| NLLSMinimizable::Allocate(int nResiduals) | NLLSMinimizable | |
| NetworkMinimizable::Allocate(int nResiduals) | NLLSMinimizable | |
| Attach(Observer *o) | Subject | [inline, virtual] |
| cellObserver | SingleNetworkMinimizable | [private] |
| cellObserver | SingleNetworkMinimizable | [private] |
| ComputeES(double *parameters, double T) | SingleNetworkMinimizable | [virtual] |
| ComputeES(double *parameters, double T) | SingleNetworkMinimizable | [virtual] |
| ComputeResiduals(double *parameters) | SingleNetworkMinimizable | [virtual] |
| ComputeResiduals(double *parameters) | SingleNetworkMinimizable | [virtual] |
| currentNetworkData | SingleNetworkMinimizable | [private] |
| currentNetworkData | SingleNetworkMinimizable | [private] |
| Detach(Observer *o) | Subject | [inline, virtual] |
| EntropyShift(double T) | SingleNetworkMinimizable | [virtual] |
| experiment | SingleNetworkMinimizable | [private] |
| experiment | SingleNetworkMinimizable | [private] |
| F(double *parameters, double T) | SingleNetworkMinimizable | [virtual] |
| F(double *parameters, double T) | SingleNetworkMinimizable | [virtual] |
| F0(double *parameters, double T) | SingleNetworkMinimizable | [virtual] |
| F0(double *parameters, double T) | SingleNetworkMinimizable | [virtual] |
| GetCellObserver() | SingleNetworkMinimizable | [inline] |
| GetCellObserver() | SingleNetworkMinimizable | [inline] |
| GetConversionFactor(int factorIndex) | SingleNetworkMinimizable | [inline] |
| GetEnergyLastComputed() | Minimizable | [inline, virtual] |
| GetEntropyLastComputed() | Minimizable | [inline, virtual] |
| GetExperiment() | SingleNetworkMinimizable | [inline, virtual] |
| GetExperiment() | SingleNetworkMinimizable | [inline, virtual] |
| NetworkMinimizable::GetExperiment(int expNum) | NetworkMinimizable | [virtual] |
| GetInitialChemConcOptimizable() const | SingleNetworkMinimizable | [inline] |
| GetInitialChemConcWeight() const | SingleNetworkMinimizable | [inline] |
| NetworkMinimizable::GetInitialChemConcWeight() | NetworkMinimizable | [inline] |
| GetLogsInObjectiveFunction() const | SingleNetworkMinimizable | [inline] |
| GetNBFactors() | SingleNetworkMinimizable | [inline] |
| GetNCells() | SingleNetworkMinimizable | [inline] |
| GetNParameters() | SingleNetworkMinimizable | [virtual] |
| GetNParameters() | SingleNetworkMinimizable | [virtual] |
| NLLSMinimizable::GetNResiduals() | NLLSMinimizable | [inline] |
| NetworkMinimizable::GetNResiduals() | NLLSMinimizable | [inline] |
| GetParameter(int parIndex) | SingleNetworkMinimizable | [virtual] |
| GetParameter(int parIndex) | SingleNetworkMinimizable | [virtual] |
| GetRateConstantsOptimizable() const | SingleNetworkMinimizable | [inline] |
| GetRateConstantsWeight() const | SingleNetworkMinimizable | [inline] |
| NetworkMinimizable::GetRateConstantsWeight() | NetworkMinimizable | [inline] |
| NLLSMinimizable::GetResiduals() | NLLSMinimizable | [inline] |
| NetworkMinimizable::GetResiduals() | NLLSMinimizable | [inline] |
| GetTimeSeriesWeight() const | SingleNetworkMinimizable | [inline] |
| NetworkMinimizable::GetTimeSeriesWeight() | NetworkMinimizable | [inline] |
| Gradient(double *parameters) | Minimizable | [inline, virtual] |
| Hessian(double *parameters) | Minimizable | [inline, virtual] |
| initialChemConcOptimizable | SingleNetworkMinimizable | [private] |
| initialChemConcWeight | SingleNetworkMinimizable | [private] |
| Initialize(Experiment *experiment, CReactionMover *reactionMover, int nCells, bool rateConstantsOptimizable, bool initialChemConcOptimizable, bool logsInObjectiveFunction, double timeSeriesWeight, double rateConstantsWeight, double initialChemConcWeight) | SingleNetworkMinimizable | [virtual] |
