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org.geneontology.obographs.owlapi.FromOwl Maven / Gradle / Ivy
package org.geneontology.obographs.owlapi;
import java.util.ArrayList;
import java.util.HashMap;
import java.util.HashSet;
import java.util.List;
import java.util.Map;
import java.util.Set;
import java.util.stream.Collectors;
import org.geneontology.obographs.io.PrefixHelper;
import org.geneontology.obographs.model.Edge;
import org.geneontology.obographs.model.Graph;
import org.geneontology.obographs.model.GraphDocument;
import org.geneontology.obographs.model.Meta;
import org.geneontology.obographs.model.Node;
import org.geneontology.obographs.model.Node.Builder;
import org.geneontology.obographs.model.Node.RDFTYPES;
import org.geneontology.obographs.model.axiom.DomainRangeAxiom;
import org.geneontology.obographs.model.axiom.EquivalentNodesSet;
import org.geneontology.obographs.model.axiom.ExistentialRestrictionExpression;
import org.geneontology.obographs.model.axiom.LogicalDefinitionAxiom;
import org.geneontology.obographs.model.axiom.PropertyChainAxiom;
import org.geneontology.obographs.model.meta.BasicPropertyValue;
import org.geneontology.obographs.model.meta.DefinitionPropertyValue;
import org.geneontology.obographs.model.meta.SynonymPropertyValue;
import org.geneontology.obographs.model.meta.SynonymPropertyValue.SCOPES;
import org.geneontology.obographs.model.meta.XrefPropertyValue;
import org.semanticweb.owlapi.model.IRI;
import org.semanticweb.owlapi.model.OWLAnnotation;
import org.semanticweb.owlapi.model.OWLAnnotationAssertionAxiom;
import org.semanticweb.owlapi.model.OWLAnnotationProperty;
import org.semanticweb.owlapi.model.OWLAnnotationSubject;
import org.semanticweb.owlapi.model.OWLAnnotationValue;
import org.semanticweb.owlapi.model.OWLAnonymousIndividual;
import org.semanticweb.owlapi.model.OWLAxiom;
import org.semanticweb.owlapi.model.OWLClass;
import org.semanticweb.owlapi.model.OWLClassAssertionAxiom;
import org.semanticweb.owlapi.model.OWLClassExpression;
import org.semanticweb.owlapi.model.OWLDeclarationAxiom;
import org.semanticweb.owlapi.model.OWLEntity;
import org.semanticweb.owlapi.model.OWLEquivalentClassesAxiom;
import org.semanticweb.owlapi.model.OWLIndividual;
import org.semanticweb.owlapi.model.OWLInverseObjectPropertiesAxiom;
import org.semanticweb.owlapi.model.OWLLiteral;
import org.semanticweb.owlapi.model.OWLLogicalAxiom;
import org.semanticweb.owlapi.model.OWLNamedIndividual;
import org.semanticweb.owlapi.model.OWLObjectAllValuesFrom;
import org.semanticweb.owlapi.model.OWLObjectIntersectionOf;
import org.semanticweb.owlapi.model.OWLObjectProperty;
import org.semanticweb.owlapi.model.OWLObjectPropertyAssertionAxiom;
import org.semanticweb.owlapi.model.OWLObjectPropertyAxiom;
import org.semanticweb.owlapi.model.OWLObjectPropertyDomainAxiom;
import org.semanticweb.owlapi.model.OWLObjectPropertyExpression;
import org.semanticweb.owlapi.model.OWLObjectPropertyRangeAxiom;
import org.semanticweb.owlapi.model.OWLObjectSomeValuesFrom;
import org.semanticweb.owlapi.model.OWLOntology;
import org.semanticweb.owlapi.model.OWLOntologyID;
import org.semanticweb.owlapi.model.OWLProperty;
import org.semanticweb.owlapi.model.OWLPropertyExpression;
import org.semanticweb.owlapi.model.OWLSubClassOfAxiom;
import org.semanticweb.owlapi.model.OWLSubObjectPropertyOfAxiom;
