public void addSegment(byte[] name, byte[] bases, byte[] scores) {
System.out.println("Template.TemplateAssembler.addSegment()");
System.out.println(hash.map.size());
Template t = hash.add(name, bases, scores);
System.out.println(hash.map.size());
if (isComplete(t)) {
System.out.println("complete");
hash.remove(t.name);
templateComplete(t);
} else {
System.out.println("incomplete");
if (hash.map.size() > maxHashMapSize) {
List<Template> list = hash.purgeUpto((hash.counter - hash.min) / 2 + hash.min + 1);
if (!list.isEmpty()) giveupIncomplete(list);
}
}
System.out.println(hash.map.size());
}
public void finish() {
List<Template> list = hash.purgeUpto(hash.counter + 1);
if (!list.isEmpty()) giveupIncomplete(list);
}
