Fully Kinetic Ion Models for Magnetized Plasma Simulations
Sturdevant, Benjamin J.
This thesis focuses on the development of simulation models, based on fully resolving the gyro-motion of ions with the Lorentz force equations of motion, for studying low-frequency phenomena in well-magnetized plasma systems. Such models, known as fully kinetic ion models, offer formal simplicity over higher order gyrokinetic ion models and may provide an important validation tool or replacement for gyrokinetic ion models in applications where the gyrokinetic ordering assumptions are in question. Methods for dealing with the added difficulty of resolving the short time scales associated with the ion gyro-motion in fully kinetic ion models are explored with the use of graphics processing units (GPUs) and advanced time integration algorithms, including sub-cycling, orbit averaging and variational integrators. Theoretical work is performed to analyze the effects of the ion Bernstein modes, which are known to cause difficulties in simulations based on fully kinetic ion models. In addition, the first simulation results for the ion temperature gradient driven instability in toroidal geometry using a fully kinetic ion model are presented. Finally, during the course of this work, a method for analyzing the effects of a finite time step size and spatial grid in the delta-f approach to the particle-in-cell method was developed for the first time. This method was applied to an implicit time integration scheme and has revealed some unusual numerical properties related to the delta-f method.
Understanding Yield Anomalies in ICF Implosions via Fully Kinetic Simulations
Taitano, William
2017-10-01
In the quest towards ICF ignition, plasma kinetic effects are among prime candidates for explaining some significant discrepancies between experimental observations and rad-hydro simulations. To assess their importance, high-fidelity fully kinetic simulations of ICF capsule implosions are needed. Owing to the extremely multi-scale nature of the problem, kinetic codes have to overcome nontrivial numerical and algorithmic challenges, and very few options are currently available. Here, we present resolutions of some long-standing yield discrepancy conundrums using a novel, LANL-developed, 1D-2V Vlasov-Fokker-Planck code iFP. iFP possesses an unprecedented fidelity and features fully implicit time-stepping, exact mass, momentum, and energy conservation, and optimal grid adaptation in phase space, all of which are critically important for ensuring long-time numerical accuracy of the implosion simulations. Specifically, we concentrate on several anomalous yield degradation instances observed in Omega campaigns, with the so-called ``Rygg effect'', or an anomalous yield scaling with the fuel composition, being a prime example. Understanding the physical mechanisms responsible for such degradations in non-ignition-grade Omega experiments is of great interest, as such experiments are often used for platform and diagnostic development, which are then used in ignition-grade experiments on NIF. In the case of Rygg's experiments, effects of a kinetic stratification of fuel ions on the yield have been previously proposed as the anomaly explanation, studied with a kinetic code FPION, and found unimportant. We have revisited this issue with iFP and obtained excellent yield-over-clean agreement with the original Rygg results, and several subsequent experiments. This validates iFP and confirms that the kinetic fuel stratification is indeed at the root of the observed yield degradation. This work was sponsored by the Metropolis Postdoctoral Fellowship, LDRD office, Thermonuclear Burn
Fully kinetic particle simulations of high pressure streamer propagation
Rose, David; Welch, Dale; Thoma, Carsten; Clark, Robert
2012-10-01
Streamer and leader formation in high pressure devices is a dynamic process involving a hierarchy of physical phenomena. These include elastic and inelastic particle collisions in the gas, radiation generation, transport and absorption, and electrode interactions. We have performed 2D and 3D fully EM implicit particle-in-cell simulation model of gas breakdown leading to streamer formation under DC and RF fields. The model uses a Monte Carlo treatment for all particle interactions and includes discrete photon generation, transport, and absorption for ultra-violet and soft x-ray radiation. Central to the realization of this fully kinetic particle treatment is an algorithm [D. R. Welch, et al., J. Comp. Phys. 227, 143 (2007)] that manages the total particle count by species while preserving the local momentum distribution functions and conserving charge. These models are being applied to the analysis of high-pressure gas switches [D. V. Rose, et al., Phys. Plasmas 18, 093501 (2011)] and gas-filled RF accelerator cavities [D. V. Rose, et al. Proc. IPAC12, to appear].
International Nuclear Information System (INIS)
Vu, H.X.; Bezzerides, B.; DuBois, D.F.
