private OWLOntology loadOntology(
String matchingsDir,
String ontologyDir,
Map<File, String> map,
OAEI11ConferenceSession conferenceSession,
File file,
String o1,
String o2,
String n) {
OWLOntology merged =
conferenceSession.getOntology(
ontologyDir, o1, o2, matchingsDir + map.get(file), n + ".rdf");
return new OWLIncoherencyExtractor(new Reasoner.ReasonerFactory())
.getIncoherentPartAsOntology(merged);
}
public Set<FormulaSet<OWLLogicalAxiom>> getRandomDiagSet(
String matchingsDir,
String ontologyDir,
Map<File, String> map,
File file,
String o1,
String o2,
String n,
OAEI11ConferenceSession conferenceSession)
throws SolverException, InconsistentTheoryException {
OWLOntology preOntology =
loadOntology(matchingsDir, ontologyDir, map, conferenceSession, file, o1, o2, n);
OWLTheory preTheory = loadTheory(preOntology, ontologyDir, o1, o2);
TreeSearch<FormulaSet<OWLLogicalAxiom>, OWLLogicalAxiom> search =
getUniformCostSearch(preTheory, false);
Map<OWLLogicalAxiom, BigDecimal> map1 =
conferenceSession.readRdfMapping(matchingsDir + map.get(file), n + ".rdf");
OWLAxiomCostsEstimator es = new OWLAxiomCostsEstimator(preTheory, map1);
search.setCostsEstimator(es);
preTheory.getReasoner().addFormulasToCache(preTheory.getKnowledgeBase().getFaultyFormulas());
assertFalse(preTheory.verifyConsistency());
search.reset();
try {
search.setMaxDiagnosesNumber(30);
search.start();
} catch (NoConflictException e) {
e
.printStackTrace(); // To change body of catch statement use File | Settings | File
// Templates.
}
Set<FormulaSet<OWLLogicalAxiom>> diagnoses =
new TreeSet<FormulaSet<OWLLogicalAxiom>>(search.getDiagnoses());
search.reset();
return diagnoses;
}
/**
* Runs ConflictTreeSimulatedSession with calculated diagnoses
*
* @param matchingsDir
* @param ontologyDir
* @param files
* @param map
* @throws SolverException
* @throws InconsistentTheoryException
* @throws OWLOntologyCreationException
*/
private void runOaeiConferenceTests(
String matchingsDir,
String ontologyDir,
Set<File> files,
Map<File, String> map,
int numberOfConflicts)
throws SolverException, InconsistentTheoryException, OWLOntologyCreationException {
OAEI11ConferenceSession conferenceSession = new OAEI11ConferenceSession();
QSSType[] qssTypes = new QSSType[] {QSSType.MINSCORE};
// QSSType[] qssTypes = new QSSType[]{QSSType.MINSCORE, QSSType.SPLITINHALF,
// QSSType.DYNAMICRISK};
TargetSource targetSource = TargetSource.FROM_30_DIAGS;
for (File file : files) {
logger.info("processing " + file.getName());
String out = "STAT, " + file;
// file parameter
String fileName = file.getName();
StringTokenizer t = new StringTokenizer(fileName, "-");
String matcher = t.nextToken();
String o1 = t.nextToken();
String o2 = t.nextToken();
o2 = o2.substring(0, o2.length() - 4);
String n = file.getName().substring(0, file.getName().length() - 4);
Set<FormulaSet<OWLLogicalAxiom>> targetDgSet =
getRandomDiagSet(matchingsDir, ontologyDir, map, file, o1, o2, n, conferenceSession);
logger.info("number of found diagnoses (max. 30): " + targetDgSet.size());
/*
TODO: for each ontology always the same "randomly" chosen diagnosis is calculated, dependent
from the size of the targetDgSet -> change to a real random selection
*/
Random random = new Random(12311);
