org.simBio.bio.oka_et_al_2006.function.kinetics
Class MultiStateModel

java.lang.Object
  org.simBio.core.Component
      org.simBio.core.Parameter
          org.simBio.core.Composite
              org.simBio.core.Reactor
                  org.simBio.bio.oka_et_al_2006.function.kinetics.MultiStateModel

All Implemented Interfaces:

IResetBeforeCalc, Node

public class MultiStateModel
extends Reactor
implements IResetBeforeCalc

Ligand-operated multi transition model.

Version:

$Revision: 1.1 $

Author:

Chiaki Oka

See Also:

MultiStateModel.ja.doc (Japanese, WORD doc)

Field Summary

double	a forward rate constant
double	b backward rate constant
Node	close closed state probability
Node	ligand ligand concentration
Node	open open state probability
double	step the number of reaction steps

Fields inherited from class org.simBio.core.Parameter

value

Constructor Summary

MultiStateModel()

Method Summary

protected void	calculate(double t) write equations here, and calculate dy over dt.
protected void	prepare() 親が自分と同じ名前のpublic doubleを持っていれば、自分の値を設定する。

Methods inherited from class org.simBio.core.Composite

accept, getLink, getNode, getNodesIterator, getNodesSize

Methods inherited from class org.simBio.core.Parameter

addValue, getValue, getValueString, setInitializer, setValue, setValueString, setValueToField

Methods inherited from class org.simBio.core.Component

addDydt, end, getIndent, getIndentedShortName, getName, getName, getParent, getRoot, getShortName, getUnits, isNamed, isPrefixed, logIndented, quit, setLinks

Methods inherited from class java.lang.Object

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

Methods inherited from interface org.simBio.core.Node

addDydt, addValue, getValue, setValue

Field Detail

open

public Node open

open state probability

close

public Node close

closed state probability

ligand

public Node ligand

ligand concentration

a

public double a

forward rate constant

b

public double b

backward rate constant

step

public double step

the number of reaction steps

Constructor Detail

MultiStateModel

public MultiStateModel()

Method Detail

calculate

protected void calculate(double t)

Description copied from class: Reactor

write equations here, and calculate dy over dt.
計算中に呼び出される。 計算式を記載する。dy/dtをここで計算する。

Specified by:

calculate in class Reactor

Parameters:

t - elapsed time (ms)

See Also:

Reactor.calculate(double)

prepare

protected void prepare()

Description copied from class: Parameter

親が自分と同じ名前のpublic doubleを持っていれば、自分の値を設定する。

Overrides:

prepare in class Parameter

See Also:

Component.prepare()