1999-01-01
A fully kinetic, reduced-description particle-in-cell (RPIC) model is presented in which deviations from quasineutrality, electron and ion kinetic effects, and nonlinear interactions between low-frequency and high-frequency parametric instabilities are modeled correctly. The model is based on a reduced description where the electromagnetic field is represented by three separate temporal envelopes in order to model parametric instabilities with low-frequency and high-frequency daughter waves. Because temporal envelope approximations are invoked, the simulation can be performed on the electron time scale instead of the time scale of the light waves. The electrons and ions are represented by discrete finite-size particles, permitting electron and ion kinetic effects to be modeled properly. The Poisson equation is utilized to ensure that space-charge effects are included. The RPIC model is fully three dimensional and has been implemented in two dimensions on the Accelerated Strategic Computing Initiative (ASCI) parallel computer at Los Alamos National Laboratory, and the resulting simulation code has been named ASPEN. The authors believe this code is the first particle-in-cell code capable of simulating the interaction between low-frequency and high-frequency parametric instabilities in multiple dimensions. Test simulations of stimulated Raman scattering, stimulated Brillouin scattering, and Langmuir decay instability are presented
Fully kinetic 3D simulations of the Hermean magnetosphere under realistic conditions: a new approach
Amaya, Jorge; Gonzalez-Herrero, Diego; Lembège, Bertrand; Lapenta, Giovanni
2017-04-01
Simulations of the magnetosphere of planets are usually performed using the MHD and the hybrid approaches. However, these two methods still rely on approximations for the computation of the pressure tensor, and require the neutrality of the plasma at every point of the domain by construction. These approximations undermine the role of electrons on the emergence of plasma features in the magnetosphere of planets. The high mobility of electrons, their characteristic time and space scales, and the lack of perfect neutrality, are the source of many observed phenomena in the magnetospheres, including the turbulence energy cascade, the magnetic reconnection, the particle acceleration in the shock front and the formation of current systems around the magnetosphere. Fully kinetic codes are extremely demanding of computing time, and have been unable to perform simulations of the full magnetosphere at the real scales of a planet with realistic plasma conditions. This is caused by two main reasons: 1) explicit codes must resolve the electron scales limiting the time and space discretisation, and 2) current versions of semi-implicit codes are unstable for cell sizes larger than a few Debye lengths. In this work we present new simulations performed with ECsim, an Energy Conserving semi-implicit method [1], that can overcome these two barriers. We compare the solutions obtained with ECsim with the solutions obtained by the classic semi-implicit code iPic3D [2]. The new simulations with ECsim demand a larger computational effort, but the time and space discretisations are larger than those in iPic3D allowing for a faster simulation time of the full planetary environment. The new code, ECsim, can reach a resolution allowing the capture of significant large scale physics without loosing kinetic electron information, such as wave-electron interaction and non-Maxwellian electron velocity distributions [3]. The code is able to better capture the thickness of the different boundary
Fully kinetic simulations of magnetic reconnction in semi-collisional plasmas
Energy Technology Data Exchange (ETDEWEB)
Daughton, William S [Los Alamos National Laboratory; Roytershteyn, Vadim S [Los Alamos National Laboratory; Albright, Brian J [Los Alamos National Laboratory; Yin, Lin [Los Alamos National Laboratory; Bowers, Kevin J [Los Alamos National Laboratory; Karimabadi, Homa [UCSD
2009-01-01
The influence of Coulomb collisions on the dynamics of magnetic reconnection is examined using fully kinetic simulations with a Monte-Carlo treatment of the Fokker-Planck collision operator. This powerful first-principles approach offers a bridge between kinetic and fluid regimes, which may prove useful for understanding the applicability of various fluid models. In order to lay the necessary groundwork, the collision algorithm is first carefully bench marked for a homogeneous plasma against theoretical predictions for beam-plasma interactions and electrical resistivity. Next, the collisional decay of a current layer is examined as a function of guide field, allowing direct comparisons with transport theory for the parallel and perpendicular resistivity as well as the thermoelectric force. Finally, the transition between collisional and collision less reconnection is examined in neutral sheet geometry. For modest Lundquist numbers S {approx}< 1000, a distinct transition is observed when the thickness of the Sweet-Parker layers falls below the ion inertia length {delta}{sub sp} {approx}< d,. At higher Lundquist number, deviations from the Sweet-Parker scaling are observed due to the growth of plasmoids (secondary-islands) within the elongated resistive layer. In certain cases, this instability leads to the onset of fast reconnection sooner than expected from {delta}{sub sp} {approx} d, condition. After the transition to fast reconnection, elongated electron current layers are formed which are unstable to the formation of new plasmoids. The structure and time-dependence of the electron diffusion region in these semi-collisional regimes is profoundly different than reported in two-fluid simulations.
International Nuclear Information System (INIS)
Procassini, R.J.; Birdsall, C.K.; Morse, E.C.
1990-01-01
A fully kinetic particle-in-cell (PIC) model is used to self-consistently determine the steady-state potential profile in a collisionless plasma that contacts a floating, absorbing boundary. To balance the flow of particles to the wall, a distributed source region is used to inject particles into the one-dimensional system. The effect of the particle source distribution function on the source region and collector sheath potential drops, and particle velocity distributions is investigated. The ion source functions proposed by Emmert et al. [Phys. Fluids 23, 803 (1980)] and Bissell and Johnson [Phys. Fluids 30, 779 (1987)] (and various combinations of these) are used for the injection of both ions and electrons. The values of the potential drops obtained from the PIC simulations are compared to those from the theories of Emmert et al., Bissell and Johnson, and Scheuer and Emmert [Phys. Fluids 31, 3645 (1988)], all of which assume that the electron density is related to the plasma potential via the Boltzmann relation. The values of the source region and total potential drop are found to depend on the choice of the electron source function, as well as the ion source function. The question of an infinite electric field at the plasma--sheath interface, which arises in the analyses of Bissell and Johnson and Scheuer and Emmert, is also addressed
Lapenta, G.; Sanna, L.; Goldman, M. V.; Newman, D. L.; Markidis, S.
