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