roadrunner
2.6.0
Fast simulator for SBML models
|
This is the complete list of members for rr::ExecutableModel, including all inherited members.
applyEvents(double timeEnd, const unsigned char *previousEventStatus, const double *initialState, double *finalState)=0 | rr::ExecutableModel | pure virtual |
computeAllRatesOfChange() | rr::ExecutableModel | inline |
ExecutableModel() | rr::ExecutableModel | |
ExecutableModelFlags enum name | rr::ExecutableModel | |
getAssignmentRuleIds(std::list< std::string > &)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getBoundarySpeciesAmounts(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getBoundarySpeciesConcentrations(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getBoundarySpeciesId(size_t index)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getBoundarySpeciesIndex(const std::string &eid)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getBoundarySpeciesInitAmounts(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getBoundarySpeciesInitConcentrations(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getCompartmentId(size_t index)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getCompartmentIndex(const std::string &eid)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getCompartmentIndexForBoundarySpecies(size_t index)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getCompartmentIndexForFloatingSpecies(size_t index)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getCompartmentInitVolumes(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getCompartmentVolumes(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getConservedMoietyId(size_t index)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getConservedMoietyIndex(const std::string &eid)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getConservedMoietyValues(size_t len, int const *indx, double *values)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getEventId(size_t index)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getEventIds(std::list< std::string > &)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getEventIndex(const std::string &eid)=0 | rr::ExecutableModel | pure virtual |
getEventListener(size_t index)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getEventRoots(double time, const double *y, double *gdot)=0 | rr::ExecutableModel | pure virtual |
getEventTriggers(size_t len, const int *indx, unsigned char *values)=0 | rr::ExecutableModel | pure virtual |
getExecutableModelDesc() const =0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getFlags() const =0 | rr::ExecutableModel | pure virtual |
getFloatingSpeciesAmountRate(size_t index, const double *reactionRates)=0 | rr::ExecutableModel | pure virtual |
getFloatingSpeciesAmountRates(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getFloatingSpeciesAmounts(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getFloatingSpeciesConcentrationRates(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getFloatingSpeciesConcentrations(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getFloatingSpeciesId(size_t index)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getFloatingSpeciesIndex(const std::string &eid)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getFloatingSpeciesInitAmounts(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getFloatingSpeciesInitConcentrations(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getGlobalParameterId(size_t index)=0 | rr::ExecutableModel | pure virtual |
getGlobalParameterIndex(const std::string &eid)=0 | rr::ExecutableModel | pure virtual |
getGlobalParameterInitValues(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getGlobalParameterValues(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getIds(int types, std::list< std::string > &ids)=0 | rr::ExecutableModel | pure virtual |
getInfo()=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getInitialAssignmentIds(std::list< std::string > &)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getModelName()=0 | rr::ExecutableModel | pure virtual |
getNextPendingEventTime(bool pop)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getNumBoundarySpecies()=0 | rr::ExecutableModel | pure virtual |
getNumCompartments()=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getNumConservedMoieties()=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getNumDepFloatingSpecies()=0 | rr::ExecutableModel | pure virtual |
getNumEvents()=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getNumFloatingSpecies()=0 | rr::ExecutableModel | pure virtual |
getNumGlobalParameters()=0 | rr::ExecutableModel | pure virtual |
getNumIndFloatingSpecies()=0 | rr::ExecutableModel | pure virtual |
getNumPiecewiseTriggers()=0 | rr::ExecutableModel | pure virtual |
getNumRateRules()=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getNumReactions()=0 | rr::ExecutableModel | pure virtual |
getPendingEventSize()=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getPiecewiseTriggerRoots(double time, const double *y, double *gdot)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getRandom()=0 | rr::ExecutableModel | pure virtual |
getRandomSeed()=0 | rr::ExecutableModel | pure virtual |
getRateRuleIds(std::list< std::string > &)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getRateRuleRates(size_t len, int const *indx, double *values) | rr::ExecutableModel | virtual |
