org.obolibrary.robot

Class ReasonerHelper

java.lang.Object

org.obolibrary.robot.ReasonerHelper

public class ReasonerHelper
extends Object

Provides convenience methods for working with OWL reasoning.

Author:

cjm

Constructor Summary

Constructors

Constructor and Description
ReasonerHelper()

Method Summary

Modifier and Type	Method and Description
static org.semanticweb.owlapi.model.OWLOntology	createIncoherentModule(org.semanticweb.owlapi.reasoner.OWLReasoner reasoner, org.semanticweb.owlapi.model.IRI outputIRI)
static org.semanticweb.owlapi.util.InferredAxiomGenerator<? extends org.semanticweb.owlapi.model.OWLAxiom>	getInferredAxiomGenerator(String axGenerator) Given an axiom generator as a string, return the InferredAxiomGenerator object.
static org.semanticweb.owlapi.util.InferredAxiomGenerator<? extends org.semanticweb.owlapi.model.OWLAxiom>	getInferredAxiomGenerator(String axGenerator, boolean direct) Given an axiom generator as a string, return the InferredAxiomGenerator object.
static List<org.semanticweb.owlapi.util.InferredAxiomGenerator<? extends org.semanticweb.owlapi.model.OWLAxiom>>	getInferredAxiomGenerators(List<String> axGenerators) Given a list of axiom generator strings, return a list of InferredAxiomGenerator objects.
static List<org.semanticweb.owlapi.util.InferredAxiomGenerator<? extends org.semanticweb.owlapi.model.OWLAxiom>>	getInferredAxiomGenerators(List<String> axGenerators, boolean direct) Given a list of axiom generator strings, return a list of InferredAxiomGenerator objects.
static void	validate(org.semanticweb.owlapi.reasoner.OWLReasoner reasoner) Validates ontology.
static void	validate(org.semanticweb.owlapi.reasoner.OWLReasoner reasoner, String unsatisfiableModulePath) Validates ontology.
static void	validate(org.semanticweb.owlapi.reasoner.OWLReasoner reasoner, String unsatisfiableModulePath, IOHelper ioHelper) Validates ontology, writes unsatisfiable module.

Methods inherited from class java.lang.Object

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

Constructor Detail

ReasonerHelper

public ReasonerHelper()

Method Detail

validate

public static void validate(org.semanticweb.owlapi.reasoner.OWLReasoner reasoner)
                     throws IncoherentTBoxException,
                            InconsistentOntologyException,
                            IncoherentRBoxException

Validates ontology.

Parameters:

reasoner - OWLReasoner being used.

Throws:

IncoherentTBoxException - on unsatisfiable classes

InconsistentOntologyException - on logical inconsistencies

IncoherentRBoxException - on unsatisfiable properties

validate

public static void validate(org.semanticweb.owlapi.reasoner.OWLReasoner reasoner,
                            String unsatisfiableModulePath)
                     throws InconsistentOntologyException,
                            IncoherentRBoxException,
                            IncoherentTBoxException

Validates ontology.

Parameters:

reasoner - OWLReasoner being used.

unsatisfiableModulePath - path to unsatisfiable module as string

Throws:

IncoherentTBoxException - on unsatisfiable classes

InconsistentOntologyException - on logical inconsistencies

IncoherentRBoxException - on unsatisfiable properties

validate

public static void validate(org.semanticweb.owlapi.reasoner.OWLReasoner reasoner,
                            String unsatisfiableModulePath,
                            IOHelper ioHelper)
                     throws IncoherentTBoxException,
                            InconsistentOntologyException,
                            IncoherentRBoxException

Validates ontology, writes unsatisfiable module.

Parameters:

reasoner - OWLReasoner being used

unsatisfiableModulePath - path to unsatisfiable module as string

ioHelper - IOHelper to use

Throws:

IncoherentTBoxException - on unsatisfiable classes

InconsistentOntologyException - on logical inconsistencies

IncoherentRBoxException - on unsatisfiable properties

createIncoherentModule

public static org.semanticweb.owlapi.model.OWLOntology createIncoherentModule(org.semanticweb.owlapi.reasoner.OWLReasoner reasoner,
                                                                              org.semanticweb.owlapi.model.IRI outputIRI)
                                                                       throws org.semanticweb.owlapi.model.OWLOntologyCreationException

Parameters:

reasoner - OWLReasoner being used

outputIRI - IRI of output

Returns:

minimal incoherent module

Throws:

org.semanticweb.owlapi.model.OWLOntologyCreationException - on issue creating incoherent module

getInferredAxiomGenerators

public static List<org.semanticweb.owlapi.util.InferredAxiomGenerator<? extends org.semanticweb.owlapi.model.OWLAxiom>> getInferredAxiomGenerators(List<String> axGenerators,
                                                                                                                                                   boolean direct)

Given a list of axiom generator strings, return a list of InferredAxiomGenerator objects.

Parameters:

axGenerators - list of strings to get InferredAxiomGenerators

direct - return axiom generators which include only direct superclass/superproperties/types

Returns:

list of InferredAxiomGenerators

getInferredAxiomGenerators

public static List<org.semanticweb.owlapi.util.InferredAxiomGenerator<? extends org.semanticweb.owlapi.model.OWLAxiom>> getInferredAxiomGenerators(List<String> axGenerators)

Given a list of axiom generator strings, return a list of InferredAxiomGenerator objects.

Parameters:

axGenerators - list of strings to get InferredAxiomGenerators

Returns:

list of InferredAxiomGenerators

getInferredAxiomGenerator

public static org.semanticweb.owlapi.util.InferredAxiomGenerator<? extends org.semanticweb.owlapi.model.OWLAxiom> getInferredAxiomGenerator(String axGenerator)

Given an axiom generator as a string, return the InferredAxiomGenerator object.

Parameters:

axGenerator - name of InferredAxiomGenerator

Returns:

InferredAxiomGenerator

getInferredAxiomGenerator

public static org.semanticweb.owlapi.util.InferredAxiomGenerator<? extends org.semanticweb.owlapi.model.OWLAxiom> getInferredAxiomGenerator(String axGenerator,
                                                                                                                                            boolean direct)

Given an axiom generator as a string, return the InferredAxiomGenerator object.

Parameters:

axGenerator - name of InferredAxiomGenerator

direct - return axiom generators which include only direct superclass/superproperties/types

Returns:

InferredAxiomGenerator