Package org.biopax.paxtools.pattern.constraint

Class PathConstraint

java.lang.Object

org.biopax.paxtools.pattern.constraint.ConstraintAdapter

org.biopax.paxtools.pattern.constraint.PathConstraint

All Implemented Interfaces:

Constraint

public class PathConstraint
extends ConstraintAdapter

PathConstraint encapsulates PathAccessor of Paxtools.

Author:

Ozgun Babur

Field Summary

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

blacklist, size

Constructor Summary

Constructors

Constructor	Description
PathConstraint(String path)	Constructor with the constructor String of PathAccessor.

Method Summary

Modifier and Type	Method	Description
boolean	canGenerate()	This is a generative constraint.
Collection<BioPAXElement>	generate(Match match, int... ind)	Uses the encapsulated PAthAccessor to generate satisfying elements.
boolean	satisfies(Match match, int... ind)	Checks if the PathAccessor is generating the second mapped element.

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

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

Methods inherited from class java.lang.Object

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

Constructor Details

PathConstraint

public PathConstraint(String path)

Constructor with the constructor String of PathAccessor.

Parameters:

path - constructor String of PathAccessor

Method Details

satisfies

public boolean satisfies(Match match,
 int... ind)

Checks if the PathAccessor is generating the second mapped element.

Specified by:

satisfies in interface Constraint

Overrides:

satisfies in class ConstraintAdapter

Parameters:

match - current pattern match

ind - mapped indices

Returns:

true if second element is generated by PathAccessor

canGenerate

public boolean canGenerate()

This is a generative constraint.

Specified by:

canGenerate in interface Constraint

Overrides:

canGenerate in class ConstraintAdapter

Returns:

true

generate

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

Uses the encapsulated PAthAccessor to generate satisfying elements.

Specified by:

generate in interface Constraint

Overrides:

generate in class ConstraintAdapter

Parameters:

match - current pattern match

ind - mapped indices

Returns:

generated elements