getRateRuleSymbols() const =0 | rr::ExecutableModel | pure virtual |
getRateRuleValues(double *rateRuleValues)=0 | rr::ExecutableModel | pure virtual |
getReactionId(size_t index)=0 | rr::ExecutableModel | pure virtual |
getReactionIndex(const std::string &eid)=0 | rr::ExecutableModel | pure virtual |
getReactionRates(size_t len, int const *indx, double *values)=0 | rr::ExecutableModel | pure virtual |
getStateVector(double *stateVector)=0 | rr::ExecutableModel | pure virtual |
getStateVectorId(size_t index)=0 | rr::ExecutableModel | pure virtual |
getStateVectorRate(double time, const double *y, double *dydt=0)=0 | rr::ExecutableModel | pure virtual |
getStoichiometry(int index)=0 | rr::ExecutableModel | pure virtual |
getStoichiometry(int speciesIndex, int reactionIndex)=0 | rr::ExecutableModel | pure virtual |
getStoichiometryId(size_t index)=0 | rr::ExecutableModel | pure virtual |
getStoichiometryIndex(const std::string &)=0 | rr::ExecutableModel | pure virtual |
getStoichiometryIndex(const std::string &, const std::string &)=0 | rr::ExecutableModel | pure virtual |
getSupportedIdTypes()=0 | rr::ExecutableModel | pure virtual |
getTime()=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
getValue(const std::string &id)=0 | rr::ExecutableModel | pure virtual |
INTEGRATION enum value | rr::ExecutableModel | |
mIntegrationStartTime (defined in rr::ExecutableModel) | rr::ExecutableModel | protected |
OPTIMIZE_REACTION_RATE_SELECTION enum value | rr::ExecutableModel | |
print(std::ostream &stream)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
reset()=0 | rr::ExecutableModel | pure virtual |
reset(int options)=0 | rr::ExecutableModel | pure virtual |
resetEvents()=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
RoadRunner (defined in rr::ExecutableModel) | rr::ExecutableModel | friend |
saveState(std::ostream &out) (defined in rr::ExecutableModel) | rr::ExecutableModel | inlinevirtual |
setBoundarySpeciesAmounts(size_t len, int const *indx, double const *values)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setBoundarySpeciesAmounts(size_t len, int const *indx, double const *values, bool strict)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setBoundarySpeciesConcentrations(size_t len, int const *indx, double const *values)=0 | rr::ExecutableModel | pure virtual |
setBoundarySpeciesInitAmounts(size_t len, int const *indx, double const *values)=0 | rr::ExecutableModel | pure virtual |
setBoundarySpeciesInitConcentrations(size_t len, int const *indx, double const *values)=0 | rr::ExecutableModel | pure virtual |
setCompartmentInitVolumes(size_t len, int const *indx, double const *values)=0 | rr::ExecutableModel | pure virtual |
setCompartmentVolumes(size_t len, int const *indx, const double *values)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setCompartmentVolumes(size_t len, int const *indx, const double *values, bool strict)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setConservedMoietyValues(size_t len, int const *indx, const double *values)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setEventListener(size_t index, EventListenerPtr eventHandler)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setFlags(uint32_t)=0 | rr::ExecutableModel | pure virtual |
setFloatingSpeciesAmounts(size_t len, int const *indx, const double *values)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setFloatingSpeciesAmounts(size_t len, int const *indx, const double *values, bool strict)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setFloatingSpeciesConcentrations(size_t len, int const *indx, double const *values)=0 | rr::ExecutableModel | pure virtual |
setFloatingSpeciesInitAmounts(size_t len, int const *indx, double const *values)=0 | rr::ExecutableModel | pure virtual |
setFloatingSpeciesInitConcentrations(size_t len, int const *indx, double const *values)=0 | rr::ExecutableModel | pure virtual |
setGlobalParameterInitValues(size_t len, int const *indx, double const *values)=0 | rr::ExecutableModel | pure virtual |
setGlobalParameterValues(size_t len, int const *indx, const double *values)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setGlobalParameterValues(size_t len, int const *indx, const double *values, bool strict)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setIntegration(bool value) | rr::ExecutableModel | inlineprotected |
setIntegrationStartTime(double time) (defined in rr::ExecutableModel) | rr::ExecutableModel | virtual |
setRandomSeed(int64_t)=0 | rr::ExecutableModel | pure virtual |
setStateVector(const double *stateVector)=0 | rr::ExecutableModel | pure virtual |
setStoichiometries(size_t len, int const *indx, const double *values)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setStoichiometries(size_t len, int const *indx, const double *values, bool strict)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setStoichiometry(int index, double value)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setStoichiometry(int speciesIndex, int reactionIndex, double value)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setTime(double _time)=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
setValue(const std::string &id, double value)=0 | rr::ExecutableModel | pure virtual |
testConstraints()=0 (defined in rr::ExecutableModel) | rr::ExecutableModel | pure virtual |
~ExecutableModel() | rr::ExecutableModel | inlinevirtual |