ReactionBuilder.RuleBasedBuilder (singa-simulation 0.7.0 API)

java.lang.Object
- bio.singa.simulation.model.modules.concentration.imlementations.reactions.ReactionBuilder.GeneralReactionBuilder
- - bio.singa.simulation.model.modules.concentration.imlementations.reactions.ReactionBuilder.RuleBasedBuilder

All Implemented Interfaces:

ReactionBuilder.ComplexBuildingReactionStep, ReactionBuilder.FinalStep, ReactionBuilder.IrreversibleReactionStep, ReactionBuilder.KineticStep, ReactionBuilder.MichaelisMentenReactionStep, ReactionBuilder.ParameterStep, ReactionBuilder.ReversibleReactionStep, ReactionBuilder.RuleBasedStep, ModuleBuilder

Enclosing class:

ReactionBuilder
```
public static class ReactionBuilder.RuleBasedBuilder
extends ReactionBuilder.GeneralReactionBuilder
implements ReactionBuilder.RuleBasedStep, ReactionBuilder.KineticStep
```

Field Summary
- Fields inherited from class bio.singa.simulation.model.modules.concentration.imlementations.reactions.ReactionBuilder.GeneralReactionBuilder
  reaction, simulation

Constructor Summary

Constructors
Constructor Description

RuleBasedBuilder(Simulation simulation)

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`Reaction`	`build()`
`ReactionBuilder.ComplexBuildingReactionStep`	`complexBuilding()`	Complex building reactions classically require two substrates that react to build one complex.
`void`	`preReaction(ReactionChain chain)`
`ReactionBuilder.KineticStep`	`rule(ReactionChain chain)`

Methods inherited from class bio.singa.simulation.model.modules.concentration.imlementations.reactions.ReactionBuilder.GeneralReactionBuilder
associationRate, backwardReactionRate, condition, createModule, dissociationRate, evidence, evidence, forwardReactionRate, getModule, identifier, irreversible, kineticLaw, michaelisConstant, michaelisMenten, rate, referenceParameter, referenceParameter, referenceParameter, referenceParameter, referenceParameter, referenceParameter, referenceParameter, reversible, turnover

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

Methods inherited from interface bio.singa.simulation.model.modules.concentration.imlementations.reactions.ReactionBuilder.KineticStep
irreversible, kineticLaw, michaelisMenten, reversible

- Constructor Detail
  - RuleBasedBuilder
```
public RuleBasedBuilder(Simulation simulation)
```
- Method Detail
  - rule
```
public ReactionBuilder.KineticStep rule(ReactionChain chain)
```
    Specified by:
    
    rule in interface ReactionBuilder.RuleBasedStep
  - preReaction
```
public void preReaction(ReactionChain chain)
```
    Specified by:
    
    preReaction in interface ReactionBuilder.RuleBasedStep
  - complexBuilding
```
public ReactionBuilder.ComplexBuildingReactionStep complexBuilding()
```
    Description copied from interface: ReactionBuilder.KineticStep
    
    Complex building reactions classically require two substrates that react to build one complex. The reaction rate is described by a association rate (k1 or forwards rate) and a dissociation rate (k-1 or backwards rate).
    
    Specified by:
    
    complexBuilding in interface ReactionBuilder.KineticStep
    
    Returns:
    
    complex building reaction step
  - build
```
public Reaction build()
```
    Specified by:
    
    build in interface ModuleBuilder
    
    Specified by:
    
    build in interface ReactionBuilder.FinalStep
    
    Overrides:
    
    build in class ReactionBuilder.GeneralReactionBuilder