无法使用 NTriples (OWLAPI) 保存本体

如何解决无法使用 NTriples (OWLAPI) 保存本体

我尝试使用 owlapi 将我的本体保存为 NTriples 格式。当我尝试保存本体时出现此错误：

Exception in thread "main" java.lang.indexoutofboundsexception: Index 1 out of bounds for length 1
    at java.base/jdk.internal.util.Preconditions.outOfBounds(Preconditions.java:64)
    at java.base/jdk.internal.util.Preconditions.outOfBoundsCheckIndex(Preconditions.java:70)
    at java.base/jdk.internal.util.Preconditions.checkIndex(Preconditions.java:248)
    at java.base/java.util.Objects.checkIndex(Objects.java:373)
    at java.base/java.util.ArrayList.get(ArrayList.java:426)
    at java.base/java.util.Collections$UnmodifiableList.get(Collections.java:1321)
    at java.base/java.util.Collections$UnmodifiableList.get(Collections.java:1321)
    at org.semanticweb.owlapi.rdf.model.AbstractTranslator.lambda$visit$3(AbstractTranslator.java:710)
    at java.base/java.lang.Iterable.forEach(Iterable.java:75)
    at org.semanticweb.owlapi.rdf.model.AbstractTranslator.visit(AbstractTranslator.java:709)
    at org.semanticweb.owlapi.model.OWLSameIndividualAxiom.accept(OWLSameIndividualAxiom.java:51)
    at org.semanticweb.owlapi.rdf.model.AbstractTranslator.translate(AbstractTranslator.java:288)
    at java.base/java.util.stream.ForEachOps$ForEachOp$OfRef.accept(ForEachOps.java:183)
    at java.base/java.util.stream.ReferencePipeline$3$1.accept(ReferencePipeline.java:195)
    at java.base/java.util.ArrayList$ArrayListSpliterator.forEachRemaining(ArrayList.java:1624)
    at java.base/java.util.stream.AbstractPipeline.copyInto(AbstractPipeline.java:484)
    at java.base/java.util.stream.AbstractPipeline.wrapAndcopyInto(AbstractPipeline.java:474)
    at java.base/java.util.stream.ForEachOps$ForEachOp.evaluateSequential(ForEachOps.java:150)
    at java.base/java.util.stream.ForEachOps$ForEachOp$OfRef.evaluateSequential(ForEachOps.java:173)
    at java.base/java.util.stream.AbstractPipeline.evaluate(AbstractPipeline.java:234)
    at java.base/java.util.stream.ReferencePipeline.forEach(ReferencePipeline.java:497)
    at org.semanticweb.owlapi.rdf.RDFRendererBase.createGraph(RDFRendererBase.java:484)
    at org.semanticweb.owlapi.rdf.RDFRendererBase.createGraph(RDFRendererBase.java:471)
    at org.semanticweb.owlapi.rdf.RDFRendererBase.lambda$renderEntities$5(RDFRendererBase.java:294)
    at java.base/java.util.stream.ReferencePipeline$2$1.accept(ReferencePipeline.java:176)
    at java.base/java.util.ArrayList$Itr.forEachRemaining(ArrayList.java:1002)
    at java.base/java.util.Spliterators$IteratorSpliterator.forEachRemaining(Spliterators.java:1801)
    at java.base/java.util.stream.AbstractPipeline.copyInto(AbstractPipeline.java:484)
    at java.base/java.util.stream.AbstractPipeline.wrapAndcopyInto(AbstractPipeline.java:474)
    at java.base/java.util.stream.ForEachOps$ForEachOp.evaluateSequential(ForEachOps.java:150)
    at java.base/java.util.stream.ForEachOps$ForEachOp$OfRef.evaluateSequential(ForEachOps.java:173)
    at java.base/java.util.stream.AbstractPipeline.evaluate(AbstractPipeline.java:234)
    at java.base/java.util.stream.ReferencePipeline.forEach(ReferencePipeline.java:497)
    at org.semanticweb.owlapi.rdf.RDFRendererBase.renderEntities(RDFRendererBase.java:295)
    at org.semanticweb.owlapi.rdf.RDFRendererBase.renderInOntologySignatureEntities(RDFRendererBase.java:280)
    at org.semanticweb.owlapi.rdf.RDFRendererBase.renderOntologyComponents(RDFRendererBase.java:263)
    at org.semanticweb.owlapi.rdf.RDFRendererBase.render(RDFRendererBase.java:258)
    at org.semanticweb.owlapi.rio.RioStorer.storeOntology(RioStorer.java:230)
    at org.semanticweb.owlapi.util.AbstractOWLStorer.store(AbstractOWLStorer.java:85)
    at org.semanticweb.owlapi.util.AbstractOWLStorer.storeOntology(AbstractOWLStorer.java:72)
    at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.saveOntology(OWLOntologyManagerImpl.java:1324)
    at preprocess.PositiveInference.inferringSemanticsofEquality(PositiveInference.java:117)
    at preprocess.PositiveInference.inferencing(PositiveInference.java:85)
    at preprocess.PositiveInference.main(PositiveInference.java:65)