2014-12-01
A perduring challenge in the study of reconnection it has long been the failing attempts to reconcile the large scale MHD view based on the Petschek model with the small scale view based on kinetic theory. The first is based on the existence of standing switch off slow shocks (SSS) that eliminate the horizontal (the x component in the usual GSM coordinates) reconnecting magnetic field component forming vertical magnetic field lines. The second is based on nested diffusion regions where the magnetic field lines become decoupled first from ions and then from electrons. The kinetic picture when observed superficially does seem to have seem resemblance to the Petschek topology, despite the nested boxes being more of a Sweet-Parker concept. Nevertheless, the question has always been: if expanded to sufficiently large scales, does the kinetic description eventually lead tot the formation os SSS? The question remains answered. Recently a first negative answer has been proposed in Ref. [1]. The proposed answer is in essence that SSS are made impossible by the presence of a firehose instability in the reconnection exhaust and by the formation of a plateau in the firehose parameter at a value of 0.25 corresponding to the condition where nonlinear slow and intermediate wave become degenerate. We report a new series of simulations where we demonstrate that this is not the case in general. While for the specific case used in Ref [1], we indeed re-obtain the same conclusions reached by the authors. But our study demonstrates that case to be very peculiar and not representative of the more general kinetic answer. We will report direct evidence of the presence of extended SSS (over regions of hundreds of ion inertial lengths) in fully kinetic simulations for parameters typical of the magntotail and of the solar wind. Our results indicate that SSS are the natural extension of kinetic reconnection to large scales. The simulations required for the study are heroic and were conducted
Particle simulation of radio frequency waves with fully-kinetic ions and gyrokinetic electrons
Lin, Jingbo; Zhang, Wenlu; Liu, Pengfei; Lin, Zhihong; Dong, Chao; Cao, Jintao; Li, Ding
2018-01-01
A toroidal particle-in-cell (PIC) code, suitable for investigating nonlinear phenomena in radio frequency (RF) heating and current drive, is developed and verified thereafter through a series of fidelity tests for field solvers and single particle motions in toroidal geometry, where simulation results show good coincidence with analytical prediction. The RF capability is then demonstrated through the integrated benchmarks with linear lower hybrid wave and ion Bernstein wave theory in cylindrical geometry, where the analytic result is easily available. The frequency and mode structure in the simulations agree well with the theoretical prediction.
Fully implicit kinetic modelling of collisional plasmas
International Nuclear Information System (INIS)
Mousseau, V.A.
1996-05-01
This dissertation describes a numerical technique, Matrix-Free Newton Krylov, for solving a simplified Vlasov-Fokker-Planck equation. This method is both deterministic and fully implicit, and may not have been a viable option before current developments in numerical methods. Results are presented that indicate the efficiency of the Matrix-Free Newton Krylov method for these fully-coupled, nonlinear integro-differential equations. The use and requirement for advanced differencing is also shown. To this end, implementations of Chang-Cooper differencing and flux limited Quadratic Upstream Interpolation for Convective Kinematics (QUICK) are presented. Results are given for a fully kinetic ion-electron problem with a self consistent electric field calculated from the ion and electron distribution functions. This numerical method, including advanced differencing, provides accurate solutions, which quickly converge on workstation class machines. It is demonstrated that efficient steady-state solutions can be achieved to the non-linear integro-differential equation, obtaining quadratic convergence, without incurring the large memory requirements of an integral operator. Model problems are presented which simulate plasma impinging on a plate with both high and low neutral particle recycling typical of a divertor in a Tokamak device. These model problems demonstrate the performance of the new solution method
Discontinuous Galerkin algorithms for fully kinetic plasmas
Juno, J.; Hakim, A.; TenBarge, J.; Shi, E.; Dorland, W.
2018-01-01
We present a new algorithm for the discretization of the non-relativistic Vlasov-Maxwell system of equations for the study of plasmas in the kinetic regime. Using the discontinuous Galerkin finite element method for the spatial discretization, we obtain a high order accurate solution for the plasma's distribution function. Time stepping for the distribution function is done explicitly with a third order strong-stability preserving Runge-Kutta method. Since the Vlasov equation in the Vlasov-Maxwell system is a high dimensional transport equation, up to six dimensions plus time, we take special care to note various features we have implemented to reduce the cost while maintaining the integrity of the solution, including the use of a reduced high-order basis set. A series of benchmarks, from simple wave and shock calculations, to a five dimensional turbulence simulation, are presented to verify the efficacy of our set of numerical methods, as well as demonstrate the power of the implemented features.
Fully Adaptive Radar Modeling and Simulation Development
2017-04-01
AFRL-RY-WP-TR-2017-0074 FULLY ADAPTIVE RADAR MODELING AND SIMULATION DEVELOPMENT Kristine L. Bell and Anthony Kellems Metron, Inc...SMALL BUSINESS INNOVATION RESEARCH (SBIR) PHASE I REPORT. Approved for public release; distribution unlimited. See additional restrictions...2017 4. TITLE AND SUBTITLE FULLY ADAPTIVE RADAR MODELING AND SIMULATION DEVELOPMENT 5a. CONTRACT NUMBER FA8650-16-M-1774 5b. GRANT NUMBER 5c
DEFF Research Database (Denmark)
Bieniasz, Leslaw K.; Østerby, Ole; Britz, Dieter
1995-01-01
The stepwise numerical stability of the classic explicit, fully implicit and Crank-Nicolson finite difference discretizations of example diffusional initial boundary value problems from electrochemical kinetics has been investigated using the matrix method of stability analysis. Special attention...
Fully Resolved Simulations of 3D Printing
Tryggvason, Gretar; Xia, Huanxiong; Lu, Jiacai
2017-11-01
Numerical simulations of Fused Deposition Modeling (FDM) (or Fused Filament Fabrication) where a filament of hot, viscous polymer is deposited to ``print'' a three-dimensional object, layer by layer, are presented. A finite volume/front tracking method is used to follow the injection, cooling, solidification and shrinking of the filament. The injection of the hot melt is modeled using a volume source, combined with a nozzle, modeled as an immersed boundary, that follows a prescribed trajectory. The viscosity of the melt depends on the temperature and the shear rate and the polymer becomes immobile as its viscosity increases. As the polymer solidifies, the stress is found by assuming a hyperelastic constitutive equation. The method is described and its accuracy and convergence properties are tested by grid refinement studies for a simple setup involving two short filaments, one on top of the other. The effect of the various injection parameters, such as nozzle velocity and injection velocity are briefly examined and the applicability of the approach to simulate the construction of simple multilayer objects is shown. The role of fully resolved simulations for additive manufacturing and their use for novel processes and as the ``ground truth'' for reduced order models is discussed.
Simulations of fully deformed oscillating flux tubes
Karampelas, K.; Van Doorsselaere, T.
