private void modifyCurationToken(final MAnnotation annotation, String status) {
MAnnotationSet set =
_domeo.getAnnotationPersistenceManager().getSetByAnnotationId(annotation.getLocalId());
// Check if there is already a curation token
MAnnotation alreadyExisting = null;
for (MAnnotation token : annotation.getAnnotatedBy()) {
if (token instanceof MCurationToken
&& token
.getCreator()
.getUri()
.equals(_domeo.getAgentManager().getUserPerson().getUri())) {
alreadyExisting = token;
}
}
if (alreadyExisting != null) {
annotation.getAnnotatedBy().remove(alreadyExisting);
_domeo.getPersistenceManager().removeAnnotation(alreadyExisting);
}
MCurationToken ann =
CurationFactory.createCurationToken(
_domeo,
_domeo.getAgentManager().getUserPerson(),
_domeo.getAgentManager().getSoftware(),
annotation,
status,
"");
_domeo
.getAnnotationPersistenceManager()
.addAnnotationOfAnnotation(
ann, annotation, _domeo.getAnnotationPersistenceManager().getCurrentSet());
_domeo.refreshAnnotationComponents();
}
public List<MAnnotation> search(IDomeo domeo, String accessFilter, String textSearch) {
// System.out.println("3**|textSearch:" + textSearch);
List<MAnnotation> found = new ArrayList<MAnnotation>();
for (MAnnotation annotation : domeo.getAnnotationPersistenceManager().getAllAnnotations()) {
ISearchComponent sc =
domeo
.getAnnotationSearchManager()
.getAnnotationSearchComponent(domeo, annotation.getClass().getName());
if (sc.filterByAccess(annotation, accessFilter)) {
if (sc.filterByText(annotation, textSearch)) found.add(annotation);
}
}
return found;
}
public List<MAnnotation> search(
IDomeo domeo, String accessFilter, Long setLocalId, String typeFilter, String textSearch) {
// System.out.println("1**|textSearch:" + textSearch);
List<MAnnotation> found = new ArrayList<MAnnotation>();
for (MAnnotation annotation : domeo.getAnnotationPersistenceManager().getAllAnnotations()) {
ISearchComponent sc =
domeo
.getAnnotationSearchManager()
.getAnnotationSearchComponent(domeo, annotation.getClass().getName());
// System.out.println("0 |annotation name:" + annotation.getClass().getName());
if (sc.filterBySet(annotation, setLocalId)) {
// System.out.println("0 | 1");
if (sc.filterByType(annotation, typeFilter)) {
// System.out.println("0 | 2");
if (sc.filterByAccess(annotation, accessFilter)) {
// System.out.println("0 | 3");
if (sc.filterByText(annotation, textSearch)) found.add(annotation);
}
}
}
}
return found;
}
@Override
public boolean filterBySet(MAnnotation annotation, Long setFilter) {
if (setFilter == -1l) return true;
return _domeo.getAnnotationPersistenceManager().isAnnotationInSet(annotation, setFilter);
}