import org.semanticweb.owlapi.model.OWLSubPropertyChainOfAxiom;
import org.semanticweb.owlapi.vocab.OWLRDFVocabulary;
import com.fasterxml.jackson.core.JsonProcessingException;
import com.github.jsonldjava.core.Context;
import com.google.common.base.Optional;
/**
* Implements OWL to OG translation
* ===
*
* See OWL Mapping spec
*
* @see "[SPEC](https://github.com/geneontology/obographs/blob/master/README-owlmapping.md)"
*
*
* @author cjm
*
*/
public class FromOwl {
public static final String SUBCLASS_OF = "is_a";
public static final String SUBPROPERTY_OF = "subPropertyOf";
public static final String INVERSE_OF = "inverseOf";
private PrefixHelper prefixHelper;
private Context context;
class OBOClassDef {
List genusClassIds = new ArrayList<>();
List restrs = new ArrayList<>();
}
/**
*
*/
public FromOwl() {
prefixHelper = new PrefixHelper();
context = prefixHelper.getContext();
}
/**
* @param baseOntology
* @return GraphDocument where each graph is an ontology in the ontology closure
* @see OWL Mapping spec
*/
public GraphDocument generateGraphDocument(OWLOntology baseOntology) {
List graphs = new ArrayList<>();
for (OWLOntology ont : baseOntology.getImportsClosure()) {
graphs.add( generateGraph(ont));
}
return new GraphDocument.Builder().graphs(graphs).build();
}
/**
* @param ontology
* @return Graph generated from ontology
*/
public Graph generateGraph(OWLOntology ontology) {
SynonymVocabulary synonymVocabulary = new SynonymVocabulary();
List edges = new ArrayList<>();
List nodes = new ArrayList<>();
List ensets = new ArrayList<>();
List ldas = new ArrayList<>();
Set nodeIds = new HashSet<>();
Map nodeTypeMap = new HashMap<>();
Map nodeLabelMap = new HashMap<>();
Map domainRangeBuilderMap = new HashMap<>();
List pcas = new ArrayList<>();
// Each node can be built from multiple axioms; use a builder for each nodeId
Map nodeMetaBuilderMap = new HashMap<>();
Set untranslatedAxioms = new HashSet<>();
// iterate over all axioms and push to relevant builders
for (OWLAxiom ax : ontology.getAxioms()) {
Meta meta = getAnnotations(ax);
if (ax instanceof OWLDeclarationAxiom) {
OWLDeclarationAxiom dax = ((OWLDeclarationAxiom)ax);
OWLEntity e = dax.getEntity();
if (e instanceof OWLClass) {
setNodeType(getClassId((OWLClass) e), RDFTYPES.CLASS, nodeTypeMap);
}
else if (e instanceof OWLProperty) {
setNodeType(getPropertyId((OWLProperty) e), RDFTYPES.PROPERTY, nodeTypeMap);
}
else if (e instanceof OWLNamedIndividual) {
setNodeType(getIndividualId((OWLNamedIndividual) e), RDFTYPES.INDIVIDUAL, nodeTypeMap);
}
}
else if (ax instanceof OWLLogicalAxiom) {
// LOGICAL AXIOMS
if (ax instanceof OWLSubClassOfAxiom) {
// SUBCLASS
OWLSubClassOfAxiom sca = (OWLSubClassOfAxiom)ax;
OWLClassExpression subc = sca.getSubClass();
OWLClassExpression supc = sca.getSuperClass();
String subj = null;
if (subc.isAnonymous()) {
// GCI
/*
* TBD: Model for GCIs. See https://github.com/obophenotype/uberon/wiki/Evolutionary-variability-GCIs
if (subc instanceof OWLObjectIntersectionOf) {
OBOClassDef cdef = getClassDef(((OWLObjectIntersectionOf)subc).getOperands());
if (cdef.genusClassIds.size() == 1) {
subj = cdef.genusClassIds.get(0);
}
if (subc instanceof OWLObjectSomeValuesFrom) {
// Some axioms such as phylogenetic GCIs are encoded this way
ExistentialRestrictionExpression r = getRestriction(subc);
subj = r.getFillerId();
}
}
*/
}
else {
// SUBJECT IS NAMED CLASS (non-GCI)