而错误引用的代码是：

NTriplesdocumentFormat nTriplesFormat = new NTriplesdocumentFormat();

try {
        ontologyManager.saveOntology(ontologyInferred,nTriplesFormat,IRI.create(file.toURI()));
} catch (OWLOntologyStorageException e) {
        e.printstacktrace();
}

本体：

SameIndividual(<http://www.example.com/individual/eq#PB> )
SameIndividual(<http://www.example.com/individual/eq#transY> )
SameIndividual(<http://www.example.com/individual/eq#symX> )
SameIndividual(<http://www.example.com/individual/eq#OC> )
SameIndividual(<http://www.example.com/individual/eq#transZ> )
SameIndividual(<http://www.example.com/individual/eq#SAA> )
SameIndividual(<http://www.example.com/individual/eq#transX> )
SameIndividual(<http://www.example.com/individual/eq#OAC> )
SameIndividual(<http://www.example.com/individual/eq#refO> )
SameIndividual(<http://www.example.com/individual/eq#refS> )
SameIndividual(<http://www.example.com/individual/eq#SA> )
SameIndividual(<http://www.example.com/individual/eq#PAB> )
SameIndividual(<http://www.example.com/individual/eq#transX> <http://www.example.com/individual/eq#transY> <http://www.example.com/individual/eq#transZ> )
SameIndividual(<http://www.example.com/individual/eq#symY> )

基于OWL 2 RL/RDF规则eq-ref推理的reflexsive sameAs公理结果

如果：T(?s,?p,?o) 那么：T(?s,owl:sameAs,?s)

SameIndividual(http://www.example.com/individual/eq#PB)

推理代码：

result.add(dataFactory.getoWLSameIndividualAxiom(individual,individual));

我可以将我的本体保存为 OWLXMLFormat，但是因为我正在构建一个需要三重形式的数据集。有没有办法以任何三重形式保存它？

其他格式已经尝试过但错误：

NTriplesdocumentFormat nTriplesFormat = new NTriplesdocumentFormat();
N3DocumentFormat n3Format = new N3DocumentFormat();
TrigDocumentFormat trigFormat = new TrigDocumentFormat();
TurtleDocumentFormat  turtleFormat = new TurtleDocumentFormat();
RioTurtleDocumentFormat  rioFormat = new RioTurtleDocumentFormat();

编辑：

完整的推理代码：

public class InferredSameIndividualAxiomGenerator extends InferredindividualAxiomGenerator<OWLSameIndividualAxiom>{
    
    @Override
    protected void addAxioms(OWLNamedindividual entity,OWLreasoner reasoner,OWLDataFactory dataFactory,Set<OWLSameIndividualAxiom> result) {

        Set<OWLNamedindividual> sameIndividuals = asUnorderedSet(reasoner.getSameIndividuals(entity).entities());
        sameIndividuals.add(entity);
        result.add(dataFactory.getoWLSameIndividualAxiom(entity,entity));
        if (sameIndividuals.size() > 1) 
            result.add(dataFactory.getoWLSameIndividualAxiom(sameIndividuals));
    }

    @Override
    public String getLabel() {
        return "Same Individuals T(?x,?y)";
    }
}

解决方法

异常是一个错误（请按照评论中的建议报告它），但是请注意，这些不是合法的 OWL 公理。语法和语义规范显示 sameAs 至少需要两个参数。

（考虑到公理应该允许定义同义词个体；一个论点只提供没有新信息）

如果公理是由推断公理生成器生成的，那么看起来该代码也有错误。

可以使用 ONT-API 作为解决方法。
由于 ONTAPI 是一个以 RDF 为中心的 OWLAPI 实现，因此任何 RDF 序列化都一定没有问题（默认情况下，OWLAPI 格式被 Jena 替代品替代）。
但是，公理 SameIndividual(x,x) 仍然是非法的，要创建这样的结构需要切换到 RDF API。

示例：

    OWLOntologyManager m = OntManagers.createManager();

    OWLOntology ont = m.createOntology();
    String i = "http://i";

    OntModel g = ((Ontology) ont).asGraphModel();
    g.createIndividual(i).addSameIndividual(g.createIndividual(i));

    ont.saveOntology(new NTriplesDocumentFormat(),System.out);

输出：

<http://i> <http://www.w3.org/2002/07/owl#sameAs> <http://i> .
<http://i> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://www.w3.org/2002/07/owl#NamedIndividual> .
_:B0ee0d3dfX2D1fe4X2D4489X2D9fc3X2De18bae6cfab4 <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://www.w3.org/2002/07/owl#Ontology> .

无法使用 NTriples (OWLAPI) 保存本体

如何解决无法使用 NTriples (OWLAPI) 保存本体

解决方法

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