[bionet.molbio.evolution] New Function Optimization Method/Package

offutt@caen.engin.umich.edu (daniel m offutt) (09/15/88)

Genetic algorithms (GA's) are a relatively new function optimization
technique that will be of interest to physicists and others who confront
very difficult numerical optimization problems.  This article explains
how to obtain a function optimization package based upon the genetic
algorithm.

A number of experimental studies have shown that GA's exhibit
impressive efficiency in practice.  While classical gradient search
techniques are more efficient for problems which satisfy tight
constraints (e.g., continuity, low-dimensionality, unimodality, etc.),
GA's consistently outperform both gradient techniques and various
forms of random search on more difficult (and more common) problems,
such as optimizations involving discontinuous, noisy, high-
dimensional, and multimodal objective functions.  GA's have been
applied to various domains, including numerical function optimization
and adaptive control system design.  The basic concepts and theory of
GA's were developed by Holland (1975) and his students.  Theoretical
considerations show that genetic techniques provide a near-optimal
heuristic for information gathering in complex search spaces.

Those interested in more information about genetic algorithms,
including the next international conference on GA's, may wish to
subscribe to GA-LIST.  Send subscription requests to
gref@NRL-AIC.ARPA.  Not to me.  Those interested in obtaining
a GA function optimization package via electronic mail, read on.

John Grefenstette of the Naval Research Laboratories in Washington
D.C. is making his optimization package available to physicists and
others with difficult function optimization problems, especially those
that have proven or would prove intractable using other optimization
methods.  A copy of the source code may be obtained by sending a
request to gref@NRL-AIC.ARPA.  A brief description of this package
follows.

The GENEtic Search Implementation System 4.5 (GENESIS 4.5) was written
to promote the study of genetic algorithms for function minimization.
GENESIS runs under the UNIX operating system, version V7 or higher.
Since genetic algorithms are task independent optimizers, the user
must provide only an "evaluation" function which returns a value when
given a particular point in the search space.  The system is written
in the language C.  Details concerning the interface between the
user-written function and GENESIS are explained in the GENESIS user
guide which comes with the package.  Shell files are provided to ease
the application of genetic algorithms to the user's objective
function.

Genetic algorithms appear to hold a lot of promise as general purpose
optimization procedures.  However, the author of GENESIS disclaims any
warranties of fitness for a particular problem.  The purpose of making
this system available is to encourage the experimental use of genetic
algorithms on realistic optimization problems, and thereby to identify
the strengths and weaknesses of genetic algorithms.

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Dan Offutt
offutt@caen.engin.umich.edu