subj = getClassId((OWLClass) subc);
}
if (subj != null) {
setNodeType(subj, RDFTYPES.CLASS, nodeTypeMap);
if (supc.isAnonymous()) {
if (supc instanceof OWLObjectSomeValuesFrom) {
ExistentialRestrictionExpression r = getRestriction(supc);
if (r == null) {
untranslatedAxioms.add(sca);
}
else {
Edge e = getEdge(subj, r.getPropertyId(), r.getFillerId());
edges.add(e);
}
}
else if (supc instanceof OWLObjectAllValuesFrom) {
OWLObjectAllValuesFrom avf = (OWLObjectAllValuesFrom)supc;
DomainRangeAxiom.Builder b = getDRBuilder(avf.getProperty(), domainRangeBuilderMap);
if (avf.getFiller().isAnonymous()) {
}
else {
Edge e = getEdge(subj,
b.predicateId(),
getClassId(avf.getFiller().asOWLClass()));
b.addAllValuesFrom(e);
}
}
else {
}
}
else {
edges.add(getEdge(subj, SUBCLASS_OF, getClassId((OWLClass) supc)));
}
}
else {
untranslatedAxioms.add(sca);
}
}
else if (ax instanceof OWLClassAssertionAxiom) {
OWLClassAssertionAxiom ca = (OWLClassAssertionAxiom)ax;
String subj = getIndividualId(ca.getIndividual());
String pred = "type";
String obj;
OWLClassExpression cx = ca.getClassExpression();
if (cx.isAnonymous()) {
untranslatedAxioms.add(ca);
continue;
}
else {
obj = getClassId(cx.asOWLClass());
}
edges.add(getEdge(subj, pred, obj));
nodeIds.add(subj); // always include
nodeIds.add(obj); // always include
}
else if (ax instanceof OWLObjectPropertyAssertionAxiom) {
OWLObjectPropertyAssertionAxiom opa = (OWLObjectPropertyAssertionAxiom)ax;
String subj = getIndividualId(opa.getSubject());
String obj = getIndividualId(opa.getObject());
if (opa.getProperty().isAnonymous()) {
untranslatedAxioms.add(opa);
}
else {
String pred = getPropertyId(opa.getProperty().asOWLObjectProperty());
edges.add(getEdge(subj, pred, obj));
}
nodeIds.add(subj); // always include subject node of an OPA
}
else if (ax instanceof OWLEquivalentClassesAxiom) {
// EQUIVALENT
OWLEquivalentClassesAxiom eca = (OWLEquivalentClassesAxiom)ax;
List xs = eca.getClassExpressionsAsList();
List anonXs =
xs.stream().filter(x -> x.isAnonymous()).collect(Collectors.toList());
List namedXs =
xs.stream().filter(x -> !x.isAnonymous()).collect(Collectors.toList());
Set xClassIds =
namedXs.stream().map(x -> getClassId((OWLClass)x)).collect(Collectors.toSet());
if (anonXs.size() == 0) {
// EquivalentNodesSet
// all classes in equivalence axiom are named
// TODO: merge pairwise assertions into a clique
EquivalentNodesSet enset =
new EquivalentNodesSet.Builder().nodeIds(xClassIds).build();
ensets.add(enset);
}
else {
// possibilities are:
// - LogicalDefinitionAxiom
// - TBD
if (anonXs.size() == 1 && namedXs.size() == 1) {
OWLClassExpression anonX = anonXs.get(0);
if (anonX instanceof OWLObjectIntersectionOf) {
Set ixs =
((OWLObjectIntersectionOf)anonX).getOperands();
OBOClassDef classDef = getClassDef(ixs);
// List genusClassIds = new ArrayList<>();
// List restrs = new ArrayList<>();
// boolean isLDA = true;
// for (OWLClassExpression ix : ixs) {
// if (!ix.isAnonymous()) {
// genusClassIds.add(getClassId((OWLClass)ix));
// }
// else if (ix instanceof OWLObjectSomeValuesFrom) {
// restrs.add(getRestriction(ix));
// }
// else {
// isLDA = false;
// break;
// }
//
// }
if (classDef != null) {
LogicalDefinitionAxiom lda =
new LogicalDefinitionAxiom.Builder().
definedClassId(getClassId((OWLClass) namedXs.get(0))).
genusIds(classDef.genusClassIds).
restrictions(classDef.restrs).
