Generalized-ensemble simulations, such as replica exchange and serial generalized-ensemble methods, are powerful simulation tools to enhance sampling of free energy landscapes in systems with high energy barriers. In these methods, sampling is enhanced through instantaneous transitions of replicas, i.e., copies of the system, between different ensembles characterized by some control parameter associated with thermodynamical variables (e.g., temperature or pressure) or collective mechanical variables (e.g., interatomic distances or torsional angles). An interesting evolution of these methodologies has been proposed by replacing the conventional instantaneous (trial) switches of replicas with noninstantaneous switches, realized by varying the control parameter in a finite time and accepting the final replica configuration with a Metropolis-like criterion based on the Crooks nonequilibrium work (CNW) theorem. Here we revise these techniques focusing on their correlation with the CNW theorem in the framework of Markovian processes. An outcome of this report is the derivation of the acceptance probability for noninstantaneous switches in serial generalized-ensemble simulations, where we show that explicit knowledge of the time dependence of the weight factors entering such simulations is not necessary. A generalized relationship of the CNW theorem is also provided in terms of the underlying equilibrium probability distribution at a fixed control parameter. Illustrative calculations on a toy model are performed with serial generalized-ensemble simulations, especially focusing on the different behavior of instantaneous and noninstantaneous replica transition schemes.
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http://dx.doi.org/10.1103/PhysRevE.92.043310 | DOI Listing |
Phys Rev E
October 2022
Sorbonne Université, Laboratoire de Physique Théorique et Hautes Energies, CNRS UMR 7589, 4 Place Jussieu, 75252 Paris Cedex 05, France.
We study the statistics of the first-passage time of a single run-and-tumble particle (RTP) in one spatial dimension, with or without resetting, to a fixed target located at L>0. First, we compute the first-passage time distribution of a free RTP, without resetting or in a confining potential, but averaged over the initial position drawn from an arbitrary distribution p(x). Recent experiments used a noninstantaneous resetting protocol that motivated us to study in particular the case where p(x) corresponds to the stationary non-Boltzmann distribution of an RTP in the presence of a harmonic trap.
View Article and Find Full Text PDFISA Trans
November 2022
Chongqing Key Laboratory of Nonlinear Circuits and Intelligent Information Processing, College of Electronic and Information Engineering, Southwest University, Chongqing, 400715, PR China. Electronic address:
In many actual discontinuous control systems, the state might undergo some abrupt changes when the impulsive effects appear and the impulsive effect will stay active for a period of time which cannot be ignored. Obviously, the traditional instantaneous impulsive system models cannot describe the above process. Then in this paper, considering the actuator saturation and non-instantaneous impulse existing in the real environment, we formulate the new models to describe the nonlinear intermittent control system subject to actuator saturation with non-instantaneous impulsive effects occurring at the moments of system switching.
View Article and Find Full Text PDFPhys Rev E Stat Nonlin Soft Matter Phys
October 2015
Dipartimento di Chimica, Università di Firenze, Via della Lastruccia 3, I-50019 Sesto Fiorentino, Italy.
Generalized-ensemble simulations, such as replica exchange and serial generalized-ensemble methods, are powerful simulation tools to enhance sampling of free energy landscapes in systems with high energy barriers. In these methods, sampling is enhanced through instantaneous transitions of replicas, i.e.
View Article and Find Full Text PDFThis article uses mathematical models to investigate the consequences of noninstantaneous choice between two prey types by a predator. The models are characterized by three features: sustained cycles in predator and prey population sizes, a trade-off between the predator's consumption rates of the two prey and adaptive adjustment of the consumption rates at a rate proportional to the change in predator fitness per unit change in consumption rates. Adaptive adjustment of consumption rates frequently prevents the system from achieving an ideal free distribution of predator foraging effort and frequently results in chaotic dynamics or alternative attractors.
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