fern.network

Class ConstantAmountManager

java.lang.Object

fern.network.ConstantAmountManager

All Implemented Interfaces:

AmountManager

public class ConstantAmountManager
extends Object
implements AmountManager

Constructor Summary

Constructors

Constructor and Description
ConstantAmountManager(long constantAmount)

Method Summary

Modifier and Type	Method and Description
long	getAmount(int species) Gets the current amount of a species.
void	performReaction(int reaction, int times) Reflects a (multiple) firing of a reaction by adjusting the populations of the reactants and the products.
void	resetAmount() Resets the amount of each species to the initial amount retrieved by the networks AnnotationManager.
void	rollback() Restore the amount array from the recently saved one.
void	save() Makes a copy of the amount array.
void	setAmount(int species, long amount) Sets the current amount of a species.

Methods inherited from class java.lang.Object

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

Constructor Detail

ConstantAmountManager

public ConstantAmountManager(long constantAmount)

Method Detail

getAmount

public long getAmount(int species)

Description copied from interface: AmountManager

Gets the current amount of a species.

Specified by:

getAmount in interface AmountManager

Parameters:

species - index of the species

Returns:

actual amount of the species

performReaction

public void performReaction(int reaction,
                            int times)

Description copied from interface: AmountManager

Reflects a (multiple) firing of a reaction by adjusting the populations of the reactants and the products. If a population becomes negative, a RuntimeException is thrown.

Specified by:

performReaction in interface AmountManager

Parameters:

reaction - the index of the reaction fired

times - the number of firings

resetAmount

public void resetAmount()

Description copied from interface: AmountManager

Resets the amount of each species to the initial amount retrieved by the networks AnnotationManager. This is called whenever a Simulator is started.

Specified by:

resetAmount in interface AmountManager

rollback

public void rollback()

Description copied from interface: AmountManager

Restore the amount array from the recently saved one.

Specified by:

rollback in interface AmountManager

save

public void save()

Description copied from interface: AmountManager

Makes a copy of the amount array.

Specified by:

save in interface AmountManager

setAmount

public void setAmount(int species,
                      long amount)

Description copied from interface: AmountManager

Sets the current amount of a species.

Specified by:

setAmount in interface AmountManager

Parameters:

species - index of the species