2018-02-01
Context. In recent years, a number of numerical studies have been focusing on the significance of the Kelvin-Helmholtz instability in the dynamics of oscillating coronal loops. This process enhances the transfer of energy into smaller scales, and has been connected with heating of coronal loops, when dissipation mechanisms, such as resistivity, are considered. However, the turbulent layer is expected near the outer regions of the loops. Therefore, the effects of wave heating are expected to be confined to the loop's external layers, leaving their denser inner parts without a heating mechanism. Aim. In the current work we aim to study the spatial evolution of wave heating effects from a footpoint driven standing kink wave in a coronal loop. Methods: Using the MPI-AMRVAC code, we performed ideal, three dimensional magnetohydrodynamic simulations of footpoint driven transverse oscillations of a cold, straight coronal flux tube, embedded in a hotter environment. We have also constructed forward models for our simulation using the FoMo code. Results: The developed transverse wave induced Kelvin-Helmholtz (TWIKH) rolls expand throughout the tube cross-section, and cover it entirely. This turbulence significantly alters the initial density profile, leading to a fully deformed cross section. As a consequence, the resistive and viscous heating rate both increase over the entire loop cross section. The resistive heating rate takes its maximum values near the footpoints, while the viscous heating rate at the apex. Conclusions: We conclude that even a monoperiodic driver can spread wave heating over the whole loop cross section, potentially providing a heating source in the inner loop region. Despite the loop's fully deformed structure, forward modelling still shows the structure appearing as a loop. A movie attached to Fig. 1 is available at http://https://www.aanda.org
Kinetic distance and kinetic maps from molecular dynamics simulation.
Noé, Frank; Clementi, Cecilia
2015-10-13
Characterizing macromolecular kinetics from molecular dynamics (MD) simulations requires a distance metric that can distinguish slowly interconverting states. Here, we build upon diffusion map theory and define a kinetic distance metric for irreducible Markov processes that quantifies how slowly molecular conformations interconvert. The kinetic distance can be computed given a model that approximates the eigenvalues and eigenvectors (reaction coordinates) of the MD Markov operator. Here, we employ the time-lagged independent component analysis (TICA). The TICA components can be scaled to provide a kinetic map in which the Euclidean distance corresponds to the kinetic distance. As a result, the question of how many TICA dimensions should be kept in a dimensionality reduction approach becomes obsolete, and one parameter less needs to be specified in the kinetic model construction. We demonstrate the approach using TICA and Markov state model (MSM) analyses for illustrative models, protein conformation dynamics in bovine pancreatic trypsin inhibitor and protein-inhibitor association in trypsin and benzamidine. We find that the total kinetic variance (TKV) is an excellent indicator of model quality and can be used to rank different input feature sets.
Fully resolved simulations of expansion waves propagating into particle beds
Marjanovic, Goran; Hackl, Jason; Annamalai, Subramanian; Jackson, Thomas; Balachandar, S.
2017-11-01
There is a tremendous amount of research that has been done on compression waves and shock waves moving over particles but very little concerning expansion waves. Using 3-D direct numerical simulations, this study will explore expansion waves propagating into fully resolved particle beds of varying volume fractions and geometric arrangements. The objectives of these simulations are as follows: 1) To fully resolve all (1-way coupled) forces on the particles in a time varying flow and 2) to verify state-of-the-art drag models for such complex flows. We will explore a range of volume fractions, from very low ones that are similar to single particle flows, to higher ones where nozzling effects are observed between neighboring particles. Further, we will explore two geometric arrangements: body centered cubic and face centered cubic. We will quantify the effects that volume fraction and geometric arrangement plays on the drag forces and flow fields experienced by the particles. These results will then be compared to theoretical predictions from a model based on the generalized Faxen's theorem. This work was supported in part by the U.S. Department of Energy under the Predictive Science Academic Alliance Program, under Contract No. DE-NA0002378.
Multigrid Methods for Fully Implicit Oil Reservoir Simulation
Molenaar, J.
1996-01-01
In this paper we consider the simultaneous flow of oil and water in reservoir rock. This displacement process is modeled by two basic equations: the material balance or continuity equations and the equation of motion (Darcy's law). For the numerical solution of this system of nonlinear partial differential equations there are two approaches: the fully implicit or simultaneous solution method and the sequential solution method. In the sequential solution method the system of partial differential equations is manipulated to give an elliptic pressure equation and a hyperbolic (or parabolic) saturation equation. In the IMPES approach the pressure equation is first solved, using values for the saturation from the previous time level. Next the saturations are updated by some explicit time stepping method; this implies that the method is only conditionally stable. For the numerical solution of the linear, elliptic pressure equation multigrid methods have become an accepted technique. On the other hand, the fully implicit method is unconditionally stable, but it has the disadvantage that in every time step a large system of nonlinear algebraic equations has to be solved. The most time-consuming part of any fully implicit reservoir simulator is the solution of this large system of equations. Usually this is done by Newton's method. The resulting systems of linear equations are then either solved by a direct method or by some conjugate gradient type method. In this paper we consider the possibility of applying multigrid methods for the iterative solution of the systems of nonlinear equations. There are two ways of using multigrid for this job: either we use a nonlinear multigrid method or we use a linear multigrid method to deal with the linear systems that arise in Newton's method. So far only a few authors have reported on the use of multigrid methods for fully implicit simulations. Two-level FAS algorithm is presented for the black-oil equations, and linear multigrid for
Fully Coupled Simulation of Lithium Ion Battery Cell Performance
Energy Technology Data Exchange (ETDEWEB)
Trembacki, Bradley L. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Murthy, Jayathi Y. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Roberts, Scott Alan [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)
2015-09-01
Lithium-ion battery particle-scale (non-porous electrode) simulations applied to resolved electrode geometries predict localized phenomena and can lead to better informed decisions on electrode design and manufacturing. This work develops and implements a fully-coupled finite volume methodology for the simulation of the electrochemical equations in a lithium-ion battery cell. The model implementation is used to investigate 3D battery electrode architectures that offer potential energy density and power density improvements over traditional layer-by-layer particle bed battery geometries. Advancement of micro-scale additive manufacturing techniques has made it possible to fabricate these 3D electrode microarchitectures. A variety of 3D battery electrode geometries are simulated and compared across various battery discharge rates and length scales in order to quantify performance trends and investigate geometrical factors that improve battery performance. The energy density and power density of the 3D battery microstructures are compared in several ways, including a uniform surface area to volume ratio comparison as well as a comparison requiring a minimum manufacturable feature size. Significant performance improvements over traditional particle bed electrode designs are observed, and electrode microarchitectures derived from minimal surfaces are shown to be superior. A reduced-order volume-averaged porous electrode theory formulation for these unique 3D batteries is also developed, allowing simulations on the full-battery scale. Electrode concentration gradients are modeled using the diffusion length method, and results for plate and cylinder electrode geometries are compared to particle-scale simulation results. Additionally, effective diffusion lengths that minimize error with respect to particle-scale results for gyroid and Schwarz P electrode microstructures are determined.
