2,217 research outputs found
The Kinetic Basis of Self-Organized Pattern Formation
In his seminal paper on morphogenesis (1952), Alan Turing demonstrated that
different spatio-temporal patterns can arise due to instability of the
homogeneous state in reaction-diffusion systems, but at least two species are
necessary to produce even the simplest stationary patterns. This paper is aimed
to propose a novel model of the analog (continuous state) kinetic automaton and
to show that stationary and dynamic patterns can arise in one-component
networks of kinetic automata. Possible applicability of kinetic networks to
modeling of real-world phenomena is also discussed.Comment: 8 pages, submitted to the 14th International Conference on the
Synthesis and Simulation of Living Systems (Alife 14) on 23.03.2014, accepted
09.05.201
Lattice Gas Automata for Reactive Systems
Reactive lattice gas automata provide a microscopic approachto the dynamics
of spatially-distributed reacting systems. After introducing the subject within
the wider framework of lattice gas automata (LGA) as a microscopic approach to
the phenomenology of macroscopic systems, we describe the reactive LGA in terms
of a simple physical picture to show how an automaton can be constructed to
capture the essentials of a reactive molecular dynamics scheme. The statistical
mechanical theory of the automaton is then developed for diffusive transport
and for reactive processes, and a general algorithm is presented for reactive
LGA. The method is illustrated by considering applications to bistable and
excitable media, oscillatory behavior in reactive systems, chemical chaos and
pattern formation triggered by Turing bifurcations. The reactive lattice gas
scheme is contrasted with related cellular automaton methods and the paper
concludes with a discussion of future perspectives.Comment: to appear in PHYSICS REPORTS, 81 revtex pages; uuencoded gziped
postscript file; figures available from [email protected] or
[email protected]
Developing Efficient Discrete Simulations on Multicore and GPU Architectures
In this paper we show how to efficiently implement parallel discrete simulations on multicoreandGPUarchitecturesthrougharealexampleofanapplication: acellularautomatamodel of laser dynamics. We describe the techniques employed to build and optimize the implementations using OpenMP and CUDA frameworks. We have evaluated the performance on two different hardware platforms that represent different target market segments: high-end platforms for scientific computing, using an Intel Xeon Platinum 8259CL server with 48 cores, and also an NVIDIA Tesla V100GPU,bothrunningonAmazonWebServer(AWS)Cloud;and on a consumer-oriented platform, using an Intel Core i9 9900k CPU and an NVIDIA GeForce GTX 1050 TI GPU. Performance results were compared and analyzed in detail. We show that excellent performance and scalability can be obtained in both platforms, and we extract some important issues that imply a performance degradation for them. We also found that current multicore CPUs with large core numbers can bring a performance very near to that of GPUs, and even identical in some cases.Ministerio de Economía, Industria y Competitividad, Gobierno de España (MINECO), and the Agencia Estatal de Investigación (AEI) of Spain, cofinanced by FEDER funds (EU) TIN2017-89842
Quasichemical Models of Multicomponent Nonlinear Diffusion
Diffusion preserves the positivity of concentrations, therefore,
multicomponent diffusion should be nonlinear if there exist non-diagonal terms.
The vast variety of nonlinear multicomponent diffusion equations should be
ordered and special tools are needed to provide the systematic construction of
the nonlinear diffusion equations for multicomponent mixtures with significant
interaction between components. We develop an approach to nonlinear
multicomponent diffusion based on the idea of the reaction mechanism borrowed
from chemical kinetics.
Chemical kinetics gave rise to very seminal tools for the modeling of
processes. This is the stoichiometric algebra supplemented by the simple
kinetic law. The results of this invention are now applied in many areas of
science, from particle physics to sociology. In our work we extend the area of
applications onto nonlinear multicomponent diffusion.
We demonstrate, how the mechanism based approach to multicomponent diffusion
can be included into the general thermodynamic framework, and prove the
corresponding dissipation inequalities. To satisfy thermodynamic restrictions,
the kinetic law of an elementary process cannot have an arbitrary form. For the
general kinetic law (the generalized Mass Action Law), additional conditions
are proved. The cell--jump formalism gives an intuitively clear representation
of the elementary transport processes and, at the same time, produces kinetic
finite elements, a tool for numerical simulation.Comment: 81 pages, Bibliography 118 references, a review paper (v4: the final
published version
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