| Initialize(Experiment *experiment, CReactionMover *reactionMover, int nCells, bool rateConstantsOptimizable, bool initialChemConcOptimizable, bool logsInObjectiveFunction, double timeSeriesWeight, double rateConstantsWeight, double initialChemConcWeight) | SingleNetworkMinimizable | [virtual] |
| NetworkMinimizable::Initialize(std::vector< Experiment * > experiments, std::vector< CReactionMover * > reactionMovers, int nCells, bool rateConstantsOptimizable, bool initialChemConcOptimizable, bool logsInObjectiveFunction, double timeSeriesWeight, double rateConstantsWeight, double initialChemConcWeight) | NetworkMinimizable | [virtual] |
| initialNetworkData | SingleNetworkMinimizable | [private] |
| initialNetworkData | SingleNetworkMinimizable | [private] |
| logsInObjectiveFunction | SingleNetworkMinimizable | [private] |
| NLLSMinimizable::m_dEnergyLastComputed | Minimizable | [protected] |
| NetworkMinimizable::m_dEnergyLastComputed | Minimizable | [protected] |
| NLLSMinimizable::m_dEntropyLastComputed | Minimizable | [protected] |
| NetworkMinimizable::m_dEntropyLastComputed | Minimizable | [protected] |
| m_iNBFactors | SingleNetworkMinimizable | [private] |
| m_pConversionFactors | SingleNetworkMinimizable | [private] |
| nCells | SingleNetworkMinimizable | [private] |
| NetworkMinimizable() | NetworkMinimizable | |
| NLLSMinimizable::NLLSMinimizable() | NLLSMinimizable | |
| NetworkMinimizable::NLLSMinimizable() | NLLSMinimizable | |
| Notify() | Subject | [inline, virtual] |
| NLLSMinimizable::nResiduals | NLLSMinimizable | [protected] |
| NetworkMinimizable::nResiduals | NLLSMinimizable | [protected] |
| ObjectiveFunction(double *parameters) | NLLSMinimizable | [virtual] |
| rateConstantsOptimizable | SingleNetworkMinimizable | [private] |
| rateConstantsWeight | SingleNetworkMinimizable | [private] |
| reactionMover | SingleNetworkMinimizable | [private] |
| reactionMover | SingleNetworkMinimizable | [private] |
| NLLSMinimizable::residuals | NLLSMinimizable | [protected] |
| NetworkMinimizable::residuals | NLLSMinimizable | [protected] |
| SetInitialChemConcWeight(double initialChemConcWeight) | SingleNetworkMinimizable | [inline] |
| NLLSMinimizable::SetNResiduals(int nResiduals) | NLLSMinimizable | [inline] |
| NetworkMinimizable::SetNResiduals(int nResiduals) | NLLSMinimizable | [inline] |
| SetRateConstantsWeight(double rateConstantsWeight) | SingleNetworkMinimizable | [inline] |
| SetTimeSeriesWeight(double timeSeriesWeight) | SingleNetworkMinimizable | [inline] |
| SingleNetworkMinimizable() | SingleNetworkMinimizable | |
| SingleNetworkMinimizable(Experiment *experiment, CReactionMover *reactionMover, bool rateConstantsOptimizable, bool initialChemConcOptimizable, bool logsInObjectiveFunction, double timeSeriesWeight, double rateConstantsWeight, double initialChemConcWeight, int nCells=1) | SingleNetworkMinimizable | |
| SingleNetworkMinimizable() | SingleNetworkMinimizable | |
| SingleNetworkMinimizable(Experiment *experiment, CReactionMover *reactionMover, bool rateConstantsOptimizable, bool initialChemConcOptimizable, bool logsInObjectiveFunction, double timeSeriesWeight, double rateConstantsWeight, double initialChemConcWeight, int nCells=1) | SingleNetworkMinimizable | |
| Subject::Subject() | Subject | [inline, protected] |
| NetworkMinimizable::Subject() | Subject | [inline, protected] |
| NLLSMinimizable::SumOfSquares() | NLLSMinimizable | |
| NetworkMinimizable::SumOfSquares() | NLLSMinimizable | |
| timeSeriesWeight | SingleNetworkMinimizable | [private] |
| ~NetworkMinimizable() | NetworkMinimizable | [virtual] |
| ~NLLSMinimizable() | NLLSMinimizable | [virtual] |
| ~SingleNetworkMinimizable() | SingleNetworkMinimizable | [virtual] |
| ~SingleNetworkMinimizable() | SingleNetworkMinimizable | [virtual] |
| ~Subject() | Subject | [inline, virtual] |