Kinetic simulations of scrape-off layer physics in the DIII-D tokamak
Churchill, R.M.; Canik, J.M.; Chang, C.S.; Hager, R.; Leonard, A.W.; Maingi, R.; Nazikian, R.; Stotler, D.P.
2016-01-01
Simulations using the fully kinetic code XGCa were undertaken to explore the impact of kinetic effects on scrape-off layer (SOL) physics in DIII-D H-mode plasmas. XGCa is a total-f, gyrokinetic code which self-consistently calculates the axisymmetric electrostatic potential and plasma dynamics, and includes modules for Monte Carlo neutral transport. Fluid simulations are normally used to simulate the SOL, due to its high collisionality. However, depending on plasma conditions, a number of dis...
Directory of Open Access Journals (Sweden)
V. Pohjola
2010-03-01
Full Text Available We have developed a fully kinetic electromagnetic model to study instabilities and waves in planetary plasma environments. In the particle-in-a-cell (PIC model both ions and electrons are modeled as particles. An important feature of the developed global kinetic model, called HYB-em, compared to other electromagnetic codes is that it is built up on an earlier quasi-neutral hybrid simulation platform called HYB and that it can be used in conjunction with earlier hybrid models. The HYB models have been used during the past ten years to study globally the flowing plasma interaction with various Solar System objects: Mercury, Venus, the Moon, Mars, Saturnian moon Titan and asteroids. The new stand-alone fully kinetic model enables us to (1 study the stability of various planetary plasma regions in three-dimensional space, (2 analyze the propagation of waves in a plasma environment derived from the other global HYB models. All particle processes in a multi-ion plasma which are implemented on the HYB platform (e.g. ion-neutral-collisions, chemical processes, particle loss and production processes are also automatically included in HYB-em model.
In this brief report we study the developed approach by analyzing the propagation of high frequency electromagnetic waves in non-magnetized plasma in two cases: We study (1 expansion of a spherical wave generated from a point source and (2 propagation of a plane wave in plasma. The analysis shows that the HYB-em model is capable of describing these space plasma situations successfully. The analysis also suggests the potential of the developed model to study both high density-high magnetic field plasma environments, such as Mercury, and low density-low magnetic field plasma environments, such as Venus and Mars.
Directory of Open Access Journals (Sweden)
V. Pohjola
2010-03-01
Full Text Available We have developed a fully kinetic electromagnetic model to study instabilities and waves in planetary plasma environments. In the particle-in-a-cell (PIC model both ions and electrons are modeled as particles. An important feature of the developed global kinetic model, called HYB-em, compared to other electromagnetic codes is that it is built up on an earlier quasi-neutral hybrid simulation platform called HYB and that it can be used in conjunction with earlier hybrid models. The HYB models have been used during the past ten years to study globally the flowing plasma interaction with various Solar System objects: Mercury, Venus, the Moon, Mars, Saturnian moon Titan and asteroids. The new stand-alone fully kinetic model enables us to (1 study the stability of various planetary plasma regions in three-dimensional space, (2 analyze the propagation of waves in a plasma environment derived from the other global HYB models. All particle processes in a multi-ion plasma which are implemented on the HYB platform (e.g. ion-neutral-collisions, chemical processes, particle loss and production processes are also automatically included in HYB-em model. In this brief report we study the developed approach by analyzing the propagation of high frequency electromagnetic waves in non-magnetized plasma in two cases: We study (1 expansion of a spherical wave generated from a point source and (2 propagation of a plane wave in plasma. The analysis shows that the HYB-em model is capable of describing these space plasma situations successfully. The analysis also suggests the potential of the developed model to study both high density-high magnetic field plasma environments, such as Mercury, and low density-low magnetic field plasma environments, such as Venus and Mars.
Energetic Particle Hybrid Simulations for Kinetic Ring Current Dynamics
Amano, T.; Miyoshi, Y.; Seki, K.
