org.biopax.paxtools.io.sif.level2

Class ConsecutiveCatalysisRule

java.lang.Object

org.biopax.paxtools.io.sif.level2.InteractionRuleL2Adaptor

org.biopax.paxtools.io.sif.level2.ConsecutiveCatalysisRule

All Implemented Interfaces:

InteractionRule, InteractionRuleL2

public class ConsecutiveCatalysisRule
extends InteractionRuleL2Adaptor

This class creates an interaction between two entities if they are catalyzing consecutive conversions. Conversions are considered consecutive if one of the RIGHT participants of one reaction is the LEFT of the other and if the directions of catalysis and control matches. User: demir Date: Dec 28, 2007 Time: 10:40:01 PM

Constructor Summary

Constructors

Constructor and Description
ConsecutiveCatalysisRule()

Method Summary

Modifier and Type	Method and Description
List<BinaryInteractionType>	getRuleTypes() Gets supported interaction types.
void	inferInteractionsFromPE(InteractionSet interactionSet, physicalEntity pe, Model model) Infers using the given physicalEntity as source.

Methods inherited from class org.biopax.paxtools.io.sif.level2.InteractionRuleL2Adaptor

inferInteractions, initOptions, initOptionsNotNull

Methods inherited from class java.lang.Object

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

Constructor Detail

ConsecutiveCatalysisRule

public ConsecutiveCatalysisRule()

Method Detail

inferInteractionsFromPE

public void inferInteractionsFromPE(InteractionSet interactionSet,
                                    physicalEntity pe,
                                    Model model)

Infers using the given physicalEntity as source.

Parameters:

interactionSet - to be populated

pe - source of the interaction

model - BioPAX model

getRuleTypes

public List<BinaryInteractionType> getRuleTypes()

Gets supported interaction types.

Returns:

supported interaction types