public Iterator<SimpleDomain> execute(Region a) {
try {
LinkedList<SimpleDomain> doms = new LinkedList<SimpleDomain>();
data.window(a.getChrom(), a.getStart(), a.getEnd());
int np = data.getCount();
for (int pi = 0; pi < np - 1; pi++) {
int f = findNextDomainIndex(pi, a);
if (f != -1) {
SimpleDomain dom = buildDomain(pi, f, a);
doms.addLast(dom);
pi = f;
}
}
return doms.iterator();
} catch (NotFoundException e) {
e.printStackTrace();
return new EmptyIterator<SimpleDomain>();
}
}