2016-12-01
The energetic ring current particles dominate the plasma pressure in the inner magnetosphere. Therefore, it is essential to take into account the ring current dynamics in understanding the various inner magnetospheric phenomena. It has been known that the Magnetohydrodynamics (MHD) approximation is not adequate in numerical modeling of the ring current dynamics and the kinetic effect associated with the ring current ions must be included in a self-consistent manner. In particular, the so-called drift-bounce resonance including finite Larmor radius correction has been considered to be a plausible mechanism for internal excitation of ULF waves. However, the scenario has not been confirmed in a self-consistent simulation. We have developed a new three-dimensional numerical simulation code that incorporates the self-consistent coupling between the fully kinetic ring current particle dynamics and the cold background plasma. In other words, it is essentially a hybrid code that solves the ring current ions by using the particle-in-cell method, whereas the two-fluid approximation is adopted for the background electron and proton fluids. The coupling between the two populations has been introduced in a systematic manner. By performing kinetic temperature-anisotropy driven instabilities, we show that the code is indeed capable of describing the kinetic effect associated with the ring current ions. We also discuss three-dimensional simulation results using an approximate magnetosphere-like equilibrium as an initial condition. The initial equilibrium was obtained by iteratively solving a Grad-Shafranov-like equation for an anisotropic bounce-averaged ring current pressure distribution in a two-dimensional dipole-like potential magnetic field. Depending on parameters, we believe that the simulation model should be able to reproduce ULF wave excitation via drift-bounce resonance. Simulation results with different plasma beta, temperature anisotropy, and pressure gradient scale
Coupled fully 3D neutron kinetics thermal-hydraulic computations for DNB analysis on PWRs
International Nuclear Information System (INIS)
Pitot, Samuel; Alborghetti, Nicolas
2007-01-01
Departure from Nucleate Boiling (DNB) is one of the major limiting factors of Pressurized Water Reactors (PWRs). Safety requires that occurrence of DNB should be precluded under normal or incidental operating conditions. To perform Main Steam Line Break (MSLB) accident calculations EDF have developed its own numerical tool OSCARD based on: the thermal-hydraulic THYC code for DNB analysis, the neutron kinetics COCCINELLE code for power distribution computations, the thermal-hydraulic CATHARE code to provide boundary conditions analysis with system scale computation. With OSCARD a fully three-dimensional (3D) representation of the core is proposed in conjunction with a two-phase flow porous-body approach (THYC) and two-group diffusion equations in the axial and lateral directions with Doppler and void reactivity feedback effects (COCCINELLE). OSCARD provides EDF with an alternative and independent way of evaluating fuel performance and safety margins. In the licensed approach, the coupled 3D neutron kinetics and thermal-hydraulic part of OSCARD steady computations is used to produce 3D power distribution in the reactor core at the most penalizing moment of the transient. Then this distribution is used as an input for THYC to perform thermal-hydraulic subchannel analysis. This 3 steps approach is used with simple conservative and bounding analysis assumptions, that can not occur in reality. In a prospective approach, OSCARD enables to combine thermal-hydraulic subchannel analysis with the neutron kinetics radial average channel model using a nodalization of one quarter of fuel assembly in order to perform one step DNB analysis. (author)
CHEMSIMUL: A simulator for chemical kinetics
DEFF Research Database (Denmark)
Kirkegaard, P.; Bjergbakke, E.
1999-01-01
CHEMSIMUL is a computer program system for numerical simulation of chemical reaction systems. It can be used for modeling complex kinetics in many contexts, in particular radiolytic processes. It contains a translator module and a module for solving theresulting coupled nonlinear ordinary...... differential equations. An overview of the program system is given, and its use is illustrated by examples. A number of special features are described, in particular a method for verifying the mass balance. Moreover,the document contains a complete User's Guide for running CHEMSIMUL on a PC or another computer...
Comparisons of dense-plasma-focus kinetic simulations with experimental measurements
Energy Technology Data Exchange (ETDEWEB)
Schmidt, A. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Link, A. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Welch, D. [Voss Scientific, Inc., Albuquerque, NM (United States); Ellsworth, J. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Falabella, S. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Tang, V. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
2014-06-01
Dense-plasma-focus (DPF) Z-pinch devices are sources of copious high-energy electrons and ions, x rays, and neutrons. The mechanisms through which these physically simple devices generate such high-energy beams in a relatively short distance are not fully understood and past optimization efforts of these devices have been largely empirical. Previously we reported on fully kinetic simulations of a DPF and compared them with hybrid and fluid simulations of the same device. Here we present detailed comparisons between fully kinetic simulations and experimental data on a 1.2 kJ DPF with two electrode geometries, including neutron yield and ion beam energy distributions. A more intensive third calculation is presented which examines the effects of a fully detailed pulsed power driver model. We also compare simulated electromagnetic fluctuations with direct measurement of radiofrequency electromagnetic fluctuations in a DPF plasma. These comparisons indicate that the fully kinetic model captures the essential physics of these plasmas with high fidelity, and provide further evidence that anomalous resistivity in the plasma arises due to a kinetic instability near the lower hybrid frequency.
Kinetic Simulations of Dense Plasma Focus Breakdown
Schmidt, A.; Higginson, D. P.; Jiang, S.; Link, A.; Povilus, A.; Sears, J.; Bennett, N.; Rose, D. V.; Welch, D. R.
2015-11-01
A dense plasma focus (DPF) device is a type of plasma gun that drives current through a set of coaxial electrodes to assemble gas inside the device and then implode that gas on axis to form a Z-pinch. This implosion drives hydrodynamic and kinetic instabilities that generate strong electric fields, which produces a short intense pulse of x-rays, high-energy (>100 keV) electrons and ions, and (in deuterium gas) neutrons. A strong factor in pinch performance is the initial breakdown and ionization of the gas along the insulator surface separating the two electrodes. The smoothness and isotropy of this ionized sheath are imprinted on the current sheath that travels along the electrodes, thus making it an important portion of the DPF to both understand and optimize. Here we use kinetic simulations in the Particle-in-cell code LSP to model the breakdown. Simulations are initiated with neutral gas and the breakdown modeled self-consistently as driven by a charged capacitor system. We also investigate novel geometries for the insulator and electrodes to attempt to control the electric field profile. The initial ionization fraction of gas is explored computationally to gauge possible advantages of pre-ionization which could be created experimentally via lasers or a glow-discharge. Prepared by LLNL under Contract DE-AC52-07NA27344.
