SS: The "next step" of Genetic Algorithms is Genetic Programming. Instead to evolve the input of a program you directy evolve the program itself! This is a little genetic programming framework for Tcl, based on a stack based virtual machine where every program is valid. I had no time to hack more on this, so it's probably better to just post it as a starting point for others interested in this subject.

Currently there is an "experiment" already configured that search the best function to square a number. It will reach "dup *" after some iteration. Please if you have specific questions about the code write them at the bottom of this page.

Example output:

BEST: 'peek' with fitness 41 BEST: 'peek' with fitness 41 BEST: 'peek' with fitness 41 BEST: 'peek' with fitness 41 BEST: 'peek' with fitness 41 BEST: '{const 9}' with fitness 37 BEST: '{const 9}' with fitness 37 BEST: '{const 9}' with fitness 37 BEST: '{const 9}' with fitness 37 BEST: 'mod dup *' with fitness 3 BEST: 'mod dup *' with fitness 3 BEST: 'mod dup *' with fitness 3 BEST: 'dup *' with fitness 2

This is the code:

# Genetic programming in Tcl, using a stack based approach. # Copyright (C) 2004 Salvatore Sanfilippo <[email protected]> # This code is released under the BSD license. ################################################################################ # Virtual Machine ################################################################################ # Define a simple stack virtual machine. # It's as simple as possible, and there is no program that will # cause an error. Every program composed of valid words is valid. # The following is a list populated by the [instr] procedure. set ::instructions {} # Define a new instruction for the VM proc instr {name arglist body} { lappend ::instructions $name proc $name $arglist $body } # Prepare the VM state for the execution of a new program proc init stackval { set ::stack $stackval ;# The VM stack set ::ip -1 ;# The VM istruction pointer } # Push and pop from the VM stack. proc push element { lappend ::stack $element } proc pop {} { set element [lindex $::stack end] set ::stack [lrange [lindex [list $::stack [unset ::stack]] 0] 0 end-1] return $element } # Check if the stack length is at least 'n', otherwise # force the caller procedure to return. proc needlen n { if {[llength $::stack] < $n} { return -code return } } # VM instructions instr + {} { needlen 2 push [expr {[pop]+[pop]}] } instr - {} { needlen 2 push [expr {[pop]-[pop]}] } instr * {} { needlen 2 push [expr {[pop]*[pop]}] } proc divmod op { needlen 2 set a [pop] set b [pop] if {!$b} { push $b push $a return } push [expr "$a $op $b"] } instr / {} {divmod /} instr mod {} {divmod %} instr dup {} { needlen 1 set a [pop] push $a push $a } instr dup2 {} { needlen 2 set a [pop] set b [pop] push $b push $a push $b push $a } instr swap {} { needlen 2 set a [pop] set b [pop] push $a push $b } instr drop {} { needlen 1 pop } instr rot {} { needlen 3 set c [pop] set b [pop] set a [pop] push $c push $a push $b } instr peek {} { needlen 2 push [lindex $::stack end-1] } instr > {} { needlen 2 push [expr {[pop]>[pop]}] } instr < {} { needlen 2 push [expr {[pop]<[pop]}] } instr == {} { needlen 2 push [expr {[pop]==[pop]}] } instr jz {{n {-10 10}}} { needlen 1 if {[pop] == 0} { incr ::ip $n if {$::ip < -1} { set ::ip -1 } } } instr jnz {{n {-10 10}}} { needlen 1 if {[pop] != 0} { incr ::ip $n if {$::ip < -1} { set ::ip -1 } } } # Nop istruction is important to kill some istruction by mutation. instr nop {} { } # Return if zero instr retz {} { needlen 1 if {[pop] == 0} { set ::ip 100000 } } # Return if nonzero instr retnz {} { needlen 1 if {[pop] != 0} { set ::ip 100000 } } # Reiterate the program if zero instr againifz {} { needlen 1 if {[pop] == 0} { set ::ip -1 } } # non-zero version instr againifnz {} { needlen 1 if {[pop] != 0} { set ::ip -1 } } # Not instr not {} { needlen 1 push [expr {![pop]}] } instr const {{n {-10 10}}} { push $n } # Run the program proc run {prg stack {maxinstr 100}} { init $stack set instrcount 0 ; # Counter used to limit the total program run time. while 1 { incr ::ip set instr [lindex $prg $::ip] if {$instr eq {}} break if {[llength $instr] == 1} { $instr } else { [lindex $instr 0] [lindex $instr 1] } incr instrcount if {$instrcount > $maxinstr} break } return $::stack } ################################################################################ # The evolution engine ################################################################################ # Generate a random integer in the min-max (both included) interval. proc rand {min max} { expr {$min+int(rand()*(($max-$min)+1))} } # Returns a random element from the list proc lrand list { lindex $list [expr {int(rand()*[llength $list])}] } # Returns a random instruction proc randinstr {} { set instr [lrand $::instructions] set arglist [info args $instr] if {$arglist eq {}} { return $instr } else { info default $instr [lindex $arglist 0] l foreach {min max} $l break return [list $instr [rand $min $max]] } } # Create a random program of length 'n' proc randprog n { while {[incr n -1] >= 0} { lappend prg [randinstr] } return $prg } # Create an initial population of programs # of the specified number of individuals with length in # the specified range. proc randpopulation {n minlen maxlen} { while {[incr n -1] >= 0} { lappend result [randprog [rand $minlen $maxlen]] } return $result } # Two points crossover. This is used to create two offsprings # from two programs. An example about how it works: # # Given two programs: {A B C D E F} and {1 2 3 4 5 6 7 8 9} # We identify two random points in both the programs: # # {A B C D E F} # ^ ^ # # {1 2 3 4 5 6 7 8 9} # ^ ^ # # The two offsprings are created using the external part of # the first and the internal part of the second, and vice versa, # So the first offspring will be: # # {A 1 2 3 4 5 6 E F} # # And the second # # {B C D 7 8 9} # # The input programs are 'a' and 'b', the two crossovers are # returnes as a two elements list. proc crossover {a b} { # Get the four crossover points set a0 [rand 0 [expr {[llength $a]-1}]] set a1 [rand 0 [expr {[llength $a]-1}]] set b0 [rand 0 [expr {[llength $b]-1}]] set b1 [rand 0 [expr {[llength $b]-1}]] # Swap the two points if needed to be sure a0>=a1 and b0>=b1 if {$a0 > $a1} {set t $a0; set a0 $a1; set a1 $t} if {$b0 > $b1} {set t $b0; set b0 $b1; set b1 $t} # Get the left/center/right part of every program set aleft [lrange $a 0 [expr {$a0-1}]] set acenter [lrange $a $a0 $a1] set aright [lrange $a [expr {$a1+1}] end] set bleft [lrange $b 0 [expr {$b0-1}]] set bcenter [lrange $b $b0 $b1] set bright [lrange $b [expr {$b1+1}] end] # Now create the crossovers by mean of list contatenation set x0 [concat $aleft $bcenter $aright] set x1 [concat $bleft $acenter $bright] list $x0 $x1 } # Given a program returns a mutated one where every istruction # of the original program will be substituted (or a new one # inserted just after it) with the specified probability '$p'. proc mutate {program prob} { for {set i 0} {$i < [llength $program]} {incr i} { if {[expr {rand()}] <= $prob} { lset program $i [randinstr] } if {[expr {rand()}] <= $prob} { set program [linsert $program $i [randinstr]] } } return $program } # The core of the GP engine. # Creates a random population of the specified size, and starts # the evolution process rating every program using the 'fitness function' # specified. At every itearation 1/3 of the population having the # best fitness is used to create another 1/3 of the population # by offsprings, and another 1/3 by simple mutation of the original # programs. The evolution is then reiterated. # # The fitness function should return an integer representing the # amount of error in the computation done by the program. # It takes as input an individual. Usually the fitness function # will use the "run" procedure to execute the script with a # significant input stack and will rate the program observing the # output. # # At every iteration, the individual with best fitness is printed # on the screen. # # Parameters specification: # # individuals: The number of individuals in the whole population. # This number is approximated to a multiple of 3. # len: Max length of individuals of the initial population. # fitnessfunc: The fitness function (a Tcl procedure name). # mutprob: Mutation probability used for the 'mutate' procedure. proc evolve {individuals len fitnessfunc mutprob} { set population [randpopulation $individuals 1 $len] while 1 { # Run every program, and populate a list with it and its fitness. set res {} foreach prg $population { set fitness [$fitnessfunc $prg] lappend res [list $fitness $prg] } # Sort the individuals by fitness (low fitness == better) set sorted [lsort -integer -index 0 $res] # Get the lead population set l [expr {[llength $sorted]/3}] set leaders [lrange $sorted 0 [expr {$l-1}]] # Generate another 1/3 of population by offsprings of random leaders. set offsprings {} while 1 { set x [rand 0 [expr {[llength $leaders]-1}]] set parent0 [lindex $leaders $x 1] set x [rand 0 [expr {[llength $leaders]-1}]] set parent1 [lindex $leaders $x 1] foreach {offspring0 offspring1} [crossover $parent0 $parent1] break lappend offsprings $offspring0 if {[llength $offsprings] == $l} break lappend offsprings $offspring1 if {[llength $offsprings] == $l} break } set mutated {} # Generate the last 1/3 of population mutating the leaders. foreach leader $leaders { lappend mutated [mutate [lindex $leader 1] $mutprob] } # Glue the three populations (leaders, offsprings, mutated) to # create the population for the next iteration. set new {} foreach leader $leaders { lappend new [lindex $leader 1] } set population [concat $new $offsprings $mutated] # Print the best individual in this iteration: puts "BEST: '[lindex $leaders 0 1]' with fitness [lindex $leaders 0 0]" # Print the population #puts $population if 0 { foreach p $population { puts $p } } } } ################################################################################ # Usage example. Evolve a program that computes the square of a number # The best program is "DUP *". ################################################################################ # Calculate the fitness. # Best fitness is 2 (no errors with all the inputs, program len == 2). proc squareFitness prg { set fitness 0 foreach i {1 2 3 4 5} o {1 4 9 16 25} { set stack [run $prg $i] set result [lindex $stack end] if {$result eq {}} { incr fitness 50 } else { set delta [expr {abs($o-$result)}] if {$delta > 1000} { # anti overflow set delta 1000 } incr fitness $delta } } return [expr {$fitness+[llength $prg]}] } # Uncomment the following to run this example evolve 90 5 squareFitness 0.1

