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// $Header: /home/cvs/galib/ga/GATreeGenome.C,v 1.3 2004/12/28 22:17:30 mwall Exp $
/* ----------------------------------------------------------------------------
tree.C
mbwall 25feb95
Copyright (c) 1995 Massachusetts Institute of Technology
all rights reserved
DESCRIPTION:
Source file for the tree genome.
---------------------------------------------------------------------------- */
#ifndef _ga_tree_C_
#define _ga_tree_C_
#include <stdio.h>
#include <stdlib.h>
#include <ga/GATreeGenome.h>
#include <ga/garandom.h>
extern int _GATreeCompare(GANodeBASE * anode, GANodeBASE * bnode);
template <class T> const char *
GATreeGenome<T>::className() const {return "GATreeGenome";}
template <class T> int
GATreeGenome<T>::classID() const {return GAID::TreeGenome;}
template <class T>
GATreeGenome<T>::GATreeGenome(GAGenome::Evaluator f, void * u) :
GATree<T>(),
GAGenome(DEFAULT_TREE_INITIALIZER,
DEFAULT_TREE_MUTATOR,
DEFAULT_TREE_COMPARATOR) {
evaluator(f);
userData(u);
crossover(DEFAULT_TREE_CROSSOVER);
}
template <class T>
GATreeGenome<T>::GATreeGenome(const GATreeGenome<T> & orig) :
GATree<T>(),
GAGenome() {
GATreeGenome<T>::copy(orig);
}
template <class T>
GATreeGenome<T>::~GATreeGenome() { }
template <class T> GAGenome *
GATreeGenome<T>::clone(GAGenome::CloneMethod flag) const {
GATreeGenome<T> *cpy = new GATreeGenome<T>();
if(flag == (int)CONTENTS){cpy->copy(*this);} // cast is for metrowerks...
else{cpy->GAGenome::copy(*this);}
return cpy;
}
template <class T> void
GATreeGenome<T>::copy(const GAGenome & orig) {
if(&orig == this) return;
const GATreeGenome<T>* c = DYN_CAST(const GATreeGenome<T>*, &orig);
if(c) {
GAGenome::copy(*c);
GATree<T>::copy(*c);
}
}
#ifdef GALIB_USE_STREAMS
// Traverse the tree (breadth-first) and dump the contents as best we can to
// the stream. We don't try to write the contents of the nodes - we simply
// write a . for each node in the tree.
// We allocate space for x,y coord pair for each node in the tree. Then we
// do a depth-first traversal of the tree and assign coords to the nodes in the
// order we get them in the traversal. Each coord pair is measured relative to
// the parent of the node.
template <class T> void
_tt(STD_OSTREAM & os, GANode<T> * n)
{
if(!n) return;
GANodeBASE * node = DYN_CAST(GANodeBASE*, n);
os.width(10); os << node << " ";
os.width(10); os << node->parent << " ";
os.width(10); os << node->child << " ";
os.width(10); os << node->next << " ";
os.width(10); os << node->prev << " ";
os.width(10); os << &(n->contents) << "\n";
_tt(os, DYN_CAST(GANode<T>*, node->child));
for(GANodeBASE * tmp=node->next; tmp && tmp != node; tmp=tmp->next){
os.width(10); os << tmp << " ";
os.width(10); os << tmp->parent << " ";
os.width(10); os << tmp->child << " ";
os.width(10); os << tmp->next << " ";
os.width(10); os << tmp->prev << " ";
os.width(10); os << &(DYN_CAST(GANode<T>*, tmp)->contents) << "\n";
_tt(os, DYN_CAST(GANode<T>*, tmp->child));
}
}
template <class T> int
GATreeGenome<T>::write(STD_OSTREAM & os) const
{
os << "node parent child next prev contents\n";
_tt(os, (GANode<T> *)(this->rt));
return 0;
}
#endif
template <class T> int
GATreeGenome<T>::equal(const GAGenome & c) const
{
if(this == &c) return 1;
const GATreeGenome<T>& b = DYN_CAST(const GATreeGenome<T>&, c);
return _GATreeCompare(this->rt, b.rt) ? 0 : 1;
}
/* ----------------------------------------------------------------------------
Operator definitions
---------------------------------------------------------------------------- */
// This mutation method is destructive. We randomly pick a node in the tree
// then delete the subtree and node at that point. Each node in the tree has
// a pmut probability of getting nuked.
// After the mutation the iterator is left at the root of the tree.
template <class T> int
GATreeGenome<T>::DestructiveMutator(GAGenome & c, float pmut)
{
GATreeGenome<T> &child=DYN_CAST(GATreeGenome<T> &, c);
register int n, i;
if(pmut <= 0.0) return 0;
n = child.size();
float nMut = pmut * STA_CAST(float,n);
if(nMut < 1.0){ // we have to do a flip test for each node
nMut = 0;
for(i=0; i<n; i++){
if(GAFlipCoin(pmut) && child.warp(i)){
child.destroy();
nMut++;
}
}
}
else{ // only nuke the number of nodes we need to
for(i=0; i<nMut; i++){
if(child.warp(GARandomInt(0, n-1)))
child.destroy();
}
}
child.root(); // set iterator to root node
return(STA_CAST(int,nMut));
}
// This is a rearranging mutation operator. It randomly picks two nodes in the
// tree and swaps them. Any node has a pmut chance of getting
// swapped, and the swap could happen to any other node. And in the case of
// nMut < 1, the swap may generate a swap partner that is the same node, in
// which case no swap occurs (we don't check).
