@SuppressWarnings("unchecked")
@Override
public boolean removeAll(@SuppressWarnings("rawtypes") Collection c) {
int priorSize = getSize();
if (c instanceof ItemList) {
ItemList res = subtract(((ItemList) c));
update(res);
delete();
res.rename(getName());
} else if (!c.isEmpty()) {
try {
Item[] is = (Item[]) c.toArray(new Item[0]);
String path = is[0].getType() + ".id";
PathQuery pq = new PathQuery(services.getModel());
pq.addView(path);
pq.addConstraint(
Constraints.oneOfValues(
path,
collect(
collect(Arrays.asList(is), invokerTransformer("getId")),
stringValueTransformer())));
createListAndSubtract(pq);
} catch (ArrayStoreException e) {
// Do nothing - we didn't get a collection of items.
}
}
return priorSize != getSize();
}
/**
* Return an API query fetching all Comments for Genes, ordered by type
*
* @author radek
* @param proteinID
* @param query
* @return
*/
private PathQuery proteinCommentsQuery(String proteinID, PathQuery query) {
query.addViews(
"Protein.comments.description", "Protein.comments.type", "Protein.primaryIdentifier");
query.addOrderBy("Protein.comments.type", OrderDirection.ASC);
query.addConstraint(Constraints.eq("Protein.id", proteinID));
query.addConstraint(
Constraints.oneOfValues("Protein.comments.type", Arrays.asList(allowedCommentTypes)));
return query;
}
/**
* Add items to this list by using a query.
*
* @param items The items to add to the list.
*/
private void appendItems(Iterable<Item> items) {
PathQuery pq = new PathQuery(services.getModel());
pq.addViews(getType() + ".id");
Set<String> values = new HashSet<String>();
for (Item i : items) {
values.add(Integer.toString(i.getId()));
}
pq.addConstraint(Constraints.oneOfValues(getType() + ".id", values));
update(services.getListService().append(this, pq));
}