Package org.biopax.paxtools.pattern.constraint

Class ConstraintChain

java.lang.Object

org.biopax.paxtools.pattern.constraint.ConstraintAdapter

org.biopax.paxtools.pattern.constraint.ConstraintChain

All Implemented Interfaces:

Constraint

public class ConstraintChain
extends ConstraintAdapter

Used for using several constraints as a chain. The generated elements from a constraint is used as input by the next constraint in the chain. All constraints except the first one has to be size 2.

Author:

Ozgun Babur

Field Summary

Fields inherited from class org.biopax.paxtools.pattern.constraint.ConstraintAdapter

blacklist, size

Constructor Summary

Constructors

Constructor	Description
ConstraintChain(Constraint... con)	Constructor with the chained constraints.

Method Summary

Modifier and Type	Method	Description
Collection<BioPAXElement>	generate(Match match, int... ind)	Chains the member constraints and returns the output of the last constraint.

Methods inherited from class org.biopax.paxtools.pattern.constraint.ConstraintAdapter

assertIndLength, canGenerate, convertStepDirection, findDirectionInCatalysis, findDirectionInPathways, getCatalysisDirection, getControlChain, getConvParticipants, getDirection, getDirection, getDirection, getDirection, getVariableSize, satisfies, setSize

Methods inherited from class java.lang.Object

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

Constructor Details

ConstraintChain

public ConstraintChain(Constraint... con)

Constructor with the chained constraints. All constraints has to be generative, and all constraints, except the first one, has to be size 2. The input to these constraints is the element that is generated by the previous constraint in the chain.

Parameters:

con - mapped constraints

Method Details

generate

public Collection<BioPAXElement> generate(Match match,
 int... ind)

Chains the member constraints and returns the output of the last constraint.

Specified by:

generate in interface Constraint

Overrides:

generate in class ConstraintAdapter

Parameters:

match - match to process

ind - mapped indices

Returns:

satisfying elements