public Alignment buildAlignment(
Statement stmt, AlignmentType alignmentType, ThesaurusConcept concept) {
logger.debug("Building alignment " + stmt.getObject().toString());
Alignment alignment = new Alignment();
alignment.setIdentifier(generatorService.generate(Alignment.class));
alignment.setAlignmentType(alignmentType);
alignment.setAndRelation(false);
alignment.setCreated(concept.getCreated());
alignment.setModified(concept.getModified());
alignment.setSourceConcept(concept);
if (alignmentType.isResource()) {
Set<AlignmentResource> targetResources = new HashSet<AlignmentResource>();
AlignmentResource targetResource = new AlignmentResource();
String externalTargetResource = stmt.getObject().toString();
targetResource.setAlignment(alignment);
targetResource.setExternalTargetResource(externalTargetResource);
targetResources.add(targetResource);
alignment.setTargetResources(targetResources);
} else {
Set<AlignmentConcept> targetConcepts = new HashSet<AlignmentConcept>();
AlignmentConcept targetConcept = new AlignmentConcept();
targetConcept.setAlignment(alignment);
String targetConceptId = stmt.getObject().toString();
ThesaurusConcept internalTargetConcept =
thesaurusConceptService.getThesaurusConceptById(targetConceptId);
if (internalTargetConcept != null) {
targetConcept.setInternalTargetConcept(internalTargetConcept);
alignment.setInternalTargetThesaurus(internalTargetConcept.getThesaurus());
} else {
// Check if the concept has an ark indentifier.
Matcher arkMt = arkPt.matcher(targetConceptId);
Matcher urlMt = urlPt.matcher(targetConceptId);
if (arkMt.find()) {
setExternalThesaurus(alignment, arkMt.group());
} else if (urlMt.find()) {
setExternalThesaurus(alignment, urlMt.group());
}
targetConcept.setExternalTargetConcept(targetConceptId);
}
targetConcepts.add(targetConcept);
alignment.setTargetConcepts(targetConcepts);
}
return alignment;
}
@Transactional(readOnly = false)
@Override
public ThesaurusConcept updateThesaurusConcept(
ThesaurusConcept object,
List<ThesaurusTerm> terms,
List<AssociativeRelationship> associatedConcepts,
List<ConceptHierarchicalRelationship> hierarchicalRelationships,
List<ThesaurusConcept> childrenConceptToDetach,
List<ThesaurusConcept> childrenConceptToAttach,
List<Alignment> alignments) {
thesaurusTermUtils.checkTerms(terms);
alignmentService.saveExternalThesauruses(alignments);
if (StringUtils.isNotEmpty(object.getIdentifier())) {
List<ThesaurusTerm> existingTerms =
thesaurusTermDAO.findTermsByConceptId(object.getIdentifier());
for (ThesaurusTerm existingTerm : existingTerms) {
if (!terms.contains(existingTerm)) {
ThesaurusTerm term = thesaurusTermDAO.getById(existingTerm.getIdentifier());
term.setConcept(null);
thesaurusTermDAO.update(term);
logger.info("Marking Term with ID " + existingTerm.getIdentifier() + " as SandBoxed.");
}
}
} else {
object.setIdentifier(generatorService.generate(ThesaurusConcept.class));
for (ConceptHierarchicalRelationship hierarchicalRelationship : hierarchicalRelationships) {
hierarchicalRelationship.getIdentifier().setChildconceptid(object.getIdentifier());
}
for (AssociativeRelationship relation : associatedConcepts) {
relation.getIdentifier().setConcept1(object.getIdentifier());
}
}
List<ThesaurusConcept> allRecursiveChild =
getRecursiveChildrenByConceptId(object.getIdentifier());
List<ThesaurusConcept> allRecursiveParents =
getRecursiveParentsByConceptId(object.getIdentifier());
object =
conceptHierarchicalRelationshipServiceUtil.saveHierarchicalRelationship(
object,
hierarchicalRelationships,
allRecursiveParents,
allRecursiveChild,
childrenConceptToDetach,
childrenConceptToAttach);
if (object.getStatus() == ConceptStatusEnum.CANDIDATE.getStatus()) {
// We can set status = candidate only if concept has not relation
// (both hierarchical or associative)
if (!associatedConcepts.isEmpty()
|| !object.getParentConcepts().isEmpty()
|| hasChildren(object.getIdentifier())) {
throw new BusinessException(
"A concept must not have a status candidate when it still have relations",
"concept-status-candidate-relation");
}
}
if (object.getStatus() == ConceptStatusEnum.VALIDATED.getStatus()) {
// Test if parent concepts are validated
Set<ThesaurusConcept> parents = object.getParentConcepts();
for (ThesaurusConcept parent : parents) {
if (parent.getStatus() != ConceptStatusEnum.VALIDATED.getStatus()) {
throw new BusinessException(
"A concept cannot have a parent which status is not validated",
"concept-parent-not-validated");
}
}
}
ThesaurusConcept concept = thesaurusConceptDAO.update(object);
updateConceptTerms(concept, terms);
alignmentService.saveAlignments(concept, alignments);
if (!alignments.isEmpty()) {
alignmentService.deleteExternalThesauruses();
}
return thesaurusConceptDAO.update(saveAssociativeRelationship(concept, associatedConcepts));
}