rr::Config::Keys::OPTIMIZE_REACTION_RATE_SELECTION (C++ enumerator) rr::Config::Keys::PYTHON_ENABLE_NAMED_MATRIX (C++ enumerator) rr::Config::Keys::RANDOM_SEED (C++ enumerator) rr::Config::Keys::ROADRUNNER_DISABLE_PYTHON_DYNAMIC_PROPERTIES (C++ enumerator) rr::Config::Keys::ROADRUNNER_DISABLE_WARNINGS (C++ enumerator) rr::Config::Keys::ROADRUNNER_JACOBIAN_MODE (C++ enumerator) rr::Config::Keys::ROADRUNNER_JACOBIAN_STEP_SIZE (C++ enumerator) rr::Config::Keys::SBML_APPLICABLEVALIDATORS (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_ABSOLUTE (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_COPY_RESULT (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_DETERMINISTIC_VARIABLE_STEP (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_DURATION (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_INITIAL_TIMESTEP (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_INTEGRATOR (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_MAXIMUM_NUM_STEPS (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_MAXIMUM_TIMESTEP (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_MINIMUM_TIMESTEP (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_MULTI_STEP (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_RELATIVE (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_STEPS (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_STIFF (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_STOCHASTIC_VARIABLE_STEP (C++ enumerator) rr::Config::Keys::SIMULATEOPTIONS_STRUCTURED_RESULT (C++ enumerator) rr::Config::Keys::STEADYSTATE_APPROX (C++ enumerator) rr::Config::Keys::STEADYSTATE_APPROX_MAX_STEPS (C++ enumerator) rr::Config::Keys::STEADYSTATE_APPROX_TIME (C++ enumerator) rr::Config::Keys::STEADYSTATE_APPROX_TOL (C++ enumerator) rr::Config::Keys::STEADYSTATE_BROYDEN (C++ enumerator) rr::Config::Keys::STEADYSTATE_LINEARITY (C++ enumerator) rr::Config::Keys::STEADYSTATE_MAXIMUM_NUM_STEPS (C++ enumerator) rr::Config::Keys::STEADYSTATE_MINIMUM_DAMPING (C++ enumerator) rr::Config::Keys::STEADYSTATE_PRESIMULATION (C++ enumerator) rr::Config::Keys::STEADYSTATE_PRESIMULATION_MAX_STEPS (C++ enumerator) rr::Config::Keys::STEADYSTATE_PRESIMULATION_TIME (C++ enumerator) rr::Config::Keys::STEADYSTATE_RELATIVE (C++ enumerator) rr::Config::Keys::TEMP_DIR_PATH (C++ enumerator) rr::Config::Keys::VALIDATION_IN_REGENERATION (C++ enumerator) rr::Config::LLJIT_OPTIMIZATION_LEVELS (C++ enum) rr::Config::LLJIT_OPTIMIZATION_LEVELS::AGGRESSIVE (C++ enumerator) rr::Config::LLJIT_OPTIMIZATION_LEVELS::DEFAULT (C++ enumerator) rr::Config::LLJIT_OPTIMIZATION_LEVELS::LESS (C++ enumerator) rr::Config::LLJIT_OPTIMIZATION_LEVELS::NONE (C++ enumerator) rr::Config::LLVM_BACKEND_VALUES (C++ enum) rr::Config::LLVM_BACKEND_VALUES::LLJIT (C++ enumerator) rr::Config::LLVM_BACKEND_VALUES::MCJIT (C++ enumerator) rr::Config::readConfigFile (C++ function) rr::Config::ROADRUNNER_DISABLE_WARNINGS_VALUES (C++ enum) rr::Config::ROADRUNNER_DISABLE_WARNINGS_VALUES::ROADRUNNER_DISABLE_WARNINGS_CONSERVED_MOIETY (C++ enumerator) rr::Config::ROADRUNNER_DISABLE_WARNINGS_VALUES::ROADRUNNER_DISABLE_WARNINGS_STEADYSTATE (C++ enumerator) rr::Config::ROADRUNNER_JACOBIAN_MODE_VALUES (C++ enum) rr::Config::ROADRUNNER_JACOBIAN_MODE_VALUES::ROADRUNNER_JACOBIAN_MODE_AMOUNTS (C++ enumerator) rr::Config::ROADRUNNER_JACOBIAN_MODE_VALUES::ROADRUNNER_JACOBIAN_MODE_CONCENTRATIONS (C++ enumerator) rr::Config::setValue (C++ function) rr::Config::stringToKey (C++ function) rr::Config::writeConfigFile (C++ function) rr::CVODEIntegrator (C++ class) rr::CVODEIntegrator::applyEvents (C++ function) rr::CVODEIntegrator::applyPendingEvents (C++ function) rr::CVODEIntegrator::applyVariableStepPendingEvents (C++ function) rr::CVODEIntegrator::assignResultsToModel (C++ function) rr::CVODEIntegrator::checkIndex (C++ function) rr::CVODEIntegrator::checkType (C++ function) rr::CVODEIntegrator::checkVectorSize (C++ function) rr::CVODEIntegrator::construct (C++ function) rr::CVODEIntegrator::create (C++ function) rr::CVODEIntegrator::cvodeDyDtFcn (C++ function) rr::CVODEIntegrator::cvodeEventAndPiecewiseRootFcn (C++ function) rr::CVODEIntegrator::CVODEIntegrator (C++ function) rr::CVODEIntegrator::eventStatus (C++ member) rr::CVODEIntegrator::freeSundialsMemory (C++ function) rr::CVODEIntegrator::getAbsoluteToleranceVector (C++ function) rr::CVODEIntegrator::getCvodeMemory (C++ function) rr::CVODEIntegrator::getDescription (C++ function) rr::CVODEIntegrator::getHint (C++ function) rr::CVODEIntegrator::getIntegrationMethod (C++ function) rr::CVODEIntegrator::getListener (C++ function) rr::CVODEIntegrator::getName (C++ function) rr::CVODEIntegrator::getSolver (C++ function) rr::CVODEIntegrator::getStateVector (C++ function) rr::CVODEIntegrator::haveVariables (C++ function) rr::CVODEIntegrator::integrate (C++ function) rr::CVODEIntegrator::Integrator (C++ function), [1] rr::CVODEIntegrator::jac (C++ member) rr::CVODEIntegrator::linSolver (C++ member) rr::CVODEIntegrator::listener (C++ member) rr::CVODEIntegrator::loadConfigSettings (C++ function) rr::CVODEIntegrator::loadSBMLSettings (C++ function) rr::CVODEIntegrator::mCVODE_Memory (C++ member) rr::CVODEIntegrator::mDefaultMaxAdamsOrder (C++ member) rr::CVODEIntegrator::mDefaultMaxBDFOrder (C++ member) rr::CVODEIntegrator::mDefaultMaxNumSteps (C++ member) rr::CVODEIntegrator::mLastEventTime (C++ member) rr::CVODEIntegrator::mStateVector (C++ member) rr::CVODEIntegrator::nonLinSolver (C++ member) rr::CVODEIntegrator::reInit (C++ function) rr::CVODEIntegrator::resetSettings (C++ function) rr::CVODEIntegrator::restart (C++ function) rr::CVODEIntegrator::setCVODETolerances (C++ function) rr::CVODEIntegrator::setIndividualTolerance (C++ function) rr::CVODEIntegrator::setListener (C++ function) rr::CVODEIntegrator::setMaxOrder (C++ function) rr::CVODEIntegrator::setValue (C++ function) rr::CVODEIntegrator::stateVectorVariables (C++ member) rr::CVODEIntegrator::syncWithModel (C++ function) rr::CVODEIntegrator::testRootsAtInitialTime (C++ function) rr::CVODEIntegrator::ToString (C++ function), [1] rr::CVODEIntegrator::tweakTolerances (C++ function) rr::CVODEIntegrator::typecode_ (C++ member) rr::CVODEIntegrator::updateCVODE (C++ function) rr::CVODEIntegrator::variableStepPendingEvent (C++ member) rr::CVODEIntegrator::variableStepPostEventState (C++ member) rr::CVODEIntegrator::variableStepTimeEndEvent (C++ member) rr::CVODEIntegrator::~CVODEIntegrator (C++ function) rr::Dictionary (C++ class) rr::Dictionary::deleteItem (C++ function) rr::Dictionary::getItem (C++ function) rr::Dictionary::getKeys (C++ function) rr::Dictionary::hasKey (C++ function) rr::Dictionary::setItem (C++ function) rr::Dictionary::~Dictionary (C++ function) rr::EulerIntegrator (C++ class) rr::EulerIntegrator::applyEvents (C++ function) rr::EulerIntegrator::construct (C++ function) rr::EulerIntegrator::deleteItem (C++ function) rr::EulerIntegrator::EulerIntegrator (C++ function) rr::EulerIntegrator::eventStatus (C++ member) rr::EulerIntegrator::exampleParameter1 (C++ member) rr::EulerIntegrator::exampleParameter2 (C++ member) rr::EulerIntegrator::getDescription (C++ function) rr::EulerIntegrator::getHint (C++ function) rr::EulerIntegrator::getIntegrationMethod (C++ function) rr::EulerIntegrator::getItem (C++ function) rr::EulerIntegrator::getKeys (C++ function) rr::EulerIntegrator::getListener (C++ function) rr::EulerIntegrator::getName (C++ function) rr::EulerIntegrator::hasKey (C++ function) rr::EulerIntegrator::integrate (C++ function) rr::EulerIntegrator::Integrator (C++ function), [1] rr::EulerIntegrator::listener (C++ member) rr::EulerIntegrator::previousEventStatus (C++ member) rr::EulerIntegrator::rateBuffer (C++ member) rr::EulerIntegrator::resetSettings (C++ function) rr::EulerIntegrator::restart (C++ function) rr::EulerIntegrator::setItem (C++ function) rr::EulerIntegrator::setListener (C++ function) rr::EulerIntegrator::stateBufferBegin (C++ member) rr::EulerIntegrator::stateBufferEnd (C++ member) rr::EulerIntegrator::stateVectorSize (C++ member) rr::EulerIntegrator::toRepr (C++ function) rr::EulerIntegrator::toString (C++ function) rr::EulerIntegrator::~EulerIntegrator (C++ function) rr::Exception (C++ class) rr::Exception::Exception (C++ function) rr::Exception::getMessage (C++ function) rr::Exception::Message (C++ function) rr::Exception::mMessage (C++ member) rr::Exception::what (C++ function) rr::Exception::~Exception (C++ function) rr::ExecutableModel (C++ class) rr::ExecutableModel::applyEvents (C++ function) rr::ExecutableModel::computeAllRatesOfChange (C++ function) rr::ExecutableModel::ExecutableModel (C++ function) rr::ExecutableModel::ExecutableModelFlags (C++ enum) rr::ExecutableModel::ExecutableModelFlags::INTEGRATION (C++ enumerator) rr::ExecutableModel::ExecutableModelFlags::OPTIMIZE_REACTION_RATE_SELECTION (C++ enumerator) rr::ExecutableModel::getAssignmentRuleIds (C++ function) rr::ExecutableModel::getBoundarySpeciesAmounts (C++ function) rr::ExecutableModel::getBoundarySpeciesConcentrations (C++ function) rr::ExecutableModel::getBoundarySpeciesId (C++ function) rr::ExecutableModel::getBoundarySpeciesIndex (C++ function) rr::ExecutableModel::getBoundarySpeciesInitAmounts (C++ function) rr::ExecutableModel::getBoundarySpeciesInitConcentrations (C++ function) rr::ExecutableModel::getCompartmentId (C++ function) rr::ExecutableModel::getCompartmentIndex (C++ function) rr::ExecutableModel::getCompartmentIndexForBoundarySpecies (C++ function) rr::ExecutableModel::getCompartmentIndexForFloatingSpecies (C++ function) rr::ExecutableModel::getCompartmentInitVolumes (C++ function) rr::ExecutableModel::getCompartmentVolumes (C++ function) rr::ExecutableModel::getConservedMoietyId (C++ function) rr::ExecutableModel::getConservedMoietyIndex (C++ function) rr::ExecutableModel::getConservedMoietyValues (C++ function) rr::ExecutableModel::getEventId (C++ function) rr::ExecutableModel::getEventIds (C++ function) rr::ExecutableModel::getEventIndex (C++ function) rr::ExecutableModel::getEventListener (C++ function) rr::ExecutableModel::getEventRoots (C++ function) rr::ExecutableModel::getEventTriggers (C++ function) rr::ExecutableModel::getExecutableModelDesc (C++ function) rr::ExecutableModel::getFlags (C++ function) rr::ExecutableModel::getFloatingSpeciesAmountRate (C++ function) rr::ExecutableModel::getFloatingSpeciesAmountRates (C++ function) rr::ExecutableModel::getFloatingSpeciesAmounts (C++ function) rr::ExecutableModel::getFloatingSpeciesConcentrationRates (C++ function) rr::ExecutableModel::getFloatingSpeciesConcentrations (C++ function) rr::ExecutableModel::getFloatingSpeciesId (C++ function) rr::ExecutableModel::getFloatingSpeciesIndex (C++ function) rr::ExecutableModel::getFloatingSpeciesInitAmounts (C++ function) rr::ExecutableModel::getFloatingSpeciesInitConcentrations (C++ function) rr::ExecutableModel::getGlobalParameterId (C++ function) rr::ExecutableModel::getGlobalParameterIndex (C++ function) rr::ExecutableModel::getGlobalParameterInitValues (C++ function) rr::ExecutableModel::getGlobalParameterValues (C++ function) rr::ExecutableModel::getIds (C++ function) rr::ExecutableModel::getInfo (C++ function) rr::ExecutableModel::getInitialAssignmentIds (C++ function) rr::ExecutableModel::getModelName (C++ function) rr::ExecutableModel::getNextPendingEventTime (C++ function) rr::ExecutableModel::getNumBoundarySpecies (C++ function) rr::ExecutableModel::getNumCompartments (C++ function) rr::ExecutableModel::getNumConservedMoieties (C++ function) rr::ExecutableModel::getNumDepFloatingSpecies (C++ function) rr::ExecutableModel::getNumEvents (C++ function) rr::ExecutableModel::getNumFloatingSpecies (C++ function) rr::ExecutableModel::getNumGlobalParameters (C++ function) rr::ExecutableModel::getNumIndFloatingSpecies (C++ function) rr::ExecutableModel::getNumPiecewiseTriggers (C++ function) rr::ExecutableModel::getNumRateRules (C++ function) rr::ExecutableModel::getNumReactions (C++ function) rr::ExecutableModel::getPendingEventSize (C++ function) rr::ExecutableModel::getPiecewiseTriggerRoots (C++ function) rr::ExecutableModel::getRandom (C++ function) rr::ExecutableModel::getRandomSeed (C++ function) rr::ExecutableModel::getRateRuleIds (C++ function) rr::ExecutableModel::getRateRuleRates (C++ function) rr::ExecutableModel::getRateRuleSymbols (C++ function) rr::ExecutableModel::getRateRuleValues (C++ function) rr::ExecutableModel::getReactionId (C++ function) rr::ExecutableModel::getReactionIndex (C++ function) rr::ExecutableModel::getReactionRates (C++ function) rr::ExecutableModel::getStateVector (C++ function) rr::ExecutableModel::getStateVectorId (C++ function) rr::ExecutableModel::getStateVectorRate (C++ function) rr::ExecutableModel::getStoichiometry (C++ function), [1] rr::ExecutableModel::getStoichiometryId (C++ function) rr::ExecutableModel::getStoichiometryIndex (C++ function), [1] rr::ExecutableModel::getSupportedIdTypes (C++ function) rr::ExecutableModel::getTime (C++ function) rr::ExecutableModel::getValue (C++ function) rr::ExecutableModel::mIntegrationStartTime (C++ member) rr::ExecutableModel::print (C++ function) rr::ExecutableModel::reset (C++ function), [1] rr::ExecutableModel::resetEvents (C++ function) rr::ExecutableModel::saveState (C++ function) rr::ExecutableModel::setBoundarySpeciesAmounts (C++ function), [1] rr::ExecutableModel::setBoundarySpeciesConcentrations (C++ function) rr::ExecutableModel::setBoundarySpeciesInitAmounts (C++ function) rr::ExecutableModel::setBoundarySpeciesInitConcentrations (C++ function) rr::ExecutableModel::setCompartmentInitVolumes (C++ function) rr::ExecutableModel::setCompartmentVolumes (C++ function), [1] rr::ExecutableModel::setConservedMoietyValues (C++ function) rr::ExecutableModel::setEventListener (C++ function) rr::ExecutableModel::setFlags (C++ function) rr::ExecutableModel::setFloatingSpeciesAmounts (C++ function), [1] rr::ExecutableModel::setFloatingSpeciesConcentrations (C++ function) rr::ExecutableModel::setFloatingSpeciesInitAmounts (C++ function) rr::ExecutableModel::setFloatingSpeciesInitConcentrations (C++ function) rr::ExecutableModel::setGlobalParameterInitValues (C++ function) rr::ExecutableModel::setGlobalParameterValues (C++ function), [1] rr::ExecutableModel::setIntegration (C++ function) rr::ExecutableModel::setIntegrationStartTime (C++ function) rr::ExecutableModel::setRandomSeed (C++ function) rr::ExecutableModel::setStateVector (C++ function) rr::ExecutableModel::setStoichiometries (C++ function), [1] rr::ExecutableModel::setStoichiometry (C++ function), [1] rr::ExecutableModel::setTime (C++ function) rr::ExecutableModel::setValue (C++ function) rr::ExecutableModel::testConstraints (C++ function) rr::ExecutableModel::~ExecutableModel (C++ function) rr::ExecutableModelFactory (C++ class) rr::ExecutableModelFactory::createModel (C++ function), [1] rr::ExecutableModelFactory::regenerateModel (C++ function) rr::GillespieIntegrator (C++ class) rr::GillespieIntegrator::applyEvents (C++ function) rr::GillespieIntegrator::construct (C++ function) rr::GillespieIntegrator::engine (C++ member) rr::GillespieIntegrator::eventStatus (C++ member) rr::GillespieIntegrator::floatingSpeciesStart (C++ member) rr::GillespieIntegrator::getDescription (C++ function) rr::GillespieIntegrator::getHint (C++ function) rr::GillespieIntegrator::getIntegrationMethod (C++ function) rr::GillespieIntegrator::getListener (C++ function) rr::GillespieIntegrator::getName (C++ function) rr::GillespieIntegrator::getStoich (C++ function) rr::GillespieIntegrator::GillespieIntegrator (C++ function) rr::GillespieIntegrator::initializeFromModel (C++ function) rr::GillespieIntegrator::integrate (C++ function) rr::GillespieIntegrator::Integrator (C++ function), [1] rr::GillespieIntegrator::nReactions (C++ member) rr::GillespieIntegrator::previousEventStatus (C++ member) rr::GillespieIntegrator::reactionRates (C++ member) rr::GillespieIntegrator::reactionRatesBuffer (C++ member) rr::GillespieIntegrator::resetSettings (C++ function) rr::GillespieIntegrator::restart (C++ function) rr::GillespieIntegrator::setEngineSeed (C++ function) rr::GillespieIntegrator::setListener (C++ function) rr::GillespieIntegrator::setValue (C++ function) rr::GillespieIntegrator::stateVector (C++ member) rr::GillespieIntegrator::stateVectorRate (C++ member) rr::GillespieIntegrator::stateVectorSize (C++ member) rr::GillespieIntegrator::stoichScale (C++ member) rr::GillespieIntegrator::syncWithModel (C++ function) rr::GillespieIntegrator::testRootsAtInitialTime (C++ function) rr::GillespieIntegrator::timeScale (C++ member) rr::GillespieIntegrator::urand (C++ function) rr::GillespieIntegrator::~GillespieIntegrator (C++ function) rr::Integrator (C++ class) rr::Integrator::getAbsoluteToleranceVector (C++ function) rr::Integrator::getIntegrationMethod (C++ function) rr::Integrator::getListener (C++ function) rr::Integrator::integrate (C++ function) rr::Integrator::IntegrationMethod (C++ enum) rr::Integrator::IntegrationMethod::Deterministic (C++ enumerator) rr::Integrator::IntegrationMethod::Hybrid (C++ enumerator) rr::Integrator::IntegrationMethod::Other (C++ enumerator) rr::Integrator::IntegrationMethod::Stochastic (C++ enumerator) rr::Integrator::Integrator (C++ function), [1] rr::Integrator::loadConfigSettings (C++ function) rr::Integrator::loadSBMLSettings (C++ function) rr::Integrator::mIntegrationStartTime (C++ member) rr::Integrator::restart (C++ function) rr::Integrator::setIndividualTolerance (C++ function) rr::Integrator::setIntegrationStartTime (C++ function) rr::Integrator::setListener (C++ function) rr::Integrator::setValue (C++ function) rr::Integrator::Solver (C++ function), [1] rr::Integrator::syncWithModel (C++ function) rr::Integrator::toRepr (C++ function) rr::Integrator::toString (C++ function) rr::Integrator::tweakTolerances (C++ function) rr::Integrator::~Integrator (C++ function) rr::IntegratorFactory (C++ class) rr::IntegratorFactory::getInstance (C++ function) rr::IntegratorFactory::Register (C++ function) rr::LoadSBMLOptions (C++ class) rr::LoadSBMLOptions::defaultInit (C++ function) rr::LoadSBMLOptions::deleteItem (C++ function) rr::LoadSBMLOptions::getAllLLJitOptimizationValues (C++ function) rr::LoadSBMLOptions::getAllLLVMBackendValues (C++ function) rr::LoadSBMLOptions::getConservedMoietyConversion (C++ function) rr::LoadSBMLOptions::getItem (C++ function) rr::LoadSBMLOptions::getKeys (C++ function) rr::LoadSBMLOptions::hasKey (C++ function) rr::LoadSBMLOptions::LLJIT_OPTIMIZATION_LEVELS (C++ enum) rr::LoadSBMLOptions::LLJIT_OPTIMIZATION_LEVELS::AGGRESSIVE (C++ enumerator) rr::LoadSBMLOptions::LLJIT_OPTIMIZATION_LEVELS::DEFAULT (C++ enumerator) rr::LoadSBMLOptions::LLJIT_OPTIMIZATION_LEVELS::LESS (C++ enumerator) rr::LoadSBMLOptions::LLJIT_OPTIMIZATION_LEVELS::NONE (C++ enumerator) rr::LoadSBMLOptions::LLVM_BACKEND_VALUES (C++ enum) rr::LoadSBMLOptions::LLVM_BACKEND_VALUES::LLJIT (C++ enumerator) rr::LoadSBMLOptions::LLVM_BACKEND_VALUES::MCJIT (C++ enumerator) rr::LoadSBMLOptions::loadFlags (C++ member) rr::LoadSBMLOptions::LoadOpt (C++ enum) rr::LoadSBMLOptions::LoadOpt::NO_DEFAULT_SELECTIONS (C++ enumerator) rr::LoadSBMLOptions::LoadOpt::NO_DEFAULT_STEADY_STATE_SELECTIONS (C++ enumerator) rr::LoadSBMLOptions::LoadSBMLOptions (C++ function), [1] rr::LoadSBMLOptions::ModelGeneratorOpt (C++ enum) rr::LoadSBMLOptions::modelGeneratorOpt (C++ member) rr::LoadSBMLOptions::ModelGeneratorOpt::CONSERVED_MOIETIES (C++ enumerator) rr::LoadSBMLOptions::ModelGeneratorOpt::LLVM_SYMBOL_CACHE (C++ enumerator) rr::LoadSBMLOptions::ModelGeneratorOpt::MUTABLE_INITIAL_CONDITIONS (C++ enumerator) rr::LoadSBMLOptions::ModelGeneratorOpt::OPTIMIZE (C++ enumerator) rr::LoadSBMLOptions::ModelGeneratorOpt::OPTIMIZE_CFG_SIMPLIFICATION (C++ enumerator) rr::LoadSBMLOptions::ModelGeneratorOpt::OPTIMIZE_DEAD_CODE_ELIMINATION (C++ enumerator) rr::LoadSBMLOptions::ModelGeneratorOpt::OPTIMIZE_DEAD_INST_ELIMINATION (C++ enumerator) rr::LoadSBMLOptions::ModelGeneratorOpt::OPTIMIZE_GVN (C++ enumerator) rr::LoadSBMLOptions::ModelGeneratorOpt::OPTIMIZE_INSTRUCTION_COMBINING (C++ enumerator) rr::LoadSBMLOptions::ModelGeneratorOpt::OPTIMIZE_INSTRUCTION_SIMPLIFIER (C++ enumerator) rr::LoadSBMLOptions::ModelGeneratorOpt::READ_ONLY (C++ enumerator) rr::LoadSBMLOptions::ModelGeneratorOpt::RECOMPILE (C++ enumerator) rr::LoadSBMLOptions::ModelGeneratorOpt::TURN_ON_VALIDATION (C++ enumerator) rr::LoadSBMLOptions::ModelGeneratorOpt::USE_MCJIT (C++ enumerator) rr::LoadSBMLOptions::setConservedMoietyConversion (C++ function) rr::LoadSBMLOptions::setItem (C++ function) rr::LoadSBMLOptions::setLLJitOptimizationLevel (C++ function) rr::LoadSBMLOptions::setLLVMBackend (C++ function) rr::LoadSBMLOptions::setValidation (C++ function) rr::LoadSBMLOptions::size (C++ member) rr::LoadSBMLOptions::version (C++ member) rr::LoadSBMLOptions::~LoadSBMLOptions (C++ function) rr::Logger (C++ class) rr::Logger::disableConsoleLogging (C++ function) rr::Logger::disableFileLogging (C++ function) rr::Logger::disableLogging (C++ function) rr::Logger::enableConsoleLogging (C++ function) rr::Logger::enableFileLogging (C++ function) rr::Logger::getColoredOutput (C++ function) rr::Logger::getCurrentLevelAsString (C++ function) rr::Logger::getFileName (C++ function) rr::Logger::getFormattingPattern (C++ function) rr::Logger::getLevel (C++ function) rr::Logger::Level (C++ enum) rr::Logger::Level::LOG_CRITICAL (C++ enumerator) rr::Logger::Level::LOG_CURRENT (C++ enumerator) rr::Logger::Level::LOG_DEBUG (C++ enumerator) rr::Logger::Level::LOG_ERROR (C++ enumerator) rr::Logger::Level::LOG_FATAL (C++ enumerator) rr::Logger::Level::LOG_INFORMATION (C++ enumerator) rr::Logger::Level::LOG_NOTICE (C++ enumerator) rr::Logger::Level::LOG_TRACE (C++ enumerator) rr::Logger::Level::LOG_WARNING (C++ enumerator) rr::Logger::levelToString (C++ function) rr::Logger::log (C++ function) rr::Logger::setColoredOutput (C++ function) rr::Logger::setConsoleStream (C++ function) rr::Logger::setFormattingPattern (C++ function) rr::Logger::setLevel (C++ function) rr::Logger::setProperty (C++ function) rr::Logger::stringToLevel (C++ function) rr::RK45Integrator (C++ class) rr::RK45Integrator::applyEvents (C++ function) rr::RK45Integrator::construct (C++ function) rr::RK45Integrator::err (C++ member) rr::RK45Integrator::getDescription (C++ function) rr::RK45Integrator::getHint (C++ function) rr::RK45Integrator::getIntegrationMethod (C++ function) rr::RK45Integrator::getListener (C++ function) rr::RK45Integrator::getName (C++ function) rr::RK45Integrator::getRK45Description (C++ function) rr::RK45Integrator::getRK45Hint (C++ function) rr::RK45Integrator::getRK45Name (C++ function) rr::RK45Integrator::getValue (C++ function) rr::RK45Integrator::hCurrent (C++ member) rr::RK45Integrator::hmax (C++ member) rr::RK45Integrator::hmin (C++ member) rr::RK45Integrator::integrate (C++ function) rr::RK45Integrator::Integrator (C++ function), [1] rr::RK45Integrator::k1 (C++ member) rr::RK45Integrator::k2 (C++ member) rr::RK45Integrator::k3 (C++ member) rr::RK45Integrator::k4 (C++ member) rr::RK45Integrator::k5 (C++ member) rr::RK45Integrator::k6 (C++ member) rr::RK45Integrator::resetSettings (C++ function) rr::RK45Integrator::restart (C++ function) rr::RK45Integrator::RK45Integrator (C++ function) rr::RK45Integrator::setListener (C++ function) rr::RK45Integrator::stateVectorSize (C++ member) rr::RK45Integrator::syncWithModel (C++ function) rr::RK45Integrator::testRootsAtInitialTime (C++ function) rr::RK45Integrator::y (C++ member) rr::RK45Integrator::ytmp (C++ member) rr::RK45Integrator::~RK45Integrator (C++ function) rr::RK4Integrator (C++ class) rr::RK4Integrator::applyEvents (C++ function) rr::RK4Integrator::construct (C++ function) rr::RK4Integrator::getDescription (C++ function) rr::RK4Integrator::getHint (C++ function) rr::RK4Integrator::getIntegrationMethod (C++ function) rr::RK4Integrator::getListener (C++ function) rr::RK4Integrator::getName (C++ function) rr::RK4Integrator::getValue (C++ function) rr::RK4Integrator::integrate (C++ function) rr::RK4Integrator::Integrator (C++ function), [1] rr::RK4Integrator::k1 (C++ member) rr::RK4Integrator::k2 (C++ member) rr::RK4Integrator::k3 (C++ member) rr::RK4Integrator::k4 (C++ member) rr::RK4Integrator::resetSettings (C++ function) rr::RK4Integrator::restart (C++ function) rr::RK4Integrator::RK4Integrator (C++ function) rr::RK4Integrator::setListener (C++ function) rr::RK4Integrator::stateVectorSize (C++ member) rr::RK4Integrator::syncWithModel (C++ function) rr::RK4Integrator::testRootsAtInitialTime (C++ function) rr::RK4Integrator::y (C++ member) rr::RK4Integrator::ytmp (C++ member) rr::RK4Integrator::~RK4Integrator (C++ function) rr::RoadRunner (C++ class) rr::RoadRunner::addAssignmentRule (C++ function) rr::RoadRunner::addCompartment (C++ function) rr::RoadRunner::addDelay (C++ function) rr::RoadRunner::addEvent (C++ function) rr::RoadRunner::addEventAssignment (C++ function) rr::RoadRunner::addInitialAssignment (C++ function) rr::RoadRunner::addParameter (C++ function) rr::RoadRunner::addPriority (C++ function) rr::RoadRunner::addRateRule (C++ function) rr::RoadRunner::addReaction (C++ function), [1] rr::RoadRunner::addSpeciesAmount (C++ function) rr::RoadRunner::addSpeciesConcentration (C++ function) rr::RoadRunner::addTrigger (C++ function) rr::RoadRunner::applySimulateOptions (C++ function) rr::RoadRunner::changeInitialConditions (C++ function) rr::RoadRunner::checkID (C++ function) rr::RoadRunner::clearModel (C++ function) rr::RoadRunner::createDefaultSelectionLists (C++ function) rr::RoadRunner::createDefaultSteadyStateSelectionList (C++ function) rr::RoadRunner::createDefaultTimeCourseSelectionList (C++ function) rr::RoadRunner::createSelection (C++ function) rr::RoadRunner::createTimeCourseSelectionList (C++ function) rr::RoadRunner::dataVersionNumber (C++ member) rr::RoadRunner::evalModel (C++ function) rr::RoadRunner::fileMagicNumber (C++ member) rr::RoadRunner::fixDependentSpeciesValues (C++ function) rr::RoadRunner::getAllVariables (C++ function) rr::RoadRunner::getAssignmentRuleIds (C++ function) rr::RoadRunner::getBoundarySpeciesAmountsNamedArray (C++ function) rr::RoadRunner::getBoundarySpeciesAmountsV (C++ function) rr::RoadRunner::getBoundarySpeciesByIndex (C++ function) rr::RoadRunner::getBoundarySpeciesConcentrationIds (C++ function) rr::RoadRunner::getBoundarySpeciesConcentrationsNamedArray (C++ function) rr::RoadRunner::getBoundarySpeciesConcentrationsV (C++ function) rr::RoadRunner::getBoundarySpeciesIds (C++ function) rr::RoadRunner::getCC (C++ function) rr::RoadRunner::getCompartmentByIndex (C++ function) rr::RoadRunner::getCompartmentIds (C++ function) rr::RoadRunner::getCompiler (C++ function) rr::RoadRunner::getConservationMatrix (C++ function) rr::RoadRunner::getConservedMoietyAnalysis (C++ function) rr::RoadRunner::getConservedMoietyIds (C++ function) rr::RoadRunner::getConservedMoietyValues (C++ function) rr::RoadRunner::getCurrentSBML (C++ function) rr::RoadRunner::getCurrentTime (C++ function) rr::RoadRunner::getDependentFloatingSpeciesAmountsNamedArray (C++ function) rr::RoadRunner::getDependentFloatingSpeciesAmountsV (C++ function) rr::RoadRunner::getDependentFloatingSpeciesConcentrationsNamedArray (C++ function) rr::RoadRunner::getDependentFloatingSpeciesConcentrationsV (C++ function) rr::RoadRunner::getDependentFloatingSpeciesIds (C++ function) rr::RoadRunner::getDependentRatesOfChange (C++ function) rr::RoadRunner::getDependentRatesOfChangeNamedArray (C++ function) rr::RoadRunner::getDiffStepSize (C++ function) rr::RoadRunner::getEE (C++ function), [1] rr::RoadRunner::getEigenValueIds (C++ function) rr::RoadRunner::getEigenValues (C++ function) rr::RoadRunner::getEigenValuesNamedArray (C++ function) rr::RoadRunner::getExistingIntegratorNames (C++ function) rr::RoadRunner::getExistingSensitivitySolverNames (C++ function) rr::RoadRunner::getExistingSteadyStateSolverNames (C++ function) rr::RoadRunner::getExtendedStoichiometryMatrix (C++ function) rr::RoadRunner::getExtendedVersionInfo (C++ function) rr::RoadRunner::getFloatingSpeciesAmountsNamedArray (C++ function) rr::RoadRunner::getFloatingSpeciesAmountsV (C++ function) rr::RoadRunner::getFloatingSpeciesByIndex (C++ function) rr::RoadRunner::getFloatingSpeciesConcentrationIds (C++ function) rr::RoadRunner::getFloatingSpeciesConcentrationsNamedArray (C++ function) rr::RoadRunner::getFloatingSpeciesConcentrationsV (C++ function) rr::RoadRunner::getFloatingSpeciesIds (C++ function) rr::RoadRunner::getFloatingSpeciesInitialConcentrationIds (C++ function) rr::RoadRunner::getFloatingSpeciesInitialConcentrations (C++ function) rr::RoadRunner::getFloatingSpeciesInitialConditionIds (C++ function) rr::RoadRunner::getFluxThreshold (C++ function) rr::RoadRunner::getFrequencyResponse (C++ function) rr::RoadRunner::getFullEigenValues (C++ function) rr::RoadRunner::getFullEigenValuesNamedArray (C++ function) rr::RoadRunner::getFullJacobian (C++ function) rr::RoadRunner::getFullReorderedJacobian (C++ function) rr::RoadRunner::getFullStoichiometryMatrix (C++ function) rr::RoadRunner::getGlobalParameterByIndex (C++ function) rr::RoadRunner::getGlobalParameterByName (C++ function) rr::RoadRunner::getGlobalParameterIds (C++ function) rr::RoadRunner::getGlobalParameterValues (C++ function) rr::RoadRunner::getHasOnlySubstanceUnits (C++ function) rr::RoadRunner::getIds (C++ function) rr::RoadRunner::getIndependentFloatingSpeciesAmountsNamedArray (C++ function) rr::RoadRunner::getIndependentFloatingSpeciesAmountsV (C++ function) rr::RoadRunner::getIndependentFloatingSpeciesConcentrationsNamedArray (C++ function) rr::RoadRunner::getIndependentFloatingSpeciesConcentrationsV (C++ function) rr::RoadRunner::getIndependentFloatingSpeciesIds (C++ function) rr::RoadRunner::getIndependentRatesOfChange (C++ function) rr::RoadRunner::getIndependentRatesOfChangeNamedArray (C++ function) rr::RoadRunner::getInfo (C++ function) rr::RoadRunner::getInitialAssignmentIds (C++ function) rr::RoadRunner::getInstanceCount (C++ function) rr::RoadRunner::getInstanceID (C++ function) rr::RoadRunner::getIntegrator (C++ function) rr::RoadRunner::getIntegratorByName (C++ function) rr::RoadRunner::getKineticLaw (C++ function) rr::RoadRunner::getKMatrix (C++ function) rr::RoadRunner::getL0Matrix (C++ function) rr::RoadRunner::getLibStruct (C++ function) rr::RoadRunner::getLinkMatrix (C++ function) rr::RoadRunner::getModel (C++ function) rr::RoadRunner::getModelId (C++ function) rr::RoadRunner::getModelName (C++ function) rr::RoadRunner::getNrMatrix (C++ function) rr::RoadRunner::getNthSelectedOutput (C++ function) rr::RoadRunner::getNumberOfBoundarySpecies (C++ function) rr::RoadRunner::getNumberOfCompartments (C++ function) rr::RoadRunner::getNumberOfDependentSpecies (C++ function) rr::RoadRunner::getNumberOfFloatingSpecies (C++ function) rr::RoadRunner::getNumberOfGlobalParameters (C++ function) rr::RoadRunner::getNumberOfIndependentSpecies (C++ function) rr::RoadRunner::getNumberOfReactions (C++ function) rr::RoadRunner::getOptions (C++ function) rr::RoadRunner::getParamPromotedSBML (C++ function) rr::RoadRunner::getRateOfChange (C++ function) rr::RoadRunner::getRateOfChangeIds (C++ function) rr::RoadRunner::getRateRuleIds (C++ function) rr::RoadRunner::getRatesOfChange (C++ function) rr::RoadRunner::getRatesOfChangeNamedArray (C++ function) rr::RoadRunner::getReactionIds (C++ function) rr::RoadRunner::getReactionRate (C++ function) rr::RoadRunner::getReactionRates (C++ function) rr::RoadRunner::getReducedEigenValues (C++ function) rr::RoadRunner::getReducedEigenValuesNamedArray (C++ function) rr::RoadRunner::getReducedJacobian (C++ function) rr::RoadRunner::getReducedStoichiometryMatrix (C++ function) rr::RoadRunner::getRegisteredIntegratorNames (C++ function) rr::RoadRunner::getRegisteredSensitivitySolverNames (C++ function) rr::RoadRunner::getRegisteredSteadyStateSolverNames (C++ function) rr::RoadRunner::getSBML (C++ function) rr::RoadRunner::getScaledConcentrationControlCoefficientMatrix (C++ function) rr::RoadRunner::getScaledElasticityMatrix (C++ function) rr::RoadRunner::getScaledFloatingSpeciesElasticity (C++ function) rr::RoadRunner::getScaledFluxControlCoefficientMatrix (C++ function) rr::RoadRunner::getSeed (C++ function) rr::RoadRunner::getSelectedValues (C++ function), [1], [2] rr::RoadRunner::getSelectionList (C++ function) rr::RoadRunner::getSelections (C++ function) rr::RoadRunner::getSensitivitySolver (C++ function) rr::RoadRunner::getSensitivitySolverByName (C++ function) rr::RoadRunner::getSimulateOptions (C++ function) rr::RoadRunner::getSimulationData (C++ function) rr::RoadRunner::getSpeciesIdsFromAST (C++ function), [1] rr::RoadRunner::getSteadyStateSelections (C++ function) rr::RoadRunner::getSteadyStateSelectionStrings (C++ function) rr::RoadRunner::getSteadyStateSolver (C++ function) rr::RoadRunner::getSteadyStateSolverByName (C++ function) rr::RoadRunner::getSteadyStateThreshold (C++ function) rr::RoadRunner::getSteadyStateValues (C++ function) rr::RoadRunner::getSteadyStateValuesNamedArray (C++ function) rr::RoadRunner::getSupportedIdTypes (C++ function) rr::RoadRunner::getTimeRowIndex (C++ function) rr::RoadRunner::getuCC (C++ function) rr::RoadRunner::getuEE (C++ function), [1] rr::RoadRunner::getUnscaledConcentrationControlCoefficientMatrix (C++ function) rr::RoadRunner::getUnscaledElasticityMatrix (C++ function) rr::RoadRunner::getUnscaledFluxControlCoefficientMatrix (C++ function) rr::RoadRunner::getUnscaledParameterElasticity (C++ function) rr::RoadRunner::getUnscaledSpeciesElasticity (C++ function) rr::RoadRunner::getValue (C++ function), [1] rr::RoadRunner::getVariableValue (C++ function) rr::RoadRunner::hasVariable (C++ function) rr::RoadRunner::impl (C++ member) rr::RoadRunner::initLLVM (C++ function) rr::RoadRunner::integratorExists (C++ function) rr::RoadRunner::internalOneStep (C++ function) rr::RoadRunner::isModelLoaded (C++ function) rr::RoadRunner::isParameterUsed (C++ function) rr::RoadRunner::JacobianMode (C++ enum) rr::RoadRunner::JacobianMode::JACOBIAN_FULL (C++ enumerator) rr::RoadRunner::JacobianMode::JACOBIAN_REDUCED (C++ enumerator) rr::RoadRunner::llvmInitialized (C++ member) rr::RoadRunner::load (C++ function) rr::RoadRunner::loadSelectionVector (C++ function) rr::RoadRunner::loadState (C++ function) rr::RoadRunner::loadStateS (C++ function) rr::RoadRunner::makeIntegrator (C++ function) rr::RoadRunner::makeSensitivitySolver (C++ function) rr::RoadRunner::makeSteadyStateSolver (C++ function) rr::RoadRunner::mcaSteadyState (C++ function) rr::RoadRunner::oneStep (C++ function) rr::RoadRunner::operator= (C++ function) rr::RoadRunner::parseSpecies (C++ function) rr::RoadRunner::populateResult (C++ function) rr::RoadRunner::regenerateModel (C++ function) rr::RoadRunner::registerSolvers (C++ function) rr::RoadRunner::removeCompartment (C++ function) rr::RoadRunner::removeEvent (C++ function) rr::RoadRunner::removeEventAssignments (C++ function) rr::RoadRunner::removeInitialAssignment (C++ function) rr::RoadRunner::removeParameter (C++ function) rr::RoadRunner::removeReaction (C++ function) rr::RoadRunner::removeRules (C++ function) rr::RoadRunner::removeSpecies (C++ function) rr::RoadRunner::removeVariable (C++ function) rr::RoadRunner::reset (C++ function), [1] rr::RoadRunner::resetSeed (C++ function) rr::RoadRunner::resetSelectionLists (C++ function) rr::RoadRunner::RoadRunner (C++ function), [1], [2], [3] rr::RoadRunner::saveSelectionVector (C++ function) rr::RoadRunner::saveState (C++ function) rr::RoadRunner::saveStateS (C++ function) rr::RoadRunner::sensitivitySolverExists (C++ function) rr::RoadRunner::setBoundary (C++ function) rr::RoadRunner::setBoundarySpeciesAmounts (C++ function) rr::RoadRunner::setBoundarySpeciesByIndex (C++ function) rr::RoadRunner::setBoundarySpeciesConcentrations (C++ function) rr::RoadRunner::setCompartmentByIndex (C++ function) rr::RoadRunner::setCompiler (C++ function) rr::RoadRunner::setConservedMoietyAnalysis (C++ function) rr::RoadRunner::setConstant (C++ function) rr::RoadRunner::setDiffStepSize (C++ function) rr::RoadRunner::setFloatingSpeciesByIndex (C++ function) rr::RoadRunner::setFloatingSpeciesConcentrations (C++ function) rr::RoadRunner::setFloatingSpeciesInitialConcentrationByIndex (C++ function) rr::RoadRunner::setFloatingSpeciesInitialConcentrations (C++ function) rr::RoadRunner::setFluxThreshold (C++ function) rr::RoadRunner::setGlobalParameterByIndex (C++ function) rr::RoadRunner::setGlobalParameterByName (C++ function) rr::RoadRunner::setHasOnlySubstanceUnits (C++ function) rr::RoadRunner::setInitAmount (C++ function) rr::RoadRunner::setInitConcentration (C++ function) rr::RoadRunner::setIntegrator (C++ function) rr::RoadRunner::setKineticLaw (C++ function) rr::RoadRunner::setModelId (C++ function) rr::RoadRunner::setModelName (C++ function) rr::RoadRunner::setOptions (C++ function) rr::RoadRunner::setPersistent (C++ function) rr::RoadRunner::setReversible (C++ function) rr::RoadRunner::setSeed (C++ function) rr::RoadRunner::setSelections (C++ function), [1] rr::RoadRunner::setSensitivitySolver (C++ function) rr::RoadRunner::setSimulateOptions (C++ function) rr::RoadRunner::setSteadyStateSelections (C++ function), [1] rr::RoadRunner::setSteadyStateSolver (C++ function) rr::RoadRunner::setSteadyStateThreshold (C++ function) rr::RoadRunner::setTriggerInitialValue (C++ function) rr::RoadRunner::setValue (C++ function) rr::RoadRunner::simulate (C++ function), [1], [2] rr::RoadRunner::solversRegistered (C++ member) rr::RoadRunner::steadyState (C++ function) rr::RoadRunner::steadyStateNamedArray (C++ function) rr::RoadRunner::steadyStateSolverExists (C++ function) rr::RoadRunner::timeSeriesSensitivities (C++ function) rr::RoadRunner::validateCurrentSBML (C++ function) rr::RoadRunner::VariableType (C++ enum) rr::RoadRunner::VariableType::vtFlux (C++ enumerator) rr::RoadRunner::VariableType::vtSpecies (C++ enumerator) rr::RoadRunner::~RoadRunner (C++ function) rr::RoadRunnerData (C++ class) rr::RoadRunnerData::allocate (C++ function) rr::RoadRunnerData::allocateWeights (C++ function) rr::RoadRunnerData::append (C++ function) rr::RoadRunnerData::check (C++ function) rr::RoadRunnerData::clear (C++ function) rr::RoadRunnerData::cSize (C++ function) rr::RoadRunnerData::dimension (C++ function) rr::RoadRunnerData::getColumnIndex (C++ function) rr::RoadRunnerData::getColumnName (C++ function) rr::RoadRunnerData::getColumnNames (C++ function) rr::RoadRunnerData::getColumnNamesAsString (C++ function) rr::RoadRunnerData::getData (C++ function) rr::RoadRunnerData::getDataElement (C++ function) rr::RoadRunnerData::getName (C++ function) rr::RoadRunnerData::getTimeEnd (C++ function) rr::RoadRunnerData::getTimeStart (C++ function) rr::RoadRunnerData::getWeight (C++ function) rr::RoadRunnerData::getWeights (C++ function) rr::RoadRunnerData::hasWeights (C++ function) rr::RoadRunnerData::loadSimpleFormat (C++ function) rr::RoadRunnerData::mColumnNames (C++ member) rr::RoadRunnerData::mDataPrecision (C++ member) rr::RoadRunnerData::mName (C++ member) rr::RoadRunnerData::mTheData (C++ member) rr::RoadRunnerData::mTimePrecision (C++ member) rr::RoadRunnerData::mWeights (C++ member) rr::RoadRunnerData::operator() (C++ function), [1] rr::RoadRunnerData::operator= (C++ function) rr::RoadRunnerData::readFrom (C++ function) rr::RoadRunnerData::reSize (C++ function) rr::RoadRunnerData::RoadRunnerData (C++ function), [1], [2] rr::RoadRunnerData::rSize (C++ function) rr::RoadRunnerData::setColumnNames (C++ function) rr::RoadRunnerData::setData (C++ function) rr::RoadRunnerData::setDataElement (C++ function) rr::RoadRunnerData::setDataPrecision (C++ function) rr::RoadRunnerData::setName (C++ function) rr::RoadRunnerData::setTimeDataPrecision (C++ function) rr::RoadRunnerData::setWeight (C++ function) rr::RoadRunnerData::structuredResult (C++ member) rr::RoadRunnerData::writeOnlyData (C++ function) rr::RoadRunnerData::writeTo (C++ function) rr::RoadRunnerData::writeWeights (C++ function) rr::RoadRunnerData::~RoadRunnerData (C++ function) rr::RoadRunnerMap (C++ class) rr::RoadRunnerMap::at (C++ function), [1] rr::RoadRunnerMap::begin (C++ function), [1] rr::RoadRunnerMap::clear (C++ function) rr::RoadRunnerMap::count (C++ function) rr::RoadRunnerMap::empty (C++ function) rr::RoadRunnerMap::end (C++ function), [1] rr::RoadRunnerMap::erase (C++ function) rr::RoadRunnerMap::find (C++ function), [1] rr::RoadRunnerMap::getItems (C++ function) rr::RoadRunnerMap::getKeys (C++ function) rr::RoadRunnerMap::getNumThreads (C++ function) rr::RoadRunnerMap::getValues (C++ function) rr::RoadRunnerMap::insert (C++ function), [1], [2], [3], [4] rr::RoadRunnerMap::loadParallel (C++ function)

rr::RoadRunnerMap::loadSerial (C++ function) rr::RoadRunnerMap::numThreads_ (C++ member) rr::RoadRunnerMap::operator[] (C++ function) rr::RoadRunnerMap::pool (C++ member) rr::RoadRunnerMap::RoadRunnerMap (C++ function), [1] rr::RoadRunnerMap::rrMap_ (C++ member) rr::RoadRunnerMap::setNumThreads (C++ function) rr::RoadRunnerMap::size (C++ function) rr::RoadRunnerMap::wait_for_tasks (C++ function) rr::SBMLReader (C++ class) rr::SBMLReader::is_sbml (C++ function) rr::SBMLReader::read (C++ function) rr::SelectionRecord (C++ class) rr::SelectionRecord::index (C++ member) rr::SelectionRecord::p1 (C++ member) rr::SelectionRecord::p2 (C++ member) rr::SelectionRecord::SelectionRecord (C++ function), [1] rr::SelectionRecord::SelectionType (C++ enum) rr::SelectionRecord::selectionType (C++ member) rr::SelectionRecord::SelectionType::_COMPARTMENT (C++ enumerator) rr::SelectionRecord::SelectionType::_GLOBAL_PARAMETER (C++ enumerator) rr::SelectionRecord::SelectionType::ALL (C++ enumerator) rr::SelectionRecord::SelectionType::ALL_DEPENDENT (C++ enumerator) rr::SelectionRecord::SelectionType::ALL_DEPENDENT_AMOUNT (C++ enumerator) rr::SelectionRecord::SelectionType::ALL_DEPENDENT_CONCENTRATION (C++ enumerator) rr::SelectionRecord::SelectionType::ALL_INDEPENDENT (C++ enumerator) rr::SelectionRecord::SelectionType::ALL_INDEPENDENT_AMOUNT (C++ enumerator) rr::SelectionRecord::SelectionType::ALL_INDEPENDENT_CONCENTRATION (C++ enumerator) rr::SelectionRecord::SelectionType::AMOUNT (C++ enumerator) rr::SelectionRecord::SelectionType::BOUNDARY (C++ enumerator) rr::SelectionRecord::SelectionType::BOUNDARY_AMOUNT (C++ enumerator) rr::SelectionRecord::SelectionType::BOUNDARY_AMOUNT_RATE (C++ enumerator) rr::SelectionRecord::SelectionType::BOUNDARY_CONCENTRATION (C++ enumerator) rr::SelectionRecord::SelectionType::BOUNDARY_CONCENTRATION_RATE (C++ enumerator) rr::SelectionRecord::SelectionType::COMPARTMENT (C++ enumerator) rr::SelectionRecord::SelectionType::COMPARTMENT_RATE (C++ enumerator) rr::SelectionRecord::SelectionType::CONCENTRATION (C++ enumerator) rr::SelectionRecord::SelectionType::CONSERVED_MOIETY (C++ enumerator) rr::SelectionRecord::SelectionType::CONTROL (C++ enumerator) rr::SelectionRecord::SelectionType::CURRENT (C++ enumerator) rr::SelectionRecord::SelectionType::DEPENDENT (C++ enumerator) rr::SelectionRecord::SelectionType::DEPENDENT_BOUNDARY_AMOUNT (C++ enumerator) rr::SelectionRecord::SelectionType::DEPENDENT_FLOATING_AMOUNT (C++ enumerator) rr::SelectionRecord::SelectionType::DEPENDENT_INITIAL_GLOBAL_PARAMETER (C++ enumerator) rr::SelectionRecord::SelectionType::EIGENVALUE_COMPLEX (C++ enumerator) rr::SelectionRecord::SelectionType::EIGENVALUE_IMAG (C++ enumerator) rr::SelectionRecord::SelectionType::EIGENVALUE_REAL (C++ enumerator) rr::SelectionRecord::SelectionType::ELASTICITY (C++ enumerator) rr::SelectionRecord::SelectionType::ELEMENT (C++ enumerator) rr::SelectionRecord::SelectionType::EVENT (C++ enumerator) rr::SelectionRecord::SelectionType::FLOATING (C++ enumerator) rr::SelectionRecord::SelectionType::FLOATING_AMOUNT (C++ enumerator) rr::SelectionRecord::SelectionType::FLOATING_AMOUNT_RATE (C++ enumerator) rr::SelectionRecord::SelectionType::FLOATING_CONCENTRATION (C++ enumerator) rr::SelectionRecord::SelectionType::FLOATING_CONCENTRATION_RATE (C++ enumerator) rr::SelectionRecord::SelectionType::GLOBAL_PARAMETER (C++ enumerator) rr::SelectionRecord::SelectionType::GLOBAL_PARAMETER_RATE (C++ enumerator) rr::SelectionRecord::SelectionType::INDEPENDENT (C++ enumerator) rr::SelectionRecord::SelectionType::INDEPENDENT_BOUNDARY_AMOUNT (C++ enumerator) rr::SelectionRecord::SelectionType::INDEPENDENT_FLOATING_AMOUNT (C++ enumerator) rr::SelectionRecord::SelectionType::INITIAL (C++ enumerator) rr::SelectionRecord::SelectionType::INITIAL_AMOUNT (C++ enumerator) rr::SelectionRecord::SelectionType::INITIAL_BOUNDARY_AMOUNT (C++ enumerator) rr::SelectionRecord::SelectionType::INITIAL_BOUNDARY_CONCENTRATION (C++ enumerator) rr::SelectionRecord::SelectionType::INITIAL_COMPARTMENT (C++ enumerator) rr::SelectionRecord::SelectionType::INITIAL_CONCENTRATION (C++ enumerator) rr::SelectionRecord::SelectionType::INITIAL_FLOATING_AMOUNT (C++ enumerator) rr::SelectionRecord::SelectionType::INITIAL_FLOATING_CONCENTRATION (C++ enumerator) rr::SelectionRecord::SelectionType::INITIAL_GLOBAL_PARAMETER (C++ enumerator) rr::SelectionRecord::SelectionType::MODEL_STATE (C++ enumerator) rr::SelectionRecord::SelectionType::RATE (C++ enumerator) rr::SelectionRecord::SelectionType::REACTION (C++ enumerator) rr::SelectionRecord::SelectionType::REACTION_RATE (C++ enumerator) rr::SelectionRecord::SelectionType::SBML_INITIALIZE (C++ enumerator) rr::SelectionRecord::SelectionType::STATE_VECTOR (C++ enumerator) rr::SelectionRecord::SelectionType::STOICHIOMETRY (C++ enumerator) rr::SelectionRecord::SelectionType::TIME (C++ enumerator) rr::SelectionRecord::SelectionType::UNKNOWN (C++ enumerator) rr::SelectionRecord::SelectionType::UNKNOWN_CONCENTRATION (C++ enumerator) rr::SelectionRecord::SelectionType::UNKNOWN_ELEMENT (C++ enumerator) rr::SelectionRecord::SelectionType::UNSCALED (C++ enumerator) rr::SelectionRecord::SelectionType::UNSCALED_CONTROL (C++ enumerator) rr::SelectionRecord::SelectionType::UNSCALED_ELASTICITY (C++ enumerator) rr::SelectionRecord::to_repr (C++ function) rr::SelectionRecord::to_string (C++ function) rr::Solver (C++ class) rr::Solver::addSetting (C++ function) rr::Solver::DescriptionMap (C++ type) rr::Solver::descriptions (C++ member) rr::Solver::display_names_ (C++ member) rr::Solver::DisplayNameMap (C++ type) rr::Solver::getDescription (C++ function), [1] rr::Solver::getDisplayName (C++ function) rr::Solver::getHint (C++ function), [1] rr::Solver::getModel (C++ function) rr::Solver::getName (C++ function) rr::Solver::getNumParams (C++ function) rr::Solver::getParamDesc (C++ function) rr::Solver::getParamDisplayName (C++ function) rr::Solver::getParamHint (C++ function) rr::Solver::getParamName (C++ function) rr::Solver::getSettings (C++ function) rr::Solver::getSettingsMap (C++ function) rr::Solver::getSettingsRepr (C++ function) rr::Solver::getType (C++ function) rr::Solver::getValue (C++ function) rr::Solver::getValueAsString (C++ function) rr::Solver::hasValue (C++ function) rr::Solver::HintMap (C++ type) rr::Solver::hints (C++ member) rr::Solver::mModel (C++ member) rr::Solver::resetSettings (C++ function) rr::Solver::settings (C++ member) rr::Solver::SettingsList (C++ type) rr::Solver::SettingsMap (C++ type) rr::Solver::settingsPyDictRepr (C++ function) rr::Solver::setValue (C++ function) rr::Solver::Solver (C++ function), [1] rr::Solver::sorted_settings (C++ member) rr::Solver::syncWithModel (C++ function) rr::Solver::toRepr (C++ function) rr::Solver::toString (C++ function) rr::Solver::updateSettings (C++ function) rr::Solver::~Solver (C++ function) rr::SteadyStateSolver (C++ class) rr::SteadyStateSolver::loadConfigSettings (C++ function) rr::SteadyStateSolver::resetSettings (C++ function) rr::SteadyStateSolver::solve (C++ function) rr::SteadyStateSolver::Solver (C++ function), [1] rr::SteadyStateSolver::toRepr (C++ function) rr::SteadyStateSolver::toString (C++ function) rr::SteadyStateSolver::~SteadyStateSolver (C++ function) rr::SteadyStateSolverFactory (C++ class) rr::SteadyStateSolverFactory::getInstance (C++ function) rr::SteadyStateSolverFactory::Register (C++ function) rr::ValidateSBML (C++ enum) rr::ValidateSBML::VALIDATE_GENERAL (C++ enumerator) rr::ValidateSBML::VALIDATE_IDENTIFIER (C++ enumerator) rr::ValidateSBML::VALIDATE_MATHML (C++ enumerator) rr::ValidateSBML::VALIDATE_MODELING_PRACTICE (C++ enumerator) rr::ValidateSBML::VALIDATE_OVERDETERMINED (C++ enumerator) rr::ValidateSBML::VALIDATE_SBO (C++ enumerator) rr::ValidateSBML::VALIDATE_UNITS (C++ enumerator) rr::Variant (C++ class) rr::Variant::alloc (C++ function) rr::Variant::assign (C++ function) rr::Variant::convert (C++ function) rr::Variant::convert_to (C++ function) rr::Variant::isBool (C++ function) rr::Variant::isDoubleVector (C++ function) rr::Variant::isEmpty (C++ function) rr::Variant::isInteger (C++ function) rr::Variant::isNumeric (C++ function) rr::Variant::isSigned (C++ function) rr::Variant::isString (C++ function) rr::Variant::operator= (C++ function), [1] rr::Variant::parse (C++ function) rr::Variant::pythonRepr (C++ function) rr::Variant::self (C++ member) rr::Variant::toString (C++ function) rr::Variant::type (C++ function) rr::Variant::TypeId (C++ enum) rr::Variant::TypeId::BOOL (C++ enumerator) rr::Variant::TypeId::CHAR (C++ enumerator) rr::Variant::TypeId::DOUBLE (C++ enumerator) rr::Variant::TypeId::DOUBLEVECTOR (C++ enumerator) rr::Variant::TypeId::EMPTY (C++ enumerator) rr::Variant::TypeId::FLOAT (C++ enumerator) rr::Variant::TypeId::INT32 (C++ enumerator) rr::Variant::TypeId::INT64 (C++ enumerator) rr::Variant::TypeId::STRING (C++ enumerator) rr::Variant::TypeId::UCHAR (C++ enumerator) rr::Variant::TypeId::UINT32 (C++ enumerator) rr::Variant::TypeId::UINT64 (C++ enumerator) rr::Variant::typeInfo (C++ function) rr::Variant::Variant (C++ function), [1], [2], [3] rr::Variant::VARIANT_IMPLICIT_CONVERT (C++ function), [1], [2], [3], [4], [5], [6], [7], [8], [9], [10] rr::Variant::~Variant (C++ function) rrllvm::AssignmentRuleEvaluator (C++ class) rrllvm::AssignmentRuleEvaluator::AssignmentRuleEvaluator (C++ function) rrllvm::AssignmentRuleEvaluator::evaluate (C++ function) rrllvm::AssignmentRuleEvaluator::symbols (C++ member) rrllvm::AssignmentRuleEvaluator::visit (C++ function) rrllvm::ASTNodeCodeGen (C++ class) rrllvm::ASTNodeCodeGen::applyArithmeticCodeGen (C++ function) rrllvm::ASTNodeCodeGen::applyBinaryRelationalCodeGen (C++ function) rrllvm::ASTNodeCodeGen::applyLogicalCodeGen (C++ function) rrllvm::ASTNodeCodeGen::applyRelationalCodeGen (C++ function) rrllvm::ASTNodeCodeGen::applyScalarRelationalCodeGen (C++ function) rrllvm::ASTNodeCodeGen::ASTNodeCodeGen (C++ function) rrllvm::ASTNodeCodeGen::binaryExprCodeGen (C++ function) rrllvm::ASTNodeCodeGen::builder (C++ member) rrllvm::ASTNodeCodeGen::codeGen (C++ function) rrllvm::ASTNodeCodeGen::codeGenBoolean (C++ function) rrllvm::ASTNodeCodeGen::codeGenDouble (C++ function) rrllvm::ASTNodeCodeGen::ctx (C++ member) rrllvm::ASTNodeCodeGen::delayExprCodeGen (C++ function) rrllvm::ASTNodeCodeGen::distribCodeGen (C++ function) rrllvm::ASTNodeCodeGen::functionCallCodeGen (C++ function) rrllvm::ASTNodeCodeGen::getModule (C++ function) rrllvm::ASTNodeCodeGen::integerCodeGen (C++ function) rrllvm::ASTNodeCodeGen::intrinsicCallCodeGen (C++ function) rrllvm::ASTNodeCodeGen::minmaxCodeGen (C++ function) rrllvm::ASTNodeCodeGen::modelData (C++ member) rrllvm::ASTNodeCodeGen::nameExprCodeGen (C++ function) rrllvm::ASTNodeCodeGen::notImplemented (C++ function) rrllvm::ASTNodeCodeGen::piecewiseCodeGen (C++ function) rrllvm::ASTNodeCodeGen::rateOfCodeGen (C++ function) rrllvm::ASTNodeCodeGen::realExprCodeGen (C++ function) rrllvm::ASTNodeCodeGen::resolver (C++ member) rrllvm::ASTNodeCodeGen::scalar_mode_ (C++ member) rrllvm::ASTNodeCodeGen::toBoolean (C++ function) rrllvm::ASTNodeCodeGen::toDouble (C++ function) rrllvm::ASTNodeCodeGen::~ASTNodeCodeGen (C++ function) rrllvm::ASTNodeFactory (C++ class) rrllvm::ASTNodeFactory::ASTNodeFactory (C++ function), [1] rrllvm::ASTNodeFactory::create (C++ function), [1], [2] rrllvm::ASTNodeFactory::nodes (C++ member) rrllvm::ASTNodeFactory::operator= (C++ function) rrllvm::ASTNodeFactory::~ASTNodeFactory (C++ function) rrllvm::CodeGen (C++ class) rrllvm::CodeGen::codeGen (C++ function) rrllvm::CodeGen::~CodeGen (C++ function) rrllvm::CodeGenBase (C++ class) rrllvm::CodeGenBase::builder (C++ member) rrllvm::CodeGenBase::codeGen (C++ function) rrllvm::CodeGenBase::CodeGenBase (C++ function) rrllvm::CodeGenBase::codeGenHeader (C++ function) rrllvm::CodeGenBase::codeGenVoidModelDataHeader (C++ function) rrllvm::CodeGenBase::context (C++ member) rrllvm::CodeGenBase::createFunction (C++ function) rrllvm::CodeGenBase::dataSymbols (C++ member) rrllvm::CodeGenBase::function (C++ member) rrllvm::CodeGenBase::functionPassManager (C++ member) rrllvm::CodeGenBase::FunctionPtr (C++ type) rrllvm::CodeGenBase::model (C++ member) rrllvm::CodeGenBase::modelGenContext (C++ member) rrllvm::CodeGenBase::modelSymbols (C++ member) rrllvm::CodeGenBase::module (C++ member) rrllvm::CodeGenBase::options (C++ member) rrllvm::CodeGenBase::verifyFunction (C++ function) rrllvm::CodeGenBase::~CodeGenBase (C++ function) rrllvm::EvalConversionFactorCodeGen (C++ class) rrllvm::EvalConversionFactorCodeGen::codeGen (C++ function) rrllvm::EvalConversionFactorCodeGen::EvalConversionFactorCodeGen (C++ function) rrllvm::EvalConversionFactorCodeGen::FunctionName (C++ member) rrllvm::EvalConversionFactorCodeGen::~EvalConversionFactorCodeGen (C++ function) rrllvm::EvalInitialConditionsCodeGen (C++ class) rrllvm::EvalInitialConditionsCodeGen::codeGen (C++ function) rrllvm::EvalInitialConditionsCodeGen::codeGenCompartments (C++ function) rrllvm::EvalInitialConditionsCodeGen::codeGenGlobalParameters (C++ function) rrllvm::EvalInitialConditionsCodeGen::codeGenInitCompartments (C++ function) rrllvm::EvalInitialConditionsCodeGen::codeGenInitGlobalParameters (C++ function) rrllvm::EvalInitialConditionsCodeGen::codeGenInitSpecies (C++ function) rrllvm::EvalInitialConditionsCodeGen::codeGenSpecies (C++ function) rrllvm::EvalInitialConditionsCodeGen::codeGenStoichiometry (C++ function) rrllvm::EvalInitialConditionsCodeGen::EvalInitialConditionsCodeGen (C++ function) rrllvm::EvalInitialConditionsCodeGen::FunctionName (C++ member) rrllvm::EvalInitialConditionsCodeGen::FunctionPtr (C++ type) rrllvm::EvalInitialConditionsCodeGen::~EvalInitialConditionsCodeGen (C++ function) rrllvm::EvalRateRuleRatesCodeGen (C++ class) rrllvm::EvalRateRuleRatesCodeGen::codeGen (C++ function) rrllvm::EvalRateRuleRatesCodeGen::EvalRateRuleRatesCodeGen (C++ function) rrllvm::EvalRateRuleRatesCodeGen::FunctionName (C++ member) rrllvm::EvalRateRuleRatesCodeGen::FunctionPtr (C++ type) rrllvm::EvalRateRuleRatesCodeGen::~EvalRateRuleRatesCodeGen (C++ function) rrllvm::EvalReactionRatesCodeGen (C++ class) rrllvm::EvalReactionRatesCodeGen::codeGen (C++ function) rrllvm::EvalReactionRatesCodeGen::EvalReactionRatesCodeGen (C++ function) rrllvm::EvalReactionRatesCodeGen::FunctionName (C++ member) rrllvm::EvalReactionRatesCodeGen::FunctionPtr (C++ type) rrllvm::EvalReactionRatesCodeGen::~EvalReactionRatesCodeGen (C++ function) rrllvm::EvalVolatileStoichCodeGen (C++ class) rrllvm::EvalVolatileStoichCodeGen::codeGen (C++ function) rrllvm::EvalVolatileStoichCodeGen::EvalVolatileStoichCodeGen (C++ function) rrllvm::EvalVolatileStoichCodeGen::FunctionName (C++ member) rrllvm::EvalVolatileStoichCodeGen::isConstantASTNode (C++ function) rrllvm::EvalVolatileStoichCodeGen::isConstantSpeciesReference (C++ function) rrllvm::EvalVolatileStoichCodeGen::~EvalVolatileStoichCodeGen (C++ function) rrllvm::EventAssignCodeGen (C++ class) rrllvm::EventAssignCodeGen::EventAssignCodeGen (C++ function) rrllvm::EventAssignCodeGen::eventCodeGen (C++ function) rrllvm::EventAssignCodeGen::FunctionName (C++ member) rrllvm::EventAssignCodeGen::~EventAssignCodeGen (C++ function) rrllvm::EventCodeGenBase (C++ class) rrllvm::EventCodeGenBase::codeGen (C++ function) rrllvm::EventCodeGenBase::eventCodeGen (C++ function) rrllvm::EventCodeGenBase::EventCodeGenBase (C++ function) rrllvm::EventCodeGenBase::FunctionPtr (C++ type) rrllvm::EventCodeGenBase::~EventCodeGenBase (C++ function) rrllvm::EventQueue (C++ class) rrllvm::EventQueue::_Compare (C++ type) rrllvm::EventQueue::_Sequence (C++ type) rrllvm::EventQueue::applyEvents (C++ function) rrllvm::EventQueue::comp (C++ member) rrllvm::EventQueue::const_iterator (C++ type) rrllvm::EventQueue::const_reference (C++ type) rrllvm::EventQueue::eraseExpiredEvents (C++ function) rrllvm::EventQueue::getNextPendingEventTime (C++ function) rrllvm::EventQueue::hasCurrentEvents (C++ function) rrllvm::EventQueue::iterator (C++ type) rrllvm::EventQueue::loadState (C++ function) rrllvm::EventQueue::operator<< (C++ function) rrllvm::EventQueue::push (C++ function) rrllvm::EventQueue::saveState (C++ function) rrllvm::EventQueue::sequence (C++ member) rrllvm::EventQueue::size (C++ function) rrllvm::EventQueue::top (C++ function) rrllvm::EventTriggerCodeGen (C++ class) rrllvm::EventTriggerCodeGen::eventCodeGen (C++ function) rrllvm::EventTriggerCodeGen::EventTriggerCodeGen (C++ function) rrllvm::EventTriggerCodeGen::FunctionName (C++ member) rrllvm::EventTriggerCodeGen::~EventTriggerCodeGen (C++ function) rrllvm::FunctionResolver (C++ class) rrllvm::FunctionResolver::builder (C++ member) rrllvm::FunctionResolver::FunctionResolver (C++ function) rrllvm::FunctionResolver::isLocalParameter (C++ function) rrllvm::FunctionResolver::loadSymbolValue (C++ function) rrllvm::FunctionResolver::model (C++ member) rrllvm::FunctionResolver::modelData (C++ member) rrllvm::FunctionResolver::modelGenContext (C++ member) rrllvm::FunctionResolver::parentResolver (C++ member) rrllvm::FunctionResolver::recursiveSymbolPop (C++ function) rrllvm::FunctionResolver::recursiveSymbolPush (C++ function) rrllvm::FunctionResolver::symbols (C++ member) rrllvm::FunctionResolver::~FunctionResolver (C++ function) rrllvm::KineticLawParameterResolver (C++ class) rrllvm::KineticLawParameterResolver::builder (C++ member) rrllvm::KineticLawParameterResolver::isLocalParameter (C++ function) rrllvm::KineticLawParameterResolver::kineticLaw (C++ member) rrllvm::KineticLawParameterResolver::KineticLawParameterResolver (C++ function) rrllvm::KineticLawParameterResolver::loadSymbolValue (C++ function) rrllvm::KineticLawParameterResolver::parentResolver (C++ member) rrllvm::KineticLawParameterResolver::recursiveSymbolPop (C++ function) rrllvm::KineticLawParameterResolver::recursiveSymbolPush (C++ function) rrllvm::KineticLawParameterResolver::~KineticLawParameterResolver (C++ function) rrllvm::LLVMCompiler (C++ class) rrllvm::LLVMCompiler::getCompiler (C++ function) rrllvm::LLVMCompiler::getCompilerLocation (C++ function) rrllvm::LLVMCompiler::getDefaultTargetTriple (C++ function) rrllvm::LLVMCompiler::getHostCPUName (C++ function) rrllvm::LLVMCompiler::getProcessTriple (C++ function) rrllvm::LLVMCompiler::getSupportCodeFolder (C++ function) rrllvm::LLVMCompiler::getVersion (C++ function) rrllvm::LLVMCompiler::LLVMCompiler (C++ function) rrllvm::LLVMCompiler::setCompiler (C++ function) rrllvm::LLVMCompiler::setCompilerLocation (C++ function) rrllvm::LLVMCompiler::setSupportCodeFolder (C++ function) rrllvm::LLVMCompiler::~LLVMCompiler (C++ function) rrllvm::LLVMExecutableModel (C++ class) rrllvm::LLVMExecutableModel::[anonymous] (C++ enum) rrllvm::LLVMExecutableModel::[anonymous]::DIRTY_CONSERVED_MOIETIES (C++ enumerator) rrllvm::LLVMExecutableModel::[anonymous]::DIRTY_INIT_SPECIES (C++ enumerator) rrllvm::LLVMExecutableModel::[anonymous]::DIRTY_REACTION_RATES (C++ enumerator) rrllvm::LLVMExecutableModel::applyEvents (C++ function), [1] rrllvm::LLVMExecutableModel::assignEvent (C++ function) rrllvm::LLVMExecutableModel::conversionFactor (C++ member) rrllvm::LLVMExecutableModel::copyCachedModel (C++ function) rrllvm::LLVMExecutableModel::dirty (C++ member) rrllvm::LLVMExecutableModel::dummy (C++ function) rrllvm::LLVMExecutableModel::evalConversionFactorPtr (C++ member) rrllvm::LLVMExecutableModel::evalInitialConditions (C++ function) rrllvm::LLVMExecutableModel::evalInitialConditionsPtr (C++ member) rrllvm::LLVMExecutableModel::evalRateRuleRatesPtr (C++ member) rrllvm::LLVMExecutableModel::evalReactionRatesPtr (C++ member) rrllvm::LLVMExecutableModel::evalVolatileStoichPtr (C++ member) rrllvm::LLVMExecutableModel::eventAssignPtr (C++ member) rrllvm::LLVMExecutableModel::eventAssignTimes (C++ member) rrllvm::LLVMExecutableModel::eventListeners (C++ member) rrllvm::LLVMExecutableModel::eventTriggerPtr (C++ member) rrllvm::LLVMExecutableModel::flags (C++ member) rrllvm::LLVMExecutableModel::getAssignmentRuleIds (C++ function) rrllvm::LLVMExecutableModel::getBoundarySpeciesAmountPtr (C++ member) rrllvm::LLVMExecutableModel::getBoundarySpeciesAmounts (C++ function) rrllvm::LLVMExecutableModel::getBoundarySpeciesConcentrationPtr (C++ member) rrllvm::LLVMExecutableModel::getBoundarySpeciesConcentrations (C++ function) rrllvm::LLVMExecutableModel::getBoundarySpeciesId (C++ function) rrllvm::LLVMExecutableModel::getBoundarySpeciesIndex (C++ function) rrllvm::LLVMExecutableModel::getBoundarySpeciesInitAmounts (C++ function) rrllvm::LLVMExecutableModel::getBoundarySpeciesInitAmountsPtr (C++ member) rrllvm::LLVMExecutableModel::getBoundarySpeciesInitConcentrations (C++ function) rrllvm::LLVMExecutableModel::getBoundarySpeciesInitConcentrationsPtr (C++ member) rrllvm::LLVMExecutableModel::getCompartmentId (C++ function) rrllvm::LLVMExecutableModel::getCompartmentIndex (C++ function) rrllvm::LLVMExecutableModel::getCompartmentIndexForBoundarySpecies (C++ function) rrllvm::LLVMExecutableModel::getCompartmentIndexForFloatingSpecies (C++ function) rrllvm::LLVMExecutableModel::getCompartmentInitVolumes (C++ function) rrllvm::LLVMExecutableModel::getCompartmentInitVolumesPtr (C++ member) rrllvm::LLVMExecutableModel::getCompartmentVolumePtr (C++ member) rrllvm::LLVMExecutableModel::getCompartmentVolumes (C++ function) rrllvm::LLVMExecutableModel::getConservedMoietyId (C++ function) rrllvm::LLVMExecutableModel::getConservedMoietyIndex (C++ function) rrllvm::LLVMExecutableModel::getConservedMoietyValues (C++ function) rrllvm::LLVMExecutableModel::getEventBufferSize (C++ function) rrllvm::LLVMExecutableModel::getEventData (C++ function) rrllvm::LLVMExecutableModel::getEventDelay (C++ function) rrllvm::LLVMExecutableModel::getEventDelayPtr (C++ member) rrllvm::LLVMExecutableModel::getEventId (C++ function) rrllvm::LLVMExecutableModel::getEventIds (C++ function) rrllvm::LLVMExecutableModel::getEventIndex (C++ function) rrllvm::LLVMExecutableModel::getEventInitialValue (C++ function) rrllvm::LLVMExecutableModel::getEventListener (C++ function) rrllvm::LLVMExecutableModel::getEventPersistent (C++ function) rrllvm::LLVMExecutableModel::getEventPriority (C++ function) rrllvm::LLVMExecutableModel::getEventPriorityPtr (C++ member) rrllvm::LLVMExecutableModel::getEventRoots (C++ function) rrllvm::LLVMExecutableModel::getEventTieBreak (C++ function) rrllvm::LLVMExecutableModel::getEventTrigger (C++ function) rrllvm::LLVMExecutableModel::getEventTriggerPtr (C++ member) rrllvm::LLVMExecutableModel::getEventTriggers (C++ function) rrllvm::LLVMExecutableModel::getEventUseValuesFromTriggerTime (C++ function) rrllvm::LLVMExecutableModel::getExecutableModelDesc (C++ function) rrllvm::LLVMExecutableModel::getFlags (C++ function) rrllvm::LLVMExecutableModel::getFloatingSpeciesAmountPtr (C++ member) rrllvm::LLVMExecutableModel::getFloatingSpeciesAmountRate (C++ function) rrllvm::LLVMExecutableModel::getFloatingSpeciesAmountRates (C++ function) rrllvm::LLVMExecutableModel::getFloatingSpeciesAmounts (C++ function) rrllvm::LLVMExecutableModel::getFloatingSpeciesConcentrationPtr (C++ member) rrllvm::LLVMExecutableModel::getFloatingSpeciesConcentrationRates (C++ function) rrllvm::LLVMExecutableModel::getFloatingSpeciesConcentrations (C++ function) rrllvm::LLVMExecutableModel::getFloatingSpeciesId (C++ function) rrllvm::LLVMExecutableModel::getFloatingSpeciesIndex (C++ function) rrllvm::LLVMExecutableModel::getFloatingSpeciesInitAmounts (C++ function) rrllvm::LLVMExecutableModel::getFloatingSpeciesInitAmountsPtr (C++ member) rrllvm::LLVMExecutableModel::getFloatingSpeciesInitConcentrations (C++ function) rrllvm::LLVMExecutableModel::getFloatingSpeciesInitConcentrationsPtr (C++ member) rrllvm::LLVMExecutableModel::getGlobalParameterId (C++ function) rrllvm::LLVMExecutableModel::getGlobalParameterIndex (C++ function) rrllvm::LLVMExecutableModel::getGlobalParameterInitValuePtr (C++ member) rrllvm::LLVMExecutableModel::getGlobalParameterInitValues (C++ function) rrllvm::LLVMExecutableModel::getGlobalParameterPtr (C++ member) rrllvm::LLVMExecutableModel::getGlobalParameterValues (C++ function) rrllvm::LLVMExecutableModel::getIds (C++ function) rrllvm::LLVMExecutableModel::getInfo (C++ function) rrllvm::LLVMExecutableModel::getInitialAssignmentIds (C++ function) rrllvm::LLVMExecutableModel::getModelName (C++ function) rrllvm::LLVMExecutableModel::GetNameFuncPtr (C++ type) rrllvm::LLVMExecutableModel::getNextPendingEventTime (C++ function) rrllvm::LLVMExecutableModel::getNumBoundarySpecies (C++ function) rrllvm::LLVMExecutableModel::getNumCompartments (C++ function) rrllvm::LLVMExecutableModel::getNumConservedMoieties (C++ function) rrllvm::LLVMExecutableModel::getNumDepFloatingSpecies (C++ function) rrllvm::LLVMExecutableModel::getNumEvents (C++ function) rrllvm::LLVMExecutableModel::getNumFloatingSpecies (C++ function) rrllvm::LLVMExecutableModel::getNumGlobalParameters (C++ function) rrllvm::LLVMExecutableModel::getNumIndFloatingSpecies (C++ function) rrllvm::LLVMExecutableModel::getNumPiecewiseTriggers (C++ function) rrllvm::LLVMExecutableModel::getNumRateRules (C++ function) rrllvm::LLVMExecutableModel::getNumReactions (C++ function) rrllvm::LLVMExecutableModel::getPendingEventSize (C++ function) rrllvm::LLVMExecutableModel::getPiecewiseTriggerPtr (C++ member) rrllvm::LLVMExecutableModel::getPiecewiseTriggerRoots (C++ function) rrllvm::LLVMExecutableModel::getRandom (C++ function) rrllvm::LLVMExecutableModel::getRandomSeed (C++ function) rrllvm::LLVMExecutableModel::getRateRuleIds (C++ function) rrllvm::LLVMExecutableModel::getRateRuleRates (C++ function) rrllvm::LLVMExecutableModel::getRateRuleSymbols (C++ function) rrllvm::LLVMExecutableModel::getRateRuleValues (C++ function) rrllvm::LLVMExecutableModel::getReactionId (C++ function) rrllvm::LLVMExecutableModel::getReactionIndex (C++ function) rrllvm::LLVMExecutableModel::getReactionRates (C++ function) rrllvm::LLVMExecutableModel::getSelection (C++ function) rrllvm::LLVMExecutableModel::getStateVector (C++ function) rrllvm::LLVMExecutableModel::getStateVectorId (C++ function) rrllvm::LLVMExecutableModel::getStateVectorRate (C++ function) rrllvm::LLVMExecutableModel::getStoichiometry (C++ function), [1] rrllvm::LLVMExecutableModel::getStoichiometryId (C++ function) rrllvm::LLVMExecutableModel::getStoichiometryIndex (C++ function), [1] rrllvm::LLVMExecutableModel::getSupportedIdTypes (C++ function) rrllvm::LLVMExecutableModel::getTime (C++ function) rrllvm::LLVMExecutableModel::getValue (C++ function) rrllvm::LLVMExecutableModel::getValues (C++ function) rrllvm::LLVMExecutableModel::LLVMExecutableModel (C++ function), [1], [2] rrllvm::LLVMExecutableModel::modelData (C++ member) rrllvm::LLVMExecutableModel::pendingEvents (C++ member) rrllvm::LLVMExecutableModel::print (C++ function) rrllvm::LLVMExecutableModel::reset (C++ function), [1] rrllvm::LLVMExecutableModel::resetEvents (C++ function) rrllvm::LLVMExecutableModel::resetOneType (C++ function) rrllvm::LLVMExecutableModel::resources (C++ member) rrllvm::LLVMExecutableModel::saveState (C++ function) rrllvm::LLVMExecutableModel::SelectionMap (C++ type) rrllvm::LLVMExecutableModel::selectionRecordCache (C++ member) rrllvm::LLVMExecutableModel::setBoundarySpeciesAmountPtr (C++ member) rrllvm::LLVMExecutableModel::setBoundarySpeciesAmounts (C++ function), [1] rrllvm::LLVMExecutableModel::setBoundarySpeciesConcentrationPtr (C++ member) rrllvm::LLVMExecutableModel::setBoundarySpeciesConcentrations (C++ function) rrllvm::LLVMExecutableModel::setBoundarySpeciesInitAmounts (C++ function) rrllvm::LLVMExecutableModel::setBoundarySpeciesInitAmountsPtr (C++ member) rrllvm::LLVMExecutableModel::setBoundarySpeciesInitConcentrations (C++ function) rrllvm::LLVMExecutableModel::setBoundarySpeciesInitConcentrationsPtr (C++ member) rrllvm::LLVMExecutableModel::setCompartmentInitVolumes (C++ function) rrllvm::LLVMExecutableModel::setCompartmentInitVolumesPtr (C++ member) rrllvm::LLVMExecutableModel::setCompartmentVolumePtr (C++ member) rrllvm::LLVMExecutableModel::setCompartmentVolumes (C++ function), [1] rrllvm::LLVMExecutableModel::setConservedMoietyValues (C++ function) rrllvm::LLVMExecutableModel::setEventListener (C++ function) rrllvm::LLVMExecutableModel::setFlags (C++ function) rrllvm::LLVMExecutableModel::setFloatingSpeciesAmountPtr (C++ member) rrllvm::LLVMExecutableModel::setFloatingSpeciesAmounts (C++ function), [1] rrllvm::LLVMExecutableModel::setFloatingSpeciesConcentrationPtr (C++ member) rrllvm::LLVMExecutableModel::setFloatingSpeciesConcentrations (C++ function) rrllvm::LLVMExecutableModel::setFloatingSpeciesInitAmounts (C++ function) rrllvm::LLVMExecutableModel::setFloatingSpeciesInitAmountsPtr (C++ member) rrllvm::LLVMExecutableModel::setFloatingSpeciesInitConcentrations (C++ function) rrllvm::LLVMExecutableModel::setFloatingSpeciesInitConcentrationsPtr (C++ member) rrllvm::LLVMExecutableModel::setGlobalParameterInitValuePtr (C++ member) rrllvm::LLVMExecutableModel::setGlobalParameterInitValues (C++ function) rrllvm::LLVMExecutableModel::setGlobalParameterPtr (C++ member) rrllvm::LLVMExecutableModel::setGlobalParameterValues (C++ function), [1] rrllvm::LLVMExecutableModel::setRandomSeed (C++ function) rrllvm::LLVMExecutableModel::setStateVector (C++ function) rrllvm::LLVMExecutableModel::setStoichiometries (C++ function), [1] rrllvm::LLVMExecutableModel::setStoichiometry (C++ function), [1] rrllvm::LLVMExecutableModel::setTime (C++ function) rrllvm::LLVMExecutableModel::setValue (C++ function) rrllvm::LLVMExecutableModel::setValues (C++ function) rrllvm::LLVMExecutableModel::symbols (C++ member) rrllvm::LLVMExecutableModel::testConstraints (C++ function) rrllvm::LLVMExecutableModel::TieBreakKey (C++ type) rrllvm::LLVMExecutableModel::tieBreakMap (C++ member) rrllvm::LLVMExecutableModel::TieBreakMap (C++ type) rrllvm::LLVMExecutableModel::~LLVMExecutableModel (C++ function) rrllvm::LLVMModelData (C++ struct) rrllvm::LLVMModelDataSymbols (C++ class) rrllvm::LLVMModelDataSymbols::assignmentRules (C++ member) rrllvm::LLVMModelDataSymbols::boundarySpeciesCompartmentIndices (C++ member) rrllvm::LLVMModelDataSymbols::boundarySpeciesMap (C++ member) rrllvm::LLVMModelDataSymbols::compartmentsMap (C++ member) rrllvm::LLVMModelDataSymbols::conservedMoietyDepSpecies (C++ member) rrllvm::LLVMModelDataSymbols::conservedMoietyGlobalParameter (C++ member) rrllvm::LLVMModelDataSymbols::conservedMoietyGlobalParameterIndex (C++ member) rrllvm::LLVMModelDataSymbols::conservedMoietyIndSpecies (C++ member) rrllvm::LLVMModelDataSymbols::conservedMoietySpeciesSet (C++ member) rrllvm::LLVMModelDataSymbols::displayCompartmentInfo (C++ function) rrllvm::LLVMModelDataSymbols::eventAssignmentsSize (C++ member) rrllvm::LLVMModelDataSymbols::eventAttributes (C++ member) rrllvm::LLVMModelDataSymbols::eventIds (C++ member) rrllvm::LLVMModelDataSymbols::floatingSpeciesCompartmentIndices (C++ member) rrllvm::LLVMModelDataSymbols::floatingSpeciesMap (C++ member) rrllvm::LLVMModelDataSymbols::floatingSpeciesToConservedMoietyIdMap (C++ member) rrllvm::LLVMModelDataSymbols::getAssignmentRuleIds (C++ function) rrllvm::LLVMModelDataSymbols::getBoundarySpeciesId (C++ function) rrllvm::LLVMModelDataSymbols::getBoundarySpeciesIds (C++ function) rrllvm::LLVMModelDataSymbols::getBoundarySpeciesIndex (C++ function) rrllvm::LLVMModelDataSymbols::getBoundarySpeciesInitIndex (C++ function) rrllvm::LLVMModelDataSymbols::getBoundarySpeciesSize (C++ function) rrllvm::LLVMModelDataSymbols::getCompartmentId (C++ function) rrllvm::LLVMModelDataSymbols::getCompartmentIds (C++ function) rrllvm::LLVMModelDataSymbols::getCompartmentIndex (C++ function) rrllvm::LLVMModelDataSymbols::getCompartmentIndexForBoundarySpecies (C++ function) rrllvm::LLVMModelDataSymbols::getCompartmentIndexForFloatingSpecies (C++ function) rrllvm::LLVMModelDataSymbols::getCompartmentInitIndex (C++ function) rrllvm::LLVMModelDataSymbols::getCompartmentsSize (C++ function) rrllvm::LLVMModelDataSymbols::getConservedMoietyGlobalParameterIndex (C++ function) rrllvm::LLVMModelDataSymbols::getConservedMoietyId (C++ function) rrllvm::LLVMModelDataSymbols::getConservedMoietyIndex (C++ function) rrllvm::LLVMModelDataSymbols::getConservedMoietySize (C++ function) rrllvm::LLVMModelDataSymbols::getDepSpeciesIndexForConservedMoietyId (C++ function) rrllvm::LLVMModelDataSymbols::getEventAttributes (C++ function) rrllvm::LLVMModelDataSymbols::getEventBufferSize (C++ function) rrllvm::LLVMModelDataSymbols::getEventId (C++ function) rrllvm::LLVMModelDataSymbols::getEventIds (C++ function) rrllvm::LLVMModelDataSymbols::getEventIndex (C++ function) rrllvm::LLVMModelDataSymbols::getFieldName (C++ function) rrllvm::LLVMModelDataSymbols::getFloatingSpeciesId (C++ function) rrllvm::LLVMModelDataSymbols::getFloatingSpeciesIds (C++ function) rrllvm::LLVMModelDataSymbols::getFloatingSpeciesIndex (C++ function) rrllvm::LLVMModelDataSymbols::getFloatingSpeciesInitIndex (C++ function) rrllvm::LLVMModelDataSymbols::getFloatingSpeciesSize (C++ function) rrllvm::LLVMModelDataSymbols::getGlobalParameterId (C++ function) rrllvm::LLVMModelDataSymbols::getGlobalParameterIds (C++ function) rrllvm::LLVMModelDataSymbols::getGlobalParameterIndex (C++ function) rrllvm::LLVMModelDataSymbols::getGlobalParameterInitIndex (C++ function) rrllvm::LLVMModelDataSymbols::getGlobalParametersSize (C++ function) rrllvm::LLVMModelDataSymbols::getIndependentBoundarySpeciesSize (C++ function) rrllvm::LLVMModelDataSymbols::getIndependentCompartmentSize (C++ function) rrllvm::LLVMModelDataSymbols::getIndependentFloatingSpeciesSize (C++ function) rrllvm::LLVMModelDataSymbols::getIndependentGlobalParameterSize (C++ function) rrllvm::LLVMModelDataSymbols::getIndSpeciesIndexForConservedMoietyId (C++ function) rrllvm::LLVMModelDataSymbols::getInitBoundarySpeciesSize (C++ function) rrllvm::LLVMModelDataSymbols::getInitCompartmentSize (C++ function) rrllvm::LLVMModelDataSymbols::getInitFloatingSpeciesSize (C++ function) rrllvm::LLVMModelDataSymbols::getInitGlobalParameterSize (C++ function) rrllvm::LLVMModelDataSymbols::getInitialAssignmentIds (C++ function) rrllvm::LLVMModelDataSymbols::getModelName (C++ function) rrllvm::LLVMModelDataSymbols::getNamedSpeciesReferenceInfo (C++ function) rrllvm::LLVMModelDataSymbols::getRateRuleId (C++ function) rrllvm::LLVMModelDataSymbols::getRateRuleIds (C++ function) rrllvm::LLVMModelDataSymbols::getRateRuleIndex (C++ function) rrllvm::LLVMModelDataSymbols::getRateRuleSize (C++ function) rrllvm::LLVMModelDataSymbols::getReactionIds (C++ function) rrllvm::LLVMModelDataSymbols::getReactionIndex (C++ function) rrllvm::LLVMModelDataSymbols::getReactionSize (C++ function) rrllvm::LLVMModelDataSymbols::getStoichColIndx (C++ function) rrllvm::LLVMModelDataSymbols::getStoichiometryIds (C++ function) rrllvm::LLVMModelDataSymbols::getStoichiometryIndex (C++ function), [1] rrllvm::LLVMModelDataSymbols::getStoichiometryList (C++ function) rrllvm::LLVMModelDataSymbols::getStoichiometrySize (C++ function) rrllvm::LLVMModelDataSymbols::getStoichRowIndx (C++ function) rrllvm::LLVMModelDataSymbols::getSymbolIndex (C++ function) rrllvm::LLVMModelDataSymbols::globalParameterRateRules (C++ member) rrllvm::LLVMModelDataSymbols::globalParametersMap (C++ member) rrllvm::LLVMModelDataSymbols::hasAssignmentRule (C++ function) rrllvm::LLVMModelDataSymbols::hasInitialAssignmentRule (C++ function) rrllvm::LLVMModelDataSymbols::hasRateRule (C++ function) rrllvm::LLVMModelDataSymbols::independentBoundarySpeciesSize (C++ member) rrllvm::LLVMModelDataSymbols::independentCompartmentSize (C++ member) rrllvm::LLVMModelDataSymbols::independentFloatingSpeciesSize (C++ member) rrllvm::LLVMModelDataSymbols::independentGlobalParameterSize (C++ member) rrllvm::LLVMModelDataSymbols::independentInitBoundarySpeciesSize (C++ member) rrllvm::LLVMModelDataSymbols::independentInitCompartmentSize (C++ member) rrllvm::LLVMModelDataSymbols::independentInitFloatingSpeciesSize (C++ member) rrllvm::LLVMModelDataSymbols::independentInitGlobalParameterSize (C++ member) rrllvm::LLVMModelDataSymbols::initAssignmentRules (C++ member) rrllvm::LLVMModelDataSymbols::initBoundarySpecies (C++ function) rrllvm::LLVMModelDataSymbols::initBoundarySpeciesMap (C++ member) rrllvm::LLVMModelDataSymbols::initCompartments (C++ function) rrllvm::LLVMModelDataSymbols::initCompartmentsMap (C++ member) rrllvm::LLVMModelDataSymbols::initEvents (C++ function) rrllvm::LLVMModelDataSymbols::initFloatingSpecies (C++ function) rrllvm::LLVMModelDataSymbols::initFloatingSpeciesMap (C++ member) rrllvm::LLVMModelDataSymbols::initGlobalParameters (C++ function) rrllvm::LLVMModelDataSymbols::initGlobalParametersMap (C++ member) rrllvm::LLVMModelDataSymbols::initReactions (C++ function) rrllvm::LLVMModelDataSymbols::isBoundarySpecies (C++ function) rrllvm::LLVMModelDataSymbols::isConservedMoietyAnalysis (C++ function) rrllvm::LLVMModelDataSymbols::isConservedMoietyParameter (C++ function) rrllvm::LLVMModelDataSymbols::isConservedMoietySpecies (C++ function), [1] rrllvm::LLVMModelDataSymbols::isIndependentBoundarySpecies (C++ function) rrllvm::LLVMModelDataSymbols::isIndependentCompartment (C++ function) rrllvm::LLVMModelDataSymbols::isIndependentElement (C++ function) rrllvm::LLVMModelDataSymbols::isIndependentFloatingSpecies (C++ function) rrllvm::LLVMModelDataSymbols::isIndependentGlobalParameter (C++ function) rrllvm::LLVMModelDataSymbols::isIndependentInitBoundarySpecies (C++ function) rrllvm::LLVMModelDataSymbols::isIndependentInitCompartment (C++ function) rrllvm::LLVMModelDataSymbols::isIndependentInitElement (C++ function) rrllvm::LLVMModelDataSymbols::isIndependentInitFloatingSpecies (C++ function) rrllvm::LLVMModelDataSymbols::isIndependentInitGlobalParameter (C++ function), [1] rrllvm::LLVMModelDataSymbols::isNamedSpeciesReference (C++ function) rrllvm::LLVMModelDataSymbols::isRateRuleGlobalParameter (C++ function) rrllvm::LLVMModelDataSymbols::isValidFloatingSpeciesReference (C++ function) rrllvm::LLVMModelDataSymbols::LLVMModelDataSymbols (C++ function), [1], [2] rrllvm::LLVMModelDataSymbols::loadBinarySpeciesReferenceInfo (C++ function) rrllvm::LLVMModelDataSymbols::loadState (C++ function) rrllvm::LLVMModelDataSymbols::loadStringRefInfoMap (C++ function) rrllvm::LLVMModelDataSymbols::modelName (C++ member) rrllvm::LLVMModelDataSymbols::namedSpeciesReferenceInfo (C++ member) rrllvm::LLVMModelDataSymbols::print (C++ function) rrllvm::LLVMModelDataSymbols::rateRules (C++ member) rrllvm::LLVMModelDataSymbols::reactionsMap (C++ member) rrllvm::LLVMModelDataSymbols::saveBinarySpeciesReferenceInfo (C++ function) rrllvm::LLVMModelDataSymbols::saveState (C++ function) rrllvm::LLVMModelDataSymbols::saveStringRefInfoMap (C++ function) rrllvm::LLVMModelDataSymbols::setNamedSpeciesReferenceInfo (C++ function) rrllvm::LLVMModelDataSymbols::SpeciesReferenceInfo (C++ struct) rrllvm::LLVMModelDataSymbols::SpeciesReferenceInfo::column (C++ member) rrllvm::LLVMModelDataSymbols::SpeciesReferenceInfo::id (C++ member) rrllvm::LLVMModelDataSymbols::SpeciesReferenceInfo::row (C++ member) rrllvm::LLVMModelDataSymbols::SpeciesReferenceInfo::type (C++ member) rrllvm::LLVMModelDataSymbols::SpeciesReferenceType (C++ enum) rrllvm::LLVMModelDataSymbols::SpeciesReferenceType::Modifier (C++ enumerator) rrllvm::LLVMModelDataSymbols::SpeciesReferenceType::MultiReactantProduct (C++ enumerator) rrllvm::LLVMModelDataSymbols::SpeciesReferenceType::Product (C++ enumerator) rrllvm::LLVMModelDataSymbols::SpeciesReferenceType::Reactant (C++ enumerator) rrllvm::LLVMModelDataSymbols::stoichColIndx (C++ member) rrllvm::LLVMModelDataSymbols::stoichIds (C++ member) rrllvm::LLVMModelDataSymbols::stoichRowIndx (C++ member) rrllvm::LLVMModelDataSymbols::stoichTypes (C++ member) rrllvm::LLVMModelDataSymbols::StringRefInfoMap (C++ type) rrllvm::LLVMModelDataSymbols::StringUIntMap (C++ type) rrllvm::LLVMModelDataSymbols::StringUIntPair (C++ type) rrllvm::LLVMModelDataSymbols::StringUIntVectorMap (C++ type) rrllvm::LLVMModelDataSymbols::SymbolIndexType (C++ enum) rrllvm::LLVMModelDataSymbols::SymbolIndexType::BOUNDARY_SPECIES (C++ enumerator) rrllvm::LLVMModelDataSymbols::SymbolIndexType::COMPARTMENT (C++ enumerator) rrllvm::LLVMModelDataSymbols::SymbolIndexType::EVENT (C++ enumerator) rrllvm::LLVMModelDataSymbols::SymbolIndexType::FLOATING_SPECIES (C++ enumerator) rrllvm::LLVMModelDataSymbols::SymbolIndexType::GLOBAL_PARAMETER (C++ enumerator) rrllvm::LLVMModelDataSymbols::SymbolIndexType::INVALID_SYMBOL (C++ enumerator) rrllvm::LLVMModelDataSymbols::SymbolIndexType::REACTION (C++ enumerator) rrllvm::LLVMModelDataSymbols::SymbolIndexType::STOICHIOMETRY (C++ enumerator) rrllvm::LLVMModelDataSymbols::UIntUIntMap (C++ type) rrllvm::LLVMModelDataSymbols::~LLVMModelDataSymbols (C++ function) rrllvm::LLVMModelGenerator (C++ class) rrllvm::LLVMModelGenerator::createModel (C++ function) rrllvm::LLVMModelGenerator::regenerateModel (C++ function) rrllvm::LLVMModelSymbols (C++ class) rrllvm::LLVMModelSymbols::assignmentRules (C++ member) rrllvm::LLVMModelSymbols::ASTNodeList (C++ type) rrllvm::LLVMModelSymbols::createStoichiometryNode (C++ function) rrllvm::LLVMModelSymbols::getAssigmentRules (C++ function) rrllvm::LLVMModelSymbols::getInitialAssignmentRules (C++ function) rrllvm::LLVMModelSymbols::getInitialValues (C++ function) rrllvm::LLVMModelSymbols::getRateRules (C++ function) rrllvm::LLVMModelSymbols::getSpeciesReferenceStoichMath (C++ function) rrllvm::LLVMModelSymbols::initialAssignmentRules (C++ member) rrllvm::LLVMModelSymbols::initialValues (C++ member) rrllvm::LLVMModelSymbols::IntASTNodeListMap (C++ type) rrllvm::LLVMModelSymbols::LLVMModelSymbols (C++ function) rrllvm::LLVMModelSymbols::model (C++ member) rrllvm::LLVMModelSymbols::nodes (C++ member) rrllvm::LLVMModelSymbols::processElement (C++ function) rrllvm::LLVMModelSymbols::processSpecies (C++ function) rrllvm::LLVMModelSymbols::rateRules (C++ member) rrllvm::LLVMModelSymbols::reactions (C++ member) rrllvm::LLVMModelSymbols::ReactionSymbols (C++ struct) rrllvm::LLVMModelSymbols::ReactionSymbols::products (C++ member) rrllvm::LLVMModelSymbols::ReactionSymbols::reactants (C++ member) rrllvm::LLVMModelSymbols::SpeciesReferenceType (C++ enum) rrllvm::LLVMModelSymbols::SpeciesReferenceType::Product (C++ enumerator) rrllvm::LLVMModelSymbols::SpeciesReferenceType::Reactant (C++ enumerator) rrllvm::LLVMModelSymbols::symbols (C++ member) rrllvm::LLVMModelSymbols::visit (C++ function), [1], [2], [3], [4], [5], [6], [7] rrllvm::LLVMModelSymbols::~LLVMModelSymbols (C++ function) rrllvm::LoadSymbolResolverBase (C++ class) rrllvm::LoadSymbolResolverBase::builder (C++ member) rrllvm::LoadSymbolResolverBase::cacheValue (C++ function) rrllvm::LoadSymbolResolverBase::flushCache (C++ function) rrllvm::LoadSymbolResolverBase::isLocalParameter (C++ function) rrllvm::LoadSymbolResolverBase::loadReactionRate (C++ function) rrllvm::LoadSymbolResolverBase::LoadSymbolResolverBase (C++ function) rrllvm::LoadSymbolResolverBase::model (C++ member) rrllvm::LoadSymbolResolverBase::modelData (C++ member) rrllvm::LoadSymbolResolverBase::modelDataSymbols (C++ member) rrllvm::LoadSymbolResolverBase::modelGenContext (C++ member) rrllvm::LoadSymbolResolverBase::modelSymbols (C++ member) rrllvm::LoadSymbolResolverBase::popCacheBlock (C++ function) rrllvm::LoadSymbolResolverBase::pushCacheBlock (C++ function) rrllvm::LoadSymbolResolverBase::recursiveSymbolPop (C++ function) rrllvm::LoadSymbolResolverBase::recursiveSymbolPush (C++ function) rrllvm::LoadSymbolResolverBase::StringStack (C++ type) rrllvm::LoadSymbolResolverBase::symbolCache (C++ member) rrllvm::LoadSymbolResolverBase::symbolStack (C++ member) rrllvm::LoadSymbolResolverBase::ValueMap (C++ type) rrllvm::LoadSymbolResolverBase::ValueMapStack (C++ type) rrllvm::ModelDataIRBuilder (C++ class) rrllvm::ModelDataIRBuilder::builder (C++ member) rrllvm::ModelDataIRBuilder::createBoundSpeciesAmtGEP (C++ function) rrllvm::ModelDataIRBuilder::createBoundSpeciesAmtLoad (C++ function) rrllvm::ModelDataIRBuilder::createBoundSpeciesAmtStore (C++ function) rrllvm::ModelDataIRBuilder::createCompGEP (C++ function) rrllvm::ModelDataIRBuilder::createCompLoad (C++ function) rrllvm::ModelDataIRBuilder::createCompStore (C++ function) rrllvm::ModelDataIRBuilder::createCSRMatrixGetNZ (C++ function) rrllvm::ModelDataIRBuilder::createCSRMatrixSetNZ (C++ function) rrllvm::ModelDataIRBuilder::createFloatSpeciesAmtGEP (C++ function) rrllvm::ModelDataIRBuilder::createFloatSpeciesAmtLoad (C++ function) rrllvm::ModelDataIRBuilder::createFloatSpeciesAmtRateGEP (C++ function) rrllvm::ModelDataIRBuilder::createFloatSpeciesAmtRateLoad (C++ function) rrllvm::ModelDataIRBuilder::createFloatSpeciesAmtRateStore (C++ function) rrllvm::ModelDataIRBuilder::createFloatSpeciesAmtStore (C++ function) rrllvm::ModelDataIRBuilder::createGEP (C++ function), [1] rrllvm::ModelDataIRBuilder::createGlobalParamGEP (C++ function) rrllvm::ModelDataIRBuilder::createGlobalParamLoad (C++ function) rrllvm::ModelDataIRBuilder::createGlobalParamStore (C++ function) rrllvm::ModelDataIRBuilder::createInitBoundarySpeciesAmtGEP (C++ function) rrllvm::ModelDataIRBuilder::createInitBoundarySpeciesAmtLoad (C++ function) rrllvm::ModelDataIRBuilder::createInitBoundarySpeciesAmtStore (C++ function) rrllvm::ModelDataIRBuilder::createInitCompGEP (C++ function) rrllvm::ModelDataIRBuilder::createInitCompLoad (C++ function) rrllvm::ModelDataIRBuilder::createInitCompStore (C++ function) rrllvm::ModelDataIRBuilder::createInitFloatSpeciesAmtGEP (C++ function) rrllvm::ModelDataIRBuilder::createInitFloatSpeciesAmtLoad (C++ function) rrllvm::ModelDataIRBuilder::createInitFloatSpeciesAmtStore (C++ function) rrllvm::ModelDataIRBuilder::createInitGlobalParamGEP (C++ function) rrllvm::ModelDataIRBuilder::createInitGlobalParamLoad (C++ function) rrllvm::ModelDataIRBuilder::createInitGlobalParamStore (C++ function) rrllvm::ModelDataIRBuilder::createLoad (C++ function) rrllvm::ModelDataIRBuilder::createModelDataStructType (C++ function) rrllvm::ModelDataIRBuilder::createRandomLoad (C++ function) rrllvm::ModelDataIRBuilder::createRateRuleRateGEP (C++ function) rrllvm::ModelDataIRBuilder::createRateRuleRateLoad (C++ function) rrllvm::ModelDataIRBuilder::createRateRuleRateStore (C++ function) rrllvm::ModelDataIRBuilder::createRateRuleValueGEP (C++ function) rrllvm::ModelDataIRBuilder::createRateRuleValueLoad (C++ function) rrllvm::ModelDataIRBuilder::createRateRuleValueStore (C++ function) rrllvm::ModelDataIRBuilder::createReactionRateLoad (C++ function) rrllvm::ModelDataIRBuilder::createReactionRateStore (C++ function) rrllvm::ModelDataIRBuilder::createStoichiometryLoad (C++ function) rrllvm::ModelDataIRBuilder::createStoichiometryStore (C++ function) rrllvm::ModelDataIRBuilder::createStore (C++ function) rrllvm::ModelDataIRBuilder::csr_matrix_get_nzName (C++ member) rrllvm::ModelDataIRBuilder::csr_matrix_set_nzName (C++ member) rrllvm::ModelDataIRBuilder::csr_matrixName (C++ member) rrllvm::ModelDataIRBuilder::getCSRMatrixGetNZDecl (C++ function) rrllvm::ModelDataIRBuilder::getCSRMatrixSetNZDecl (C++ function) rrllvm::ModelDataIRBuilder::getCSRSparseStructType (C++ function) rrllvm::ModelDataIRBuilder::getModelDataSize (C++ function) rrllvm::ModelDataIRBuilder::getModule (C++ function) rrllvm::ModelDataIRBuilder::getStructType (C++ function) rrllvm::ModelDataIRBuilder::LLVMModelDataName (C++ member) rrllvm::ModelDataIRBuilder::modelData (C++ member) rrllvm::ModelDataIRBuilder::ModelDataIRBuilder (C++ function) rrllvm::ModelDataIRBuilder::symbols (C++ member) rrllvm::ModelDataIRBuilder::validateStruct (C++ function) rrllvm::ModelGeneratorContext (C++ class) rrllvm::ModelGeneratorContext::addAllPiecewiseTriggers (C++ function) rrllvm::ModelGeneratorContext::addPiecewiseTriggersFrom (C++ function) rrllvm::ModelGeneratorContext::cleanup (C++ function) rrllvm::ModelGeneratorContext::clearPiecewiseTriggers (C++ function) rrllvm::ModelGeneratorContext::containsPiecewise (C++ function) rrllvm::ModelGeneratorContext::doc (C++ member) rrllvm::ModelGeneratorContext::getConservedMoietyAnalysis (C++ function) rrllvm::ModelGeneratorContext::getDocument (C++ function) rrllvm::ModelGeneratorContext::getJitNonOwning (C++ function) rrllvm::ModelGeneratorContext::getModel (C++ function) rrllvm::ModelGeneratorContext::getModelDataSymbols (C++ function) rrllvm::ModelGeneratorContext::getModelSymbols (C++ function) rrllvm::ModelGeneratorContext::getNumPiecewiseTriggers (C++ function) rrllvm::ModelGeneratorContext::getOptions (C++ function) rrllvm::ModelGeneratorContext::getPiecewiseTriggers (C++ function) rrllvm::ModelGeneratorContext::getRandom (C++ function) rrllvm::ModelGeneratorContext::jit (C++ member) rrllvm::ModelGeneratorContext::model (C++ member) rrllvm::ModelGeneratorContext::ModelGeneratorContext (C++ function), [1] rrllvm::ModelGeneratorContext::modelSymbols (C++ member) rrllvm::ModelGeneratorContext::moietyConverter (C++ member) rrllvm::ModelGeneratorContext::mPiecewiseTriggers (C++ member) rrllvm::ModelGeneratorContext::options (C++ member) rrllvm::ModelGeneratorContext::ownedDoc (C++ member) rrllvm::ModelGeneratorContext::random (C++ member) rrllvm::ModelGeneratorContext::symbols (C++ member) rrllvm::ModelGeneratorContext::transferObjectsToResources (C++ function) rrllvm::ModelGeneratorContext::useSymbolCache (C++ function) rrllvm::ModelGeneratorContext::~ModelGeneratorContext (C++ function) rrllvm::Random (C++ class) rrllvm::Random::engine (C++ member) rrllvm::Random::getMaxTries (C++ function) rrllvm::Random::getRandomSeed (C++ function) rrllvm::Random::max (C++ function) rrllvm::Random::min (C++ function) rrllvm::Random::mMaxTries (C++ member) rrllvm::Random::normalized_uniform_dist (C++ member) rrllvm::Random::operator() (C++ function) rrllvm::Random::operator= (C++ function) rrllvm::Random::Random (C++ function), [1], [2] rrllvm::Random::randomSeed (C++ member) rrllvm::Random::setMaxTries (C++ function) rrllvm::Random::setRandomSeed (C++ function) rrllvm::Random::~Random (C++ function) rrllvm::SBMLInitialValueSymbolResolver (C++ class) rrllvm::SBMLInitialValueSymbolResolver::loadSymbolValue (C++ function) rrllvm::SBMLInitialValueSymbolResolver::modelData (C++ member) rrllvm::SBMLInitialValueSymbolResolver::SBMLInitialValueSymbolResolver (C++ function) rrllvm::SBMLInitialValueSymbolResolver::~SBMLInitialValueSymbolResolver (C++ function) rrllvm::SetValueCodeGenBase (C++ class) rrllvm::SetValueCodeGenBase::codeGen (C++ function) rrllvm::SetValueCodeGenBase::FunctionPtr (C++ type) rrllvm::SetValueCodeGenBase::SetValueCodeGenBase (C++ function) rrllvm::SetValueCodeGenBase::~SetValueCodeGenBase (C++ function) rrllvm::SymbolForest (C++ class) rrllvm::SymbolForest::_const_iterator (C++ type) rrllvm::SymbolForest::_end (C++ member) rrllvm::SymbolForest::boundarySpecies (C++ member) rrllvm::SymbolForest::compartments (C++ member) rrllvm::SymbolForest::ConstIterator (C++ class) rrllvm::SymbolForest::ConstIterator::ConstIterator (C++ function), [1], [2] rrllvm::SymbolForest::ConstIterator::end (C++ member) rrllvm::SymbolForest::ConstIterator::operator!= (C++ function) rrllvm::SymbolForest::ConstIterator::operator-> (C++ function) rrllvm::SymbolForest::ConstIterator::operator= (C++ function) rrllvm::SymbolForest::ConstIterator::second (C++ member) rrllvm::SymbolForest::end (C++ function) rrllvm::SymbolForest::find (C++ function) rrllvm::SymbolForest::floatingSpecies (C++ member) rrllvm::SymbolForest::globalParameters (C++ member) rrllvm::SymbolForest::Map (C++ type) rrllvm::SymbolForest::speciesReferences (C++ member)

S

saveState() (RoadRunner.RoadRunner method) seed (Gillespie.Integrator attribute) SelectionRecord (class in roadrunner) selectionType (RoadRunner.SelectionRecord attribute) setBoundarySpeciesConcentrations() (RoadRunner_python.ExecutableModel method) setColoredOutput() (RoadRunner.Logger static method) setCompartmentVolumes() (RoadRunner_python.ExecutableModel method) setCompiler() (RoadRunner.Compiler method) setCompilerLocation() (RoadRunner.Compiler method) setConfigurationXML() (RoadRunner.RoadRunner method) setConservedMoietyValues() (RoadRunner_python.ExecutableModel method) setDiffStepSize() (RoadRunner.RoadRunner method) setDocument() (RoadRunner.PyConservedMoietyConverter method) setFloatingSpeciesAmounts() (RoadRunner_python.ExecutableModel method) setFloatingSpeciesConcentrations() (RoadRunner_python.ExecutableModel method) setFloatingSpeciesInitAmounts() (RoadRunner_python.ExecutableModel method) setFloatingSpeciesInitConcentrations() (RoadRunner_python.ExecutableModel method) setFormattingPattern() (RoadRunner.Logger static method) setGlobalParameterValues() (RoadRunner_python.ExecutableModel method) setIndividualTolerance() (Integrator method) setIntegrator() (RoadRunner.RoadRunner method) setIntegratorSetting() (RoadRunner.RoadRunner method)

setKineticLaw() (RoadRunner.RoadRunner method) setLevel() (RoadRunner.Logger static method) setListener() (Integrator method) setProperty() (RoadRunner.Logger static method) setSetting() (Solver method) setSteadyStateThreshold() (RoadRunner.RoadRunner method) setSupportCodeFolder() (RoadRunner.Compiler method) setTime() (RoadRunner_python.ExecutableModel method) settingsPyDictRepr() (Solver method) setValue() (RoadRunner method) (RoadRunner.Config static method) (Solver method) setValues() (RoadRunner method) simulate() (RoadRunner.RoadRunner method) solve() (SteadyStateSolver method) steadyState() (RoadRunner.RoadRunner method) steadyStateSelections (RoadRunner.RoadRunner attribute) steadyStateSolverExists() (RoadRunner.RoadRunner method) stiff (CVODE.Integrator attribute) STOICHIOMETRY (SelectionRecord attribute) stringToLevel() (RoadRunner.Logger static method) syncWithModel() (Solver method)

T

TIME (SelectionRecord attribute) timeCourseSelections (RoadRunner.RoadRunner attribute)

toRepr() (Solver method) toString() (Solver method) tweakTolerances() (Integrator method)

U

UNKNOWN (SelectionRecord attribute) UNKNOWN_CONCENTRATION (SelectionRecord attribute) UNKNOWN_ELEMENT (SelectionRecord attribute)

UNSCALED (SelectionRecord attribute) UNSCALED_CONTROL (SelectionRecord attribute) UNSCALED_ELASTICITY (SelectionRecord attribute)

V

validateSBML() (in module roadrunner) variable_step_size (CVODE.Integrator attribute) (Euler-and-Runge-Kutta.Integrator attribute) (Gillespie.Integrator attribute)

W

writeConfigFile() (RoadRunner.Config static method)