org.simulator.math.odes

Class AdamsBashforthSolver

java.lang.Object

org.simulator.math.odes.AbstractDESSolver

org.simulator.math.odes.AdaptiveStepsizeIntegrator

org.simulator.math.odes.FirstOrderSolver

org.simulator.math.odes.AdamsBashforthSolver

All Implemented Interfaces:

Serializable, Cloneable, org.apache.commons.math.ode.events.EventHandler, DelayValueHolder, DESSolver

public class AdamsBashforthSolver
extends FirstOrderSolver

This class is a wrapper for the Adams-Bashforth solver in the Apache Math Library.

Since:

0.9

Version:

$Rev$

Author:

Roland Keller

See Also:

Serialized Form

Field Summary

Fields inherited from class org.simulator.math.odes.AbstractDESSolver

PROGRESS, RESULT

Fields inherited from interface org.apache.commons.math.ode.events.EventHandler

CONTINUE, RESET_DERIVATIVES, RESET_STATE, STOP

Constructor Summary

Constructors

Constructor and Description
AdamsBashforthSolver() default constructor
AdamsBashforthSolver(AdamsBashforthSolver adamsSolver) Clone constructor
AdamsBashforthSolver(double stepSize)
AdamsBashforthSolver(double stepSize, boolean nonnegative)

Method Summary

Modifier and Type	Method and Description
AdamsBashforthSolver	clone()
void	createIntegrator() initialization function of the integrator
int	getKiSAOterm() For details about the Kinetic Simulation Algorithm Ontology (KiSAO) see http://biomodels.net/kisao/.
String	getName() This gives a human-readable name of this solver that can be displayed in a graphical user interface.

Methods inherited from class org.simulator.math.odes.FirstOrderSolver

computeChange, getIntegrator, setStepSize

Methods inherited from class org.simulator.math.odes.AdaptiveStepsizeIntegrator

getAbsTol, getRelTol, setAbsTol, setRelTol

Methods inherited from class org.simulator.math.odes.AbstractDESSolver

addPropertyChangeListener, computeDelayedValue, eventOccurred, firePropertyChange, g, getSerialversionuid, getStepSize, inBetweenSteps, isIncludeIntermediates, isNonnegative, isUnstable, processEvents, processEventsAndRules, processRules, removePropertyChangeListener, reset, resetState, setIncludeIntermediates, setNonnegative, setUnstableFlag, solve, solve, solve, solve, solve, solve, solve, solve, steadystate

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

AdamsBashforthSolver

public AdamsBashforthSolver()

default constructor

AdamsBashforthSolver

public AdamsBashforthSolver(AdamsBashforthSolver adamsSolver)

Clone constructor

Parameters:

adamsSolver -

AdamsBashforthSolver

public AdamsBashforthSolver(double stepSize)

Parameters:

stepSize -

AdamsBashforthSolver

public AdamsBashforthSolver(double stepSize,
                            boolean nonnegative)

Parameters:

stepSize -

nonnegative - the nonnegative flag of the super class

See Also:

AbstractDESSolver

Method Detail

clone

public AdamsBashforthSolver clone()

Description copied from class: AbstractDESSolver

Specified by:

clone in interface DESSolver

Specified by:

clone in class FirstOrderSolver

Returns:

the cloned solver

createIntegrator

public void createIntegrator()

Description copied from class: FirstOrderSolver

initialization function of the integrator

getName

public String getName()

Description copied from class: AbstractDESSolver

This gives a human-readable name of this solver that can be displayed in a graphical user interface.

Specified by:

getName in class AbstractDESSolver

Returns:

A name that describes the underlying algorithm.

getKiSAOterm

public int getKiSAOterm()

Description copied from interface: DESSolver

For details about the Kinetic Simulation Algorithm Ontology (KiSAO) see http://biomodels.net/kisao/.

Returns:

the KiSAO term of the algorithm