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saveModel(Model, String)
- Static method in class hSimulator.library.
Model
Saves a model to file.
saveTimeSeries(SimulatedTS, String)
- Static method in class hSimulator.library.
SimulatedTS
Saves a time series to file.
setMaxNumberOfSteps(int)
- Method in class hSimulator.library.
Simulator
Sets the maximum number of steps that the simulator can compute.
shutDown()
- Method in class hSimulator.library.
Simulator
Shuts down the java service used for parallel computing.
simDM(int, int, double)
- Method in class hSimulator.library.
Simulator
Simulates the model according to the Gillespie Direct Method (DM).
simDM(int, List<String>, int, double)
- Method in class hSimulator.library.
Simulator
Simulates the model according to the Gillespie Direct Method (DM).
simEuler(int, double, double)
- Method in class hSimulator.library.
Simulator
Simulates the model according to the Euler deterministic algorithm.
simEuler(List<String>, int, double, double)
- Method in class hSimulator.library.
Simulator
Simulates the model according to the Euler deterministic algorithm.
simHRSSA(int, int, double, int, int, int, double, double)
- Method in class hSimulator.library.
Simulator
Simulates the model according to the Hybrid Rejection-based Stochastic Simulation Algorithm (HRSSA).
simHRSSA(int, List<String>, int, double, int, int, int, double, double)
- Method in class hSimulator.library.
Simulator
Simulates the model according to the Hybrid Rejection-based Stochastic Simulation Algorithm (HRSSA).
simRK45(int, double, double, double)
- Method in class hSimulator.library.
Simulator
Simulates the model according to the Runge-Kutta-Fehlberg (RK45) deterministic algorithm.
simRK45(List<String>, int, double, double, double)
- Method in class hSimulator.library.
Simulator
Simulates the model according to the Runge-Kutta-Fehlberg (RK45) deterministic algorithm.
simRSSA(int, int, double, int, double)
- Method in class hSimulator.library.
Simulator
Simulates the model according to the Rejection-based Stochastic Simulation Algorithm (RSSA).
simRSSA(int, List<String>, int, double, int, double)
- Method in class hSimulator.library.
Simulator
Simulates the model according to the Rejection-based Stochastic Simulation Algorithm (RSSA).
SimulatedTS
- Class in
hSimulator.library
This object implements an optimized data structures for storing simulated time series.
SimulatedTS(Model, int, double)
- Constructor for class hSimulator.library.
SimulatedTS
Constructs a new object.
SimulatedTS(Model, List<String>, int, double)
- Constructor for class hSimulator.library.
SimulatedTS
Constructs a new object.
SimulationEngine
- Class in
hSimulator.library
This object implements an optimized simulation engine.
SimulationStoppedException
- Exception in
hSimulator.library
This object implements an exception that is thrown when a simulation process has been stopped by the user before normal completion.
Simulator
- Class in
hSimulator.library
This object implements an optimized, multithread model simulator.
Simulator(Model)
- Constructor for class hSimulator.library.
Simulator
Creates a new model simulator.
Simulator(Model, int)
- Constructor for class hSimulator.library.
Simulator
Creates a new model simulator.
size()
- Method in class hSimulator.library.
SimulatedTS
Returns the length of the time series stored in the object.
stateSize()
- Method in class hSimulator.library.
SimulatedTS
Returns the number of variables whose time series are stored in the object.
stop()
- Method in class hSimulator.simulator.gui.
AppFrame.UpdatePercentage
stopSimulation()
- Method in class hSimulator.library.
Simulator
Stops a simulation process before its completion.
switchReaction(int)
- Method in class hSimulator.library.
ReactionPartition
Switches the classification of the i-th reaction (fast to slow or viceversa).
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