Improving reticle defect disposition via fully automated lithography simulation
Mann, Raunak; Goodman, Eliot; Lao, Keith; Ha, Steven; Vacca, Anthony; Fiekowsky, Peter; Fiekowsky, Dan
2016-03-01
Most advanced wafer fabs have embraced complex pattern decoration, which creates numerous challenges during in-fab reticle qualification. These optical proximity correction (OPC) techniques create assist features that tend to be very close in size and shape to the main patterns as seen in Figure 1. A small defect on an assist feature will most likely have little or no impact on the fidelity of the wafer image, whereas the same defect on a main feature could significantly decrease device functionality. In order to properly disposition these defects, reticle inspection technicians need an efficient method that automatically separates main from assist features and predicts the resulting defect impact on the wafer image. Analysis System (ADAS) defect simulation system[1]. Up until now, using ADAS simulation was limited to engineers due to the complexity of the settings that need to be manually entered in order to create an accurate result. A single error in entering one of these values can cause erroneous results, therefore full automation is necessary. In this study, we propose a new method where all needed simulation parameters are automatically loaded into ADAS. This is accomplished in two parts. First we have created a scanner parameter database that is automatically identified from mask product and level names. Second, we automatically determine the appropriate simulation printability threshold by using a new reference image (provided by the inspection tool) that contains a known measured value of the reticle critical dimension (CD). This new method automatically loads the correct scanner conditions, sets the appropriate simulation threshold, and automatically measures the percentage of CD change caused by the defect. This streamlines qualification and reduces the number of reticles being put on hold, waiting for engineer review. We also present data showing the consistency and reliability of the new method, along with the impact on the efficiency of in
Fully-Coupled Metallic Fuel Performance Simulations using BISON
Energy Technology Data Exchange (ETDEWEB)
Galloway, Jack D. [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Unal, Cetin [Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
2015-08-27
This document is a set of slides intended to accompany a talk at a meeting. The first topic taken up is zirconium redistribution. The rod edge Zr increase is evidently due to the Soret term and temperature gradient. Then metallic fission gas release modeling is considered. Based on a GRSIS/FEAST model, the approach of generating fission gas in the fuel matrix is described. A sensitivity study on parameters is presented, including sodium bond & diffusion coefficient sensitivity along with dt sensitivity. Finally, results of some coupled simulations are shown, with ideas about future work.
Simulations of Model Microswimmers with Fully Resolved Hydrodynamics
Oyama, Norihiro; Molina, John J.; Yamamoto, Ryoichi
2017-10-01
Swimming microorganisms, which include bacteria, algae, and spermatozoa, play a fundamental role in most biological processes. These swimmers are a special type of active particle, that continuously convert local energy into propulsive forces, thereby allowing them to move through their surrounding fluid medium. While the size, shape, and propulsion mechanism vary from one organism to the next, they share certain general characteristics: they exhibit force-free motion and they swim at a small Reynolds number. To study the dynamics of such systems, we use the squirmer model, which provides an ideal representation of swimmers as spheroidal particles that propel owing to a modified boundary condition at their surface. We have considered the single-particle and many-particle dynamics of swimmers in bulk and confined systems using the smoothed profile method, which allows us to efficiently solve the coupled particle-fluid problem. For the single-particle dynamics, we studied the diffusive behavior caused by the swimming of the particles. At short-time scales, the diffusion is caused by the hydrodynamic interactions, whereas at long-time scales, it is determined by the particle-particle collisions. Thus, the short-time diffusion will be the same for both swimmers and inert tracer particles. We then investigated the dynamics of confined microswimmers using cylindrical and parallel-plate confining walls. For the cylindrical confinement, we find evidence of an order/disorder phase transition which depends on the specific type of swimmers and the size of the cylinder. Under parallel-plane walls, some swimmers exhibit wavelike modes, which lead to traveling density waves that bounce back and forth between the walls. From an analysis of the bulk systems, we can show that this wavelike motion can be understood as a pseudoacoustic mode and is a consequence of the intrinsic swimming properties of the particles. The results presented here, together with the simulation method that
Mattei, S.; Nishida, K.; Onai, M.; Lettry, J.; Tran, M. Q.; Hatayama, A.
2017-12-01
We present a fully-implicit electromagnetic Particle-In-Cell Monte Carlo collision code, called NINJA, written for the simulation of inductively coupled plasmas. NINJA employs a kinetic enslaved Jacobian-Free Newton Krylov method to solve self-consistently the interaction between the electromagnetic field generated by the radio-frequency coil and the plasma response. The simulated plasma includes a kinetic description of charged and neutral species as well as the collision processes between them. The algorithm allows simulations with cell sizes much larger than the Debye length and time steps in excess of the Courant-Friedrichs-Lewy condition whilst preserving the conservation of the total energy. The code is applied to the simulation of the plasma discharge of the Linac4 H- ion source at CERN. Simulation results of plasma density, temperature and EEDF are discussed and compared with optical emission spectroscopy measurements. A systematic study of the energy conservation as a function of the numerical parameters is presented.
Kinetic Modeling of Mineral Sequences on Early Mars Using Fully Open Systems
Uceda, E. R.; Fairén, A. G.; Gil-Lozano, C.; Losa-Adams, E.; Gago-Duport, L.
2017-10-01
We model the formation of mineral sequences known to exist on Mars considering open system conditions both at the atmosphere-water and water-rock interfaces, and implementing a kinetic approach for the dissolution and precipitation of solid phases.
