org.geneontology.lego.model

Class LegoTools

java.lang.Object

org.geneontology.lego.model.LegoTools

Direct Known Subclasses:

LegoUnitTools

Deprecated.

@Deprecated
public class LegoTools
extends Object

Tool to convert the OWL representation of annotations into the rendering model.

See Also:

LegoNode, LegoLink

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	LegoTools.UnExpectedStructureException Deprecated.

Field Summary

Fields

Modifier and Type	Field and Description
protected org.semanticweb.owlapi.model.OWLClass	bp Deprecated.
protected Set<org.semanticweb.owlapi.model.OWLObjectProperty>	enabled_by Deprecated.
protected OWLGraphWrapper	graph Deprecated.
protected boolean	ignoreUnknownTypes Deprecated.
protected org.semanticweb.owlapi.model.OWLClass	mf Deprecated.
protected Set<org.semanticweb.owlapi.model.OWLObjectProperty>	occurs_in Deprecated.
protected Set<org.semanticweb.owlapi.model.OWLObjectProperty>	part_of Deprecated.
protected org.semanticweb.owlapi.reasoner.OWLReasoner	reasoner Deprecated.

Constructor Summary

Constructors

Modifier	Constructor and Description
	LegoTools(OWLGraphWrapper graph, org.semanticweb.owlapi.reasoner.OWLReasoner reasoner) Deprecated.
	LegoTools(OWLGraphWrapper graph, org.semanticweb.owlapi.reasoner.OWLReasoner reasoner, boolean ignoreUnknownTypes) Deprecated.
protected	LegoTools(OWLGraphWrapper graph, org.semanticweb.owlapi.reasoner.OWLReasoner reasoner, Set<org.semanticweb.owlapi.model.OWLObjectProperty> enabled_by, Set<org.semanticweb.owlapi.model.OWLObjectProperty> occurs_in, Set<org.semanticweb.owlapi.model.OWLObjectProperty> part_of, org.semanticweb.owlapi.model.OWLClass mf, org.semanticweb.owlapi.model.OWLClass bp, boolean ignoreUnknownTypes) Deprecated.

Method Summary

Methods

Modifier and Type	Method and Description
List<LegoNode>	createLegoNodes(Collection<org.semanticweb.owlapi.model.OWLNamedIndividual> individuals) Deprecated.

Methods inherited from class java.lang.Object

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

Field Detail

graph

protected final OWLGraphWrapper graph

Deprecated.

reasoner

protected final org.semanticweb.owlapi.reasoner.OWLReasoner reasoner

Deprecated.

enabled_by

protected final Set<org.semanticweb.owlapi.model.OWLObjectProperty> enabled_by

Deprecated.

occurs_in

protected final Set<org.semanticweb.owlapi.model.OWLObjectProperty> occurs_in

Deprecated.

part_of

protected final Set<org.semanticweb.owlapi.model.OWLObjectProperty> part_of

Deprecated.

mf

protected final org.semanticweb.owlapi.model.OWLClass mf

Deprecated.

bp

protected final org.semanticweb.owlapi.model.OWLClass bp

Deprecated.

ignoreUnknownTypes

protected final boolean ignoreUnknownTypes

Deprecated.

Constructor Detail

LegoTools

public LegoTools(OWLGraphWrapper graph,
         org.semanticweb.owlapi.reasoner.OWLReasoner reasoner)

Deprecated.

Parameters:

graph -

reasoner -

LegoTools

public LegoTools(OWLGraphWrapper graph,
         org.semanticweb.owlapi.reasoner.OWLReasoner reasoner,
         boolean ignoreUnknownTypes)

Deprecated.

Parameters:

graph -

reasoner -

ignoreUnknownTypes -

LegoTools

protected LegoTools(OWLGraphWrapper graph,
         org.semanticweb.owlapi.reasoner.OWLReasoner reasoner,
         Set<org.semanticweb.owlapi.model.OWLObjectProperty> enabled_by,
         Set<org.semanticweb.owlapi.model.OWLObjectProperty> occurs_in,
         Set<org.semanticweb.owlapi.model.OWLObjectProperty> part_of,
         org.semanticweb.owlapi.model.OWLClass mf,
         org.semanticweb.owlapi.model.OWLClass bp,
         boolean ignoreUnknownTypes)

Deprecated.

Parameters:

graph -

reasoner -

enabled_by -

occurs_in -

part_of -

mf -

bp -

ignoreUnknownTypes -

Method Detail

createLegoNodes

public List<LegoNode> createLegoNodes(Collection<org.semanticweb.owlapi.model.OWLNamedIndividual> individuals)
                               throws LegoTools.UnExpectedStructureException

Deprecated.

Throws:

LegoTools.UnExpectedStructureException