build();
ldas.add(lda);
}
else {
untranslatedAxioms.add(eca);
}
}
}
else {
}
}
}
else if (ax instanceof OWLObjectPropertyAxiom) {
if (ax instanceof OWLSubObjectPropertyOfAxiom) {
OWLSubObjectPropertyOfAxiom spa = (OWLSubObjectPropertyOfAxiom)ax;
if (spa.getSubProperty().isAnonymous()) {
}
else if (spa.getSuperProperty().isAnonymous()) {
}
else {
String subj = getPropertyId(spa.getSubProperty().asOWLObjectProperty());
String obj = getPropertyId(spa.getSuperProperty().asOWLObjectProperty());
edges.add(getEdge(subj, SUBPROPERTY_OF, obj));
}
}
else if (ax instanceof OWLInverseObjectPropertiesAxiom) {
OWLInverseObjectPropertiesAxiom ipa = (OWLInverseObjectPropertiesAxiom)ax;
if (ipa.getFirstProperty().isAnonymous()) {
}
else if (ipa.getSecondProperty().isAnonymous()) {
}
else {
String p1 = getPropertyId(ipa.getFirstProperty().asOWLObjectProperty());
String p2 = getPropertyId(ipa.getSecondProperty().asOWLObjectProperty());
edges.add(getEdge(p1, INVERSE_OF, p2));
}
}
else if (ax instanceof OWLSubPropertyChainOfAxiom) {
OWLSubPropertyChainOfAxiom spc = (OWLSubPropertyChainOfAxiom)ax;
if (spc.getSuperProperty().isAnonymous()) {
}
else {
String p = getPropertyId(spc.getSuperProperty().asOWLObjectProperty());
List cpids = spc.getPropertyChain().stream().map(
cp -> cp.isAnonymous() ? null : getPropertyId(cp.asOWLObjectProperty())).
collect(Collectors.toList());
if (cpids.stream().filter(pid -> pid == null).collect(Collectors.toList()).size() == 0) {
pcas.add(new PropertyChainAxiom.Builder().predicateId(p).chainPredicateIds(cpids).build());
}
}
}
else {
translateObjectPropertyAxiom(ax, domainRangeBuilderMap);
}
}
else {
untranslatedAxioms.add(ax);
}
}
else {
// NON-LOGICAL AXIOMS
if (ax instanceof OWLAnnotationAssertionAxiom) {
OWLAnnotationAssertionAxiom aaa = (OWLAnnotationAssertionAxiom)ax;
OWLAnnotationProperty p = aaa.getProperty();
OWLAnnotationSubject s = aaa.getSubject();
// non-blank nodes
if (s instanceof IRI) {
String subj = getNodeId((IRI)s);
OWLAnnotationValue v = aaa.getValue();
String lv = null;
if (v instanceof OWLLiteral) {
lv = ((OWLLiteral)v).getLiteral();
}
IRI pIRI = p.getIRI();
if (p.isLabel()) {
if (lv != null) {
nodeIds.add(subj);
nodeLabelMap.put(subj, lv);
}
}
else if (isDefinitionProperty(pIRI)) {
if (lv != null) {
DefinitionPropertyValue def =
new DefinitionPropertyValue.Builder().
val(lv).
xrefs(meta.getXrefsValues()).
build();
Meta.Builder nb = getMetaBuilder(nodeMetaBuilderMap, subj);
nb.definition(def);
nodeIds.add(subj);
}
}
else if (isHasXrefProperty(pIRI)) {
if (lv != null) {
XrefPropertyValue xref =
new XrefPropertyValue.Builder().
val(lv).build();
Meta.Builder nb = getMetaBuilder(nodeMetaBuilderMap, subj);
nb.addXref(xref);
nodeIds.add(subj);
}
}
else if (p.isDeprecated()) {
if (aaa.isDeprecatedIRIAssertion()) {
Meta.Builder nb = getMetaBuilder(nodeMetaBuilderMap, subj);
nb.deprecated(true);
}
}
else if (p.isComment()) {
Meta.Builder nb = getMetaBuilder(nodeMetaBuilderMap, subj);
nb.addComment(lv.toString());
}
else if (isOboInOwlIdProperty(pIRI)) {
// skip
}
else if (isInSubsetProperty(pIRI)) {
Meta.Builder nb = getMetaBuilder(nodeMetaBuilderMap, subj);
nb.addSubset(v.toString());
nodeIds.add(subj);
}
else if (synonymVocabulary.contains(pIRI.toString())) {
SCOPES scope = synonymVocabulary.get(pIRI.toString());
if (lv != null) {
SynonymPropertyValue syn = new SynonymPropertyValue.Builder().
scope(scope).
val(lv).
xrefs(meta.getXrefsValues()).
