Program: 9345
Project: 9345
Buggy source:
/** 
 * This method merges all the input knowledge sources and returns the filename of the new ontology.
 * @param sources set of knowledge bases
 * @return the ontology obtained from the merging of {@code sources}
 * @throws org.dllearner.core.ComponentInitException
 */
public static OWLOntology mergeOntologies(Set<KnowledgeSource> sources) throws ComponentInitException {
  logger.info("String_Node_Str" + sources.size());
  logger.info("String_Node_Str");
  List<OWLOntology> owlAPIOntologies=new LinkedList<>();
  Set<OWLImportsDeclaration> directImports=new HashSet<>();
  OWLOntologyManager manager=OWLManager.createOWLOntologyManager();
  for (  KnowledgeSource source : sources) {
    OWLOntology ontology;
    if (source instanceof OWLOntologyKnowledgeSource) {
      ontology=((OWLOntologyKnowledgeSource)source).createOWLOntology(manager);
      owlAPIOntologies.add(ontology);
    }
 else {
      String message="String_Node_Str" + source.getClass().getName();
      logger.error(message);
      throw new ComponentInitException(message);
    }
    directImports.addAll(ontology.getImportsDeclarations());
  }
  try {
    logger.info("String_Node_Str");
    OWLOntology allOntology=manager.createOntology(IRI.create("String_Node_Str"),new HashSet<OWLOntology>(owlAPIOntologies));
    List<OWLOntologyChange> addImports=new ArrayList<>();
    for (    OWLImportsDeclaration i : directImports) {
      addImports.add(new AddImport(allOntology,i));
    }
    manager.applyChanges(addImports);
    logger.info("String_Node_Str");
    return allOntology;
  }
 catch (  OWLOntologyCreationException e1) {
    String message="String_Node_Str";
    logger.error(message + e1.getMessage());
    throw new ComponentInitException(message);
  }
}

Fixed version (ground truth):
/** 
 * This method merges all the input knowledge sources and returns the filename of the new ontology.
 * @param sources set of knowledge bases
 * @return the ontology obtained from the merging of {@code sources}
 * @throws org.dllearner.core.ComponentInitException
 */
public static OWLOntology mergeOntologies(Set<KnowledgeSource> sources) throws ComponentInitException {
  logger.info("String_Node_Str" + sources.size());
  logger.info("String_Node_Str");
  List<OWLOntology> owlAPIOntologies=new LinkedList<>();
  Set<OWLImportsDeclaration> directImports=new HashSet<>();
  OWLOntologyManager manager=OWLManager.createOWLOntologyManager();
  for (  KnowledgeSource source : sources) {
    OWLOntology ontology;
    if (source instanceof OWLOntologyKnowledgeSource) {
      ontology=((OWLOntologyKnowledgeSource)source).createOWLOntology(manager);
      owlAPIOntologies.add(ontology);
    }
 else {
      String message="String_Node_Str" + source.getClass().getName();
      logger.error(message);
      throw new ComponentInitException(message);
    }
    directImports.addAll(ontology.getImportsDeclarations());
  }
  try {
    logger.info("String_Node_Str");
    OWLOntology allOntology=manager.createOntology(IRI.generateDocumentIRI(),new HashSet<OWLOntology>(owlAPIOntologies));
    List<OWLOntologyChange> addImports=new ArrayList<>();
    for (    OWLImportsDeclaration i : directImports) {
      addImports.add(new AddImport(allOntology,i));
    }
    manager.applyChanges(addImports);
    logger.info("String_Node_Str");
    return allOntology;
  }
 catch (  OWLOntologyCreationException e1) {
    String message="String_Node_Str";
    logger.error(message + e1.getMessage());
    throw new ComponentInitException(message);
  }
}