Program: 12729
Project: 12729
Buggy source:
private static Participation parseParticipation(NestedDocument<QName> participation){
  URI persistentIdentity=null;
  String displayId=null;
  String version=null;
  Set<URI> roles=new HashSet<>();
  URI participant=null;
  URI wasDerivedFrom=null;
  List<Annotation> annotations=new ArrayList<>();
  for (  NamedProperty<QName> p : participation.getProperties()) {
    if (p.getName().equals(Sbol2Terms.Identified.persistentIdentity)) {
      persistentIdentity=URI.create(((Literal<QName>)p.getValue()).getValue().toString());
    }
 else     if (p.getName().equals(Sbol2Terms.Identified.version)) {
      version=((Literal<QName>)p.getValue()).getValue().toString();
    }
 else     if (p.getName().equals(Sbol2Terms.Documented.displayId)) {
      displayId=((Literal<QName>)p.getValue()).getValue().toString();
    }
 else     if (p.getName().equals(Sbol2Terms.Participation.role)) {
      roles.add(URI.create(((Literal<QName>)p.getValue()).getValue().toString()));
    }
 else     if (p.getName().equals(Sbol2Terms.Participation.hasParticipant)) {
      participant=URI.create(((Literal<QName>)p.getValue()).getValue().toString());
    }
 else     if (p.getName().equals(ProvTerms.Prov.wasDerivedFrom)) {
      wasDerivedFrom=URI.create(((Literal<QName>)p.getValue()).getValue().toString());
    }
 else {
      annotations.add(new Annotation(p));
    }
  }
  Participation p=new Participation(participation.getIdentity(),participant);
  if (!roles.isEmpty())   p.setRoles(roles);
  if (displayId != null)   p.setDisplayId(displayId);
  if (persistentIdentity != null)   p.setPersistentIdentity(persistentIdentity);
  if (version != null)   p.setVersion(version);
  if (wasDerivedFrom != null)   p.setWasDerivedFrom(wasDerivedFrom);
  if (!annotations.isEmpty())   p.setAnnotations(annotations);
  return p;
}

Fixed version (ground truth):
private static Participation parseParticipation(NestedDocument<QName> participation){
  URI persistentIdentity=null;
  String displayId=null;
  String version=null;
  Set<URI> roles=new HashSet<>();
  URI participant=null;
  URI wasDerivedFrom=null;
  List<Annotation> annotations=new ArrayList<>();
  for (  NamedProperty<QName> p : participation.getProperties()) {
    if (p.getName().equals(Sbol2Terms.Identified.persistentIdentity)) {
      persistentIdentity=URI.create(((Literal<QName>)p.getValue()).getValue().toString());
    }
 else     if (p.getName().equals(Sbol2Terms.Identified.version)) {
      version=((Literal<QName>)p.getValue()).getValue().toString();
    }
 else     if (p.getName().equals(Sbol2Terms.Documented.displayId)) {
      displayId=((Literal<QName>)p.getValue()).getValue().toString();
    }
 else     if (p.getName().equals(Sbol2Terms.Participation.role)) {
      roles.add(URI.create(((Literal<QName>)p.getValue()).getValue().toString()));
    }
 else     if (p.getName().equals(Sbol2Terms.Participation.hasParticipant)) {
      participant=URI.create(((Literal<QName>)p.getValue()).getValue().toString());
    }
 else     if (p.getName().equals(Sbol2Terms.Identified.wasDerivedFrom)) {
      wasDerivedFrom=URI.create(((Literal<QName>)p.getValue()).getValue().toString());
    }
 else {
      annotations.add(new Annotation(p));
    }
  }
  Participation p=new Participation(participation.getIdentity(),participant);
  if (!roles.isEmpty())   p.setRoles(roles);
  if (displayId != null)   p.setDisplayId(displayId);
  if (persistentIdentity != null)   p.setPersistentIdentity(persistentIdentity);
  if (version != null)   p.setVersion(version);
  if (wasDerivedFrom != null)   p.setWasDerivedFrom(wasDerivedFrom);
  if (!annotations.isEmpty())   p.setAnnotations(annotations);
  return p;
}