// ## operation getMatchedFunctionalGroup(LinkedList)
public LinkedList getMatchedFunctionalGroup(LinkedList p_reactants) {
// #[ operation getMatchedFunctionalGroup(LinkedList)
LinkedList fgCollection = new LinkedList();
boolean found = false;
Iterator r_iter = p_reactants.iterator();
while (r_iter.hasNext()) {
found = false;
Object o = r_iter.next();
ChemGraph cg = null;
if (o instanceof Species) cg = ((Species) r_iter.next()).getChemGraph();
else cg = (ChemGraph) o;
Iterator t_iter = reactantTree.iterator();
while (t_iter.hasNext()) {
HierarchyTree t = (HierarchyTree) t_iter.next();
Stack s = t.findMatchedPath(cg);
if (s != null && !s.isEmpty()) {
found = true;
fgCollection.add(s);
}
}
if (!found) {
// System.out.println("can't find matched path: " + cg.toString());
// System.exit(0);
return null;
}
}
return fgCollection;
// #]
}
public void clearReactantTree() {
reactantTree.clear();
}
public void removeReactantTree(HierarchyTree p_HierarchyTree) {
reactantTree.remove(p_HierarchyTree);
}
public void addReactantTree(HierarchyTree p_HierarchyTree) {
reactantTree.add(p_HierarchyTree);
}
public ListIterator getReactantTree() {
ListIterator iter = reactantTree.listIterator();
return iter;
}
// ## operation getReactantTreeNumber()
public int getReactantTreeNumber() {
// #[ operation getReactantTreeNumber()
return reactantTree.size();
// #]
}