build();
Meta.Builder nb = getMetaBuilder(nodeMetaBuilderMap, subj);
nb.addSynonym(syn);
nodeIds.add(subj);
}
}
else {
Meta.Builder nb = getMetaBuilder(nodeMetaBuilderMap, subj);
String val;
if (v instanceof IRI)
val = ((IRI)v).toString();
else if (v instanceof OWLLiteral)
val = ((OWLLiteral)v).getLiteral();
else if (v instanceof OWLAnonymousIndividual)
val = ((OWLAnonymousIndividual)v).getID().toString();
else
val = null;
BasicPropertyValue pv = new BasicPropertyValue.Builder().
pred(getPropertyId(p)).
val(val).
build();
nb.addBasicPropertyValue(pv);
nodeIds.add(subj);
}
}
else {
// subject is anonymous
untranslatedAxioms.add(aaa);
}
}
}
}
for (String n : nodeIds) {
Builder nb = new Node.Builder().
id(n).
label(nodeLabelMap.get(n));
if (nodeMetaBuilderMap.containsKey(n)) {
Meta meta = nodeMetaBuilderMap.get(n).build();
nb.meta(meta);
}
if (nodeTypeMap.containsKey(n)) {
nb.type(nodeTypeMap.get(n));
}
nodes.add(nb.build());
}
String gid = null;
String version = null;
OWLOntologyID ontId = ontology.getOntologyID();
if (ontId != null) {
Optional iri = ontId.getOntologyIRI();
if (iri.isPresent()) {
gid = getNodeId(iri.orNull());
if (ontId.getVersionIRI().isPresent())
version = getNodeId(ontId.getVersionIRI().orNull());
}
}
Meta meta = getAnnotations(ontology.getAnnotations(), version);
List domainRangeAxioms =
domainRangeBuilderMap.values().stream().map(b -> b.build()).collect(Collectors.toList());
return new Graph.Builder().
id(gid).
meta(meta).
nodes(nodes).
edges(edges).
equivalentNodesSet(ensets).
logicalDefinitionAxioms(ldas).
domainRangeAxioms(domainRangeAxioms).
propertyChainAxioms(pcas).
build();
}
private void translateObjectPropertyAxiom(
OWLAxiom ax,
Map domainRangeBuilderMap) {
if (ax instanceof OWLObjectPropertyRangeAxiom) {
OWLObjectPropertyRangeAxiom rax = (OWLObjectPropertyRangeAxiom)ax;
OWLObjectPropertyExpression p = rax.getProperty();
OWLClassExpression rc = rax.getRange();
if (rc.isAnonymous()) {
}
else {
DomainRangeAxiom.Builder b = getDRBuilder(p, domainRangeBuilderMap);
b.addRangeClassId(getClassId(rc.asOWLClass()));
}
}
else if (ax instanceof OWLObjectPropertyDomainAxiom) {
OWLObjectPropertyDomainAxiom rax = (OWLObjectPropertyDomainAxiom)ax;
OWLObjectPropertyExpression p = rax.getProperty();
OWLClassExpression rc = rax.getDomain();
if (rc.isAnonymous()) {
}
else {
DomainRangeAxiom.Builder b = getDRBuilder(p, domainRangeBuilderMap);
b.addDomainClassId(getClassId(rc.asOWLClass()));
}
}
}
private DomainRangeAxiom.Builder getDRBuilder(OWLObjectPropertyExpression p, Map domainRangeBuilderMap) {
String pid;
if (p.isAnonymous()) {
//untranslatedAxioms.add(rax);
}
pid = getPropertyId((OWLObjectProperty) p);
if (!domainRangeBuilderMap.containsKey(pid)) {
domainRangeBuilderMap.put(pid, new DomainRangeAxiom.Builder().predicateId(pid));
}
return domainRangeBuilderMap.get(pid);
}
private void setNodeType(String id, RDFTYPES t,
Map nodeTypeMap) {
nodeTypeMap.put(id, t);
}
private Meta.Builder getMetaBuilder(Map nodeMetaBuilderMap, String id) {
if (!nodeMetaBuilderMap.containsKey(id))
nodeMetaBuilderMap.put(id, new Meta.Builder());
return nodeMetaBuilderMap.get(id);
}
/**
* Translate all axiom annotations into a Meta object
*
* @param ax
* @return
*/
private Meta getAnnotations(OWLAxiom ax) {
return(getAnnotations(ax.getAnnotations()));
}
private Meta getAnnotations(Set anns) {
return getAnnotations(anns, null);
}
private Meta getAnnotations(Set anns, String version) {
List xrefs = new ArrayList<>();
List bpvs = new ArrayList<>();
List inSubsets = new ArrayList<>();
boolean isDeprecated = false;
for (OWLAnnotation ann : anns) {
OWLAnnotationProperty p = ann.getProperty();
OWLAnnotationValue v = ann.getValue();
String val = v instanceof IRI ? ((IRI)v).toString() : ((OWLLiteral)v).getLiteral();
if (ann.isDeprecatedIRIAnnotation()) {
isDeprecated = true;
}
else if (isHasXrefProperty(p.getIRI())) {
xrefs.add(new XrefPropertyValue.Builder().val(val).build());
}
else if (isInSubsetProperty(p.getIRI())) {
inSubsets.add(new String(val));
}
else if (isHasSynonymTypeProperty(p.getIRI())) {
inSubsets.add(new String(val));
}
else {
bpvs.add(new BasicPropertyValue.Builder().
