| Package | Description | 
|---|---|
| org.simulator.math.odes | 
 The various solver classes that are all derived from
  
AbstractDESSolver. | 
| org.simulator.sedml | 
 Classes for reading and executing
 SED-ML files. 
 | 
| Modifier and Type | Class | Description | 
|---|---|---|
class  | 
AdamsBashforthSolver | 
 This class is a wrapper for the Adams-Bashforth solver in the
 Apache Math Library. 
 | 
class  | 
AdamsMoultonSolver | 
 This class is a wrapper for the Adams-Moulton solver in the
 Apache Math Library. 
 | 
class  | 
AdaptiveStepsizeIntegrator | 
 This is an abstract class for solvers with adaptive stepsizes and given
 relative and absolute tolerances. 
 | 
class  | 
DormandPrince54Solver | 
 This class is a wrapper for the Dormand-Prince-54 solver in the
 Apache Math Library. 
 | 
class  | 
DormandPrince853Solver | 
 This class is a wrapper for the Dormand-Prince-853 solver in the
 Apache Math Library. 
 | 
class  | 
EulerMethod | 
 In this class the Euler method for integration a differential equation system
 is implemented. 
 | 
class  | 
FirstOrderSolver | 
 This class is the superclass of the wrapper classes for the solvers of the
 Apache Math Library. 
 | 
class  | 
GraggBulirschStoerSolver | 
 This class is a wrapper for the Gragg-Bulirsch-Stoer solver in the
 Apache Math Library. 
 | 
class  | 
HighamHall54Solver | 
 This class is a wrapper for the Higham-Hall-54 solver in the
 Apache Math Library. 
 | 
class  | 
RosenbrockSolver | 
 An implementation of Rosenbrock's method to approximate ODE
 solutions. 
 | 
class  | 
RungeKutta_EventSolver | 
 Runge-Kutta method. 
 | 
| Modifier and Type | Field | Description | 
|---|---|---|
protected AbstractDESSolver | 
AbstractDESSolver.clonedSolver | 
 A cloned version of this object 
 | 
| Modifier and Type | Method | Description | 
|---|---|---|
abstract AbstractDESSolver | 
AbstractDESSolver.clone() | 
| Constructor | Description | 
|---|---|
AbstractDESSolver(AbstractDESSolver solver) | 
 Clone constructor. 
 | 
| Modifier and Type | Method | Description | 
|---|---|---|
void | 
SEDMLWriter.saveExperimentToSEDML(double start,
                     double end,
                     double stepsize,
                     AbstractDESSolver solver,
                     org.sbml.jsbml.Model model,
                     URI modelURI,
                     OutputStream os) | 
 Given a configured simulation, will write to SED-ML using the specified  
OutputStream. | 
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