AbstractProcess (Morphokinetics)

java.lang.Object
- kineticMonteCarlo.process.AbstractProcess

Direct Known Subclasses:

CatalysisProcess, ConcertedProcess, MultiAtomProcess
```
public abstract class AbstractProcess
extends java.lang.Object
```
Author:

J. Alberdi-Rodriguez

Field Summary

Fields
Modifier and Type	Field and Description
`private boolean`	`active`
`private double[]`	`edgeRate`
`private int`	`numberOfProcesses`
`private double`	`rate`
`private double`	`sumRate` Attribute for AVL tree.

Constructor Summary

Constructors
Constructor and Description

AbstractProcess(int numberOfProcesses)

Constructors
Constructor and Description
`AbstractProcess(int numberOfProcesses)`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`void`	`addRate(double rate, int neighbourPos)` This process needs a neighbour atom.
`void`	`addSumRate(double rate)`
`void`	`clear()`
`void`	`equalRate()`
`double`	`getEdgeRate(int pos)`
`double`	`getRate()`
`double`	`getSumRate()`
`boolean`	`isActive()` Current process can be executed.
`void`	`setActive(boolean active)`
`void`	`setRate(double rate)`
`void`	`setSumRate(double rate)`

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

rate
```
private double rate
```

sumRate
```
private double sumRate
```
Attribute for AVL tree.

edgeRate
```
private double[] edgeRate
```

active
```
private boolean active
```

numberOfProcesses
```
private final int numberOfProcesses
```

Constructor Detail

AbstractProcess

public AbstractProcess(int numberOfProcesses)

Method Detail

setSumRate
```
public void setSumRate(double rate)
```

getSumRate
```
public double getSumRate()
```

addSumRate
```
public void addSumRate(double rate)
```

getRate
```
public double getRate()
```

setRate
```
public void setRate(double rate)
```

addRate
```
public void addRate(double rate,
                    int neighbourPos)
```
This process needs a neighbour atom. This method stores current atom's rate. In the case of a reaction, only the half is stored. To avoid double counting, otherwise, every reaction will be counted twice.

Parameters:

rate -

neighbourPos -

isActive
```
public boolean isActive()
```
Current process can be executed.

Returns:

setActive

public void setActive(boolean active)

getEdgeRate
```
public double getEdgeRate(int pos)
```

equalRate
```
public void equalRate()
```

clear
```
public void clear()
```

Class AbstractProcess

Field Summary

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Field Detail

rate

sumRate

edgeRate

active

numberOfProcesses

Constructor Detail

AbstractProcess

Method Detail

setSumRate

getSumRate

addSumRate

getRate

setRate

addRate

isActive

setActive

getEdgeRate

equalRate

clear