See also Brute force meets Goedel

Harm Olthof: This is not what is generally considered with the phrase Genetic Programming (GP) In GP you have a tree: each node is a function or a terminal (constant) The parameters of the function are the branches of the subtrees, which is a function or a terminal. You start with the root and work your way through the branches, resulting in one nested call to the main function in the root. Take a population of trees and in the evolutionary cycle exchange subbranches between the trees. Trees with higher fitness have higher change to exchange their subbranches with other trees. see [2 ]. This is not exacty the same as Genetic Algorithms: see eg. Una-May O'Reilly thesis. ([1 ])

Note that the tree is just an implementation detail. To use the tree or the stack is the same, and actually there is quite a lot of literature about stack-based GP. See for example [3 ]. Both with the tree or the stack-based approach programs are mixed together, and resulting programs are always valid. With the stack-based approach GP is more directly related to GA because the program looks a lot like random "data".

AM (6 april 2005) Some musings:

- How to randomly select floating-point numbers - the problem is that very small and very large values may be necessary - you need to come up with a decent distribution...
- Converting a stack-based program into a nice little mathematical formula may not be trivial
- A nice little exercise: let the script come up with a solution for squaring a number
**without*** - I wonder what happens if the cost (fitness is not very intuitive a word here) does not depend on the size ...