pred(getPropertyId(p)).
val(val).
build());
}
}
org.geneontology.obographs.model.Meta.Builder b = new Meta.Builder();
if (version != null) {
b.version(version);
}
Meta.Builder builder =
b.basicPropertyValues(bpvs).
subsets(inSubsets).
xrefs(xrefs);
if (isDeprecated)
builder.deprecated(true);
return builder.build();
}
private Edge getEdge(String subj, String pred, String obj) {
return getEdge(subj, pred, obj, null);
}
private Edge getEdge(String subj, String pred, String obj, List gciQualifiers) {
return new Edge.Builder().sub(subj).pred(pred).obj(obj).build();
}
private ExistentialRestrictionExpression getRestriction(
OWLClassExpression x) {
if (x instanceof OWLObjectSomeValuesFrom) {
OWLObjectSomeValuesFrom r = (OWLObjectSomeValuesFrom)x;
OWLPropertyExpression p = r.getProperty();
OWLClassExpression f = r.getFiller();
if (p instanceof OWLObjectProperty && !f.isAnonymous()) {
return new ExistentialRestrictionExpression.Builder()
.propertyId(getPropertyId((OWLObjectProperty) p))
.fillerId(getClassId((OWLClass) f))
.build();
}
}
return null;
}
private OBOClassDef getClassDef(Set ixs) {
OBOClassDef def = new OBOClassDef();
boolean isLDA = true;
for (OWLClassExpression ix : ixs) {
if (!ix.isAnonymous()) {
def.genusClassIds.add(getClassId((OWLClass)ix));
}
else if (ix instanceof OWLObjectSomeValuesFrom) {
def.restrs.add(getRestriction(ix));
}
else {
isLDA = false;
break;
}
}
if (!isLDA) {
return null;
}
return def;
}
// private String shortenIRI(IRI iri) {
// prefixHelper
// }
private String getPropertyId(OWLObjectProperty p) {
return p.getIRI().toString();
}
private String getPropertyId(OWLAnnotationProperty p) {
return p.getIRI().toString();
}
private String getClassId(OWLClass c) {
return c.getIRI().toString();
}
private String getPropertyId(OWLProperty p) {
return p.getIRI().toString();
}
private String getIndividualId(OWLIndividual owlIndividual) {
if (owlIndividual instanceof OWLNamedIndividual)
return owlIndividual.asOWLNamedIndividual().getIRI().toString();
else
return owlIndividual.asOWLAnonymousIndividual().getID().toString(); // TODO - document blank nodes
}
/**
* TODO: optionally compact the IRI using a prefix map
*
* @param s
* @return Id or IRI
*/
private String getNodeId(IRI s) {
return s.toString();
}
public boolean isDefinitionProperty(IRI iri) {
return iri.toString().equals("http://purl.obolibrary.org/obo/IAO_0000115");
}
public boolean isHasXrefProperty(IRI iri) {
return iri.toString().equals("http://www.geneontology.org/formats/oboInOwl#hasDbXref");
}
public boolean isInSubsetProperty(IRI iri) {
return iri.toString().equals("http://www.geneontology.org/formats/oboInOwl#inSubset");
}
public boolean isHasSynonymTypeProperty(IRI iri) {
return iri.toString().equals("http://www.geneontology.org/formats/oboInOwl#hasSynonymType");
}
public boolean isOboInOwlIdProperty(IRI iri) {
return iri.toString().equals("http://www.geneontology.org/formats/oboInOwl#id");
}
}
