23,918 research outputs found
Self-Replicating Machines in Continuous Space with Virtual Physics
JohnnyVon is an implementation of self-replicating machines in
continuous two-dimensional space. Two types of particles drift
about in a virtual liquid. The particles are automata with
discrete internal states but continuous external relationships.
Their internal states are governed by finite state machines but
their external relationships are governed by a simulated physics
that includes Brownian motion, viscosity, and spring-like attractive
and repulsive forces. The particles can be assembled into patterns
that can encode arbitrary strings of bits. We demonstrate that, if
an arbitrary "seed" pattern is put in a "soup" of separate individual
particles, the pattern will replicate by assembling the individual
particles into copies of itself. We also show that, given sufficient
time, a soup of separate individual particles will eventually
spontaneously form self-replicating patterns. We discuss the implications
of JohnnyVon for research in nanotechnology, theoretical biology, and
artificial life
Self-Replication and Self-Assembly for Manufacturing
It has been argued that a central objective of nanotechnology is to make
products inexpensively, and that self-replication is an effective approach
to very low-cost manufacturing. The research presented here is intended to
be a step towards this vision. We describe a computational simulation of
nanoscale machines floating in a virtual liquid. The machines can bond
together to form strands (chains) that self-replicate and self-assemble
into user-specified meshes. There are four types of machines and the
sequence of machine types in a strand determines the shape of the mesh
they will build. A strand may be in an unfolded state, in which the bonds
are straight, or in a folded state, in which the bond angles depend on the
types of machines. By choosing the sequence of machine types in a strand,
the user can specify a variety of polygonal shapes. A simulation typically
begins with an initial unfolded seed strand in a soup of unbonded machines.
The seed strand replicates by bonding with free machines in the soup. The
child strands fold into the encoded polygonal shape, and then the polygons
drift together and bond to form a mesh. We demonstrate that a variety of
polygonal meshes can be manufactured in the simulation, by simply changing
the sequence of machine types in the seed
Self-Replicating Strands that Self-Assemble into User-Specified Meshes
It has been argued that a central objective of nanotechnology is to make
products inexpensively, and that self-replication is an effective approach to
very low-cost manufacturing. The research presented here is intended to be a
step towards this vision. In previous work (JohnnyVon 1.0), we simulated
machines that bonded together to form self-replicating strands. There were two
types of machines (called types 0 and 1), which enabled strands to encode
arbitrary bit strings. However, the information encoded in the strands had no
functional role in the simulation. The information was replicated without being
interpreted, which was a significant limitation for potential manufacturing
applications. In the current work (JohnnyVon 2.0), the information in a strand
is interpreted as instructions for assembling a polygonal mesh. There are now
four types of machines and the information encoded in a strand determines how
it folds. A strand may be in an unfolded state, in which the bonds are straight
(although they flex slightly due to virtual forces acting on the machines), or
in a folded state, in which the bond angles depend on the types of machines. By
choosing the sequence of machine types in a strand, the user can specify a
variety of polygonal shapes. A simulation typically begins with an initial
unfolded seed strand in a soup of unbonded machines. The seed strand replicates
by bonding with free machines in the soup. The child strands fold into the
encoded polygonal shape, and then the polygons drift together and bond to form
a mesh. We demonstrate that a variety of polygonal meshes can be manufactured
in the simulation, by simply changing the sequence of machine types in the
seed
Ab Initio Modeling of Ecosystems with Artificial Life
Artificial Life provides the opportunity to study the emergence and evolution
of simple ecosystems in real time. We give an overview of the advantages and
limitations of such an approach, as well as its relation to individual-based
modeling techniques. The Digital Life system Avida is introduced and prospects
for experiments with ab initio evolution (evolution "from scratch"),
maintenance, as well as stability of ecosystems are discussed.Comment: 13 pages, 2 figure
JohnnyVon: Self-Replicating Automata in Continuous Two-Dimensional Space
JohnnyVon is an implementation of self-replicating automata in continuous two-dimensional space. Two types of particles drift about in a virtual liquid. The particles are automata with discrete internal states but continuous external relationships. Their internal states are governed by finite state machines but their external relationships are governed by a simulated physics that includes brownian motion, viscosity, and spring-like attractive and repulsive forces. The particles can be assembled into patterns that can encode arbitrary strings of bits. We demonstrate that, if an arbitrary “seed” pattern is put in a “soup” of separate individual particles, the pattern will replicate by assembling the individual particles into copies of itself. We also show that, given sufficient time, a soup of separate individual particles will eventually spontaneously form self-replicating patterns. We discuss the implications of JohnnyVon for research in nanotechnology, theoretical biology, and artificial life
Making Models Match: Replicating an Agent-Based Model
Scientists have increasingly employed computer models in their work. Recent years have seen a proliferation of agent-based models in the natural and social sciences. But with the exception of a few "classic" models, most of these models have never been replicated by anyone but the original developer. As replication is a critical component of the scientific method and a core practice of scientists, we argue herein for an increased practice of replication in the agent-based modeling community, and for widespread discussion of the issues surrounding replication. We begin by clarifying the concept of replication as it applies to ABM. Furthermore we argue that replication may have even greater benefits when applied to computational models than when applied to physical experiments. Replication of computational models affects model verification and validation and fosters shared understanding about modeling decisions. To facilitate replication, we must create standards for both how to replicate models and how to evaluate the replication. In this paper, we present a case study of our own attempt to replicate a classic agent-based model. We begin by describing an agent-based model from political science that was developed by Axelrod and Hammond. We then detail our effort to replicate that model and the challenges that arose in recreating the model and in determining if the replication was successful. We conclude this paper by discussing issues for (1) researchers attempting to replicate models and (2) researchers developing models in order to facilitate the replication of their results.Replication, Agent-Based Modeling, Verification, Validation, Scientific Method, Ethnocentrism
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