// After the mutation the iterator is left at the root of the tree.
template <class T> int
GATreeGenome<T>::SwapNodeMutator(GAGenome & c, float pmut)
{
GATreeGenome<T> &child=DYN_CAST(GATreeGenome<T> &, c);
register int n, i;
if(pmut <= 0.0) return 0;
n = child.size();
float nMut = pmut * STA_CAST(float,n);
nMut *= 0.5; // swapping one node swaps another as well
if(nMut < 1.0){ // we have to do a flip test for each node
nMut = 0;
for(i=0; i<n; i++){
if(GAFlipCoin(pmut)){
child.swap(i,GARandomInt(0,n-1));
nMut++;
}
}
}
else{ // only nuke the number of nodes we need to
for(i=0; i<nMut; i++)
child.swap(GARandomInt(0,n-1),GARandomInt(0,n-1));
}
child.root(); // set iterator to root node
return(STA_CAST(int,nMut*2));
}
// This is a rearranging mutation operator with subtree swap. It does the same
// thing as the rearranging mutator above, but swaps subtrees as well as the
// nodes that are selected.
// After the mutation the iterator is left at the root of the tree.
// We check to make sure that we don't try to swap ancestral nodes. If it is
// an ancestral swap, we give up and don't do anything to the tree. This could
// result in mutation rates that are lower than the specified rate!
// *** mutation rates are not exact!
template <class T> int
GATreeGenome<T>::SwapSubtreeMutator(GAGenome & c, float pmut)
{
GATreeGenome<T> &child=DYN_CAST(GATreeGenome<T> &, c);
register int n, i;
int a, b;
if(pmut <= 0.0) return 0;
n = child.size();
float nMut = pmut * STA_CAST(float,n);
nMut *= 0.5; // swapping one node swaps another as well
if(nMut < 1.0){ // we have to do a flip test for each node
nMut = 0;
for(i=0; i<n; i++){
if(GAFlipCoin(pmut)){
b = GARandomInt(0,n-1);
if(!child.ancestral(i,b)) child.swaptree(i,b);
nMut++;
}
}
}
else{ // only nuke the number of nodes we need to
for(i=0; i<nMut; i++){
a = GARandomInt(0,n-1);
b = GARandomInt(0,n-1);
if(!child.ancestral(a,b)) child.swaptree(a,b);
}
}
child.root(); // set iterator to root node
return(STA_CAST(int, nMut*2));
}
// We use the recursive tree function to compare the tree structures. This
// does not compare the contents of the nodes.
template <class T> float
GATreeGenome<T>::TopologyComparator(const GAGenome& a, const GAGenome& b)
{
if(&a == &b) return 0;
const GATreeGenome<T>& sis=DYN_CAST(const GATreeGenome<T>&, a);
const GATreeGenome<T>& bro=DYN_CAST(const GATreeGenome<T>&, b);
return STA_CAST(float, _GATreeCompare(sis.rt, bro.rt));
}
// The default crossover operator takes a node from parent a (with its entire
// sub-tree) and replaces it with a node from parent b (with its entire sub-
// tree). If the crossover site is not set, then we pick a random site based
// on the trees in the genomes we're going to cross. Once we have a valid
// crossover site, we copy the trees from the two genomes.
// If the crossover site is out of bounds (ie refers to a node not in the
// tree) then we don't do anything to the child.
// We allow crossover at ANY site in the genomes (including at the root
// node).
// *** we should be able to speed this up. there is an extra traversal when we
// do the check to see if the crossover site is valid.
template <class T> int
GATreeGenome<T>::
OnePointCrossover(const GAGenome& p1, const GAGenome& p2,
GAGenome* c1, GAGenome* c2){
const GATreeGenome<T> &mom=DYN_CAST(const GATreeGenome<T> &, p1);
const GATreeGenome<T> &dad=DYN_CAST(const GATreeGenome<T> &, p2);
int nc=0;
unsigned int a = GARandomInt(0, mom.size()-1);
unsigned int b = GARandomInt(0, dad.size()-1);
GATreeIter<T> momiter(mom), daditer(dad);
GATree<T> * tree;
if(c1 && c2){
GATreeGenome<T> &sis=DYN_CAST(GATreeGenome<T> &, *c1);
GATreeGenome<T> &bro=DYN_CAST(GATreeGenome<T> &, *c2);
// first do the sister...
if(momiter.warp(a) && daditer.warp(b)){
sis.GATree<T>::copy(mom);
tree = dad.GATree<T>::clone(b);
sis.warp(a);
sis.swaptree(tree);
delete tree;
sis.warp(0);
}
// ...now do the brother.
if(momiter.warp(a) && daditer.warp(b)){
bro.GATree<T>::copy(dad);
tree = mom.GATree<T>::clone(a);
bro.warp(b);
bro.swaptree(tree);
delete tree;
bro.warp(0);
}
nc = 2;
}
else if(c1){
GATreeGenome<T> &sis=DYN_CAST(GATreeGenome<T> &, *c1);
if(GARandomBit()){
if(momiter.warp(a) && daditer.warp(b)){
sis.GATree<T>::copy(mom);
tree = dad.GATree<T>::clone(b);
sis.warp(a);
sis.swaptree(tree);
delete tree;
sis.warp(0);
}
}
else{
if(momiter.warp(a) && daditer.warp(b)){
sis.GATree<T>::copy(dad);
tree = mom.GATree<T>::clone(a);
sis.warp(b);
sis.swaptree(tree);
delete tree;
sis.warp(0);
}
}
nc = 1;
}
return nc;
}
#endif |
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