int randomNr = conferenceSession.chooseRandomNum(targetDgSet, random);
Set<OWLLogicalAxiom> targetDg =
conferenceSession.chooseRandomDiag(targetDgSet, file, randomNr);
OWLOntology inconsOntology =
loadOntology(matchingsDir, ontologyDir, map, conferenceSession, file, o1, o2, n);
// OWLTheory faultyTheory = getExtendTheory(inconsOntology, false);
OWLTheory faultyTheory = loadTheory(inconsOntology, ontologyDir, o1, o2);
Set<OWLLogicalAxiom> rem = validateMinimality(targetDg, faultyTheory);
if (!rem.isEmpty()) {
targetDg.removeAll(rem);
assertTrue(validateMinimality(targetDg, faultyTheory).isEmpty());
}
Map<QSSType, DurationStat> ctTimes = new HashMap<QSSType, DurationStat>();
Map<QSSType, List<Double>> ctQueries = new HashMap<QSSType, List<Double>>();
for (QSSType qssType : qssTypes) {
String message =
"act,"
+ file.getName()
+ ","
+ map.get(file)
+ ","
+ targetSource
+ ","
+ qssType
+ ","
+ randomNr;
long preprocessModulExtract = System.currentTimeMillis();
OWLOntology ontology =
loadOntology(matchingsDir, ontologyDir, map, conferenceSession, file, o1, o2, n);
ctTheory = loadTheory(ontology, ontologyDir, o1, o2);
preprocessModulExtract = System.currentTimeMillis() - preprocessModulExtract;
message += "," + preprocessModulExtract;
// Define Treesearch here
TreeSearch<FormulaSet<OWLLogicalAxiom>, OWLLogicalAxiom> search =
getUniformCostSearch(ctTheory, false);
Map<OWLLogicalAxiom, BigDecimal> map1 =
conferenceSession.readRdfMapping(matchingsDir + map.get(file), n + ".rdf");
OWLAxiomCostsEstimator es = new OWLAxiomCostsEstimator(ctTheory, map1);
search.setCostsEstimator(es);
search.reset();
// set for all found diagnoses during search
foundDiagnoses = new LinkedHashSet<OWLLogicalAxiom>();
ctTimes.put(qssType, new DurationStat());
ctQueries.put(qssType, new LinkedList<Double>());
// calculation part
ConflictTreeSession conflictTreeSearch = new ConflictTreeSession(this, ctTheory, search);
if (numberOfConflicts > 0) {
conflictTreeSearch.setMaximumNumberOfConflicts(numberOfConflicts);
}
conflictTreeSearch.setOutputString(out);
conflictTreeSearch.setMessageString(message);
FormulaSet<OWLLogicalAxiom> targetD =
new FormulaSetImpl<OWLLogicalAxiom>(new BigDecimal(1), targetDg, null);
long completeTime = conflictTreeSearch.search(targetD, ctQueries, qssType, true);
ctTimes.get(qssType).add(completeTime);
out += conflictTreeSearch.getOutputString();
foundDiagnoses = conflictTreeSearch.getDiagnosis();
logger.info("targetD: " + targetD.size() + ", " + CalculateDiagnoses.renderAxioms(targetD));
logger.info(
"foundD: "
+ foundDiagnoses.size()
+ ", "
+ CalculateDiagnoses.renderAxioms(foundDiagnoses));
faultyTheory
.getReasoner()
.addFormulasToCache(faultyTheory.getKnowledgeBase().getFaultyFormulas());
assertFalse(faultyTheory.verifyConsistency());
Set<OWLLogicalAxiom> removedFound = validateMinimality(foundDiagnoses, faultyTheory);
// assertTrue(removed.isEmpty());
Set<OWLLogicalAxiom> removedTarget = validateMinimality(targetD, faultyTheory);
assertTrue(removedTarget.isEmpty());
assertTrue(targetD.containsAll(foundDiagnoses));
// TODO uncomment later
// assertTrue(foundDiagnoses.containsAll(targetD));
resetTheoryTests(ctTheory);
search.reset();
}
logger.info(out);
}
}