Rose, D. V.; Welch, D. R.; Bruner, N.; Clark, R. E.; Genoni, T. C.; Thoma, C.; Zimmerman, W. R.; Rambo, P. K.; Atherton, B. W.
2011-10-01
Streamer and leader formation in high pressure devices is a dynamic process involving a hierarchy of physical phenomena. These include elastic and inelastic particle collisions in the gas, radiation generation, transport and absorption, and electrode interactions. We present a new 3D fully EM implicit particle-in-cell simulation model of gas breakdown leading to streamer formation in electronegative gases. The model uses a Monte Carlo treatment for all particle interactions and includes discrete photon generation, transport, and absorption for ultra-violet and soft x-ray radiation. Central to the realization of this fully kinetic particle treatment is an algorithm [D. R. Welch, et al., J. Comp. Phys. 227, 143 (2007)] that manages the total particle count by species while preserving the local momentum distribution functions and conserving charge. This work is funded by the US Department of Energy through Sandia National Laboratories.
Operational High Resolution Chemical Kinetics Simulation, Phase I
National Aeronautics and Space Administration — Numerical simulations of chemical kinetics are critical to addressing urgent issues in both the developed and developing world. Ongoing demand for higher resolution...
DEFF Research Database (Denmark)
Malaguerra, Flavio; Chambon, Julie Claire Claudia; Bjerg, Poul Løgstrup
2011-01-01
been modeled using modified Michaelis–Menten kinetics and has been implemented in the geochemical code PHREEQC. The model have been calibrated using a Shuffled Complex Evolution Metropolis algorithm to observations of chlorinated solvents, organic acids, and H2 concentrations in laboratory batch...
Drift-kinetic simulations of axisymmetric plasma transport at the edge of a divertor tokamak
Dorf, M.; Dorr, M.; Ghosh, D.; Hittinger, J.; Lee, W.; Cohen, R.
2017-10-01
Eulerian kinetic calculations are presented for the axisymmetric cross-separatrix transport of plasma at the edge of a tokamak. The simulations are performed with a high-order finite-volume code COGENT that solves the full-F drift-kinetic equation for the ion species including the effects of fully-nonlinear Fokker-Plank ion-ion collisions. The ion kinetic response is coupled to two-dimensional self-consistent electrostatic potential variations, which are obtained from the vorticity equation with the isothermal fluid electron model. The paper also presents recent progress toward the full-edge turbulence code. The slab-geometry 5D version has recently become available and is successfully verified in simulations of the collisionless drift-wave instability. Work performed for USDOE, at LLNL under contract DE-AC52-07NA27344.
Fast simulation options in LHCb from ReDecay to fully parametrised
Muller, Dominik
2017-01-01
With the steady increase in the precision of flavour physics measurements with data from Run 2 of the LHC, the LHCb experiment requires simulated data samples of ever increasing magnitude to study the detector response in detail. However, relying on an increase of computing resources available for the production of simulated samples will not suffice to achieve this goal. Therefore, multiple efforts are currently being investigated to reduce the time needed to simulate an event. This talk presents a summary of those efforts in LHCb, focusing on the newest developments: re-using parts of previously simulated events and a fully parametric detector description using the DELPHES framework. The former merges a simulation of an underlying event multiple times with signal decays simulated separately, achieving an order of magnitude increase in speed with identical precision. The latter provides a parametric solution replacing the full, GEANT4-based simulation, including the smearing of particles' energies, efficienci...
for simulating kinetic profiles of multi-step chemical systems
African Journals Online (AJOL)
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ABSTRACT. 'Simkine3', a Delphi based software is developed to simulate the kinetic schemes of complex ... the software is demonstrated by simulating the complex reaction between methylene violet and acidic bromate, a reaction ...... Press, W.H.; Flannery, B.P.; Teukolsky, S.A.; Vetterling, W.T. Numerical Recipes: The Art.
A nondissipative simulation method for the drift kinetic equation
International Nuclear Information System (INIS)
Watanabe, Tomo-Hiko; Sugama, Hideo; Sato, Tetsuya
2001-07-01
With the aim to study the ion temperature gradient (ITG) driven turbulence, a nondissipative kinetic simulation scheme is developed and comprehensively benchmarked. The new simulation method preserving the time-reversibility of basic kinetic equations can successfully reproduce the analytical solutions of asymmetric three-mode ITG equations which are extended to provide a more general reference for benchmarking than the previous work [T.-H. Watanabe, H. Sugama, and T. Sato: Phys. Plasmas 7 (2000) 984]. It is also applied to a dissipative three-mode system, and shows a good agreement with the analytical solution. The nondissipative simulation result of the ITG turbulence accurately satisfies the entropy balance equation. Usefulness of the nondissipative method for the drift kinetic simulations is confirmed in comparisons with other dissipative schemes. (author)
Energy Technology Data Exchange (ETDEWEB)
Luanjing Guo; Chuan Lu; Hai Huang; Derek R. Gaston
2012-06-01
Systems of multicomponent reactive transport in porous media that are large, highly nonlinear, and tightly coupled due to complex nonlinear reactions and strong solution-media interactions are often described by a system of coupled nonlinear partial differential algebraic equations (PDAEs). A preconditioned Jacobian-Free Newton-Krylov (JFNK) solution approach is applied to solve the PDAEs in a fully coupled, fully implicit manner. The advantage of the JFNK method is that it avoids explicitly computing and storing the Jacobian matrix during Newton nonlinear iterations for computational efficiency considerations. This solution approach is also enhanced by physics-based blocking preconditioning and multigrid algorithm for efficient inversion of preconditioners. Based on the solution approach, we have developed a reactive transport simulator named RAT. Numerical results are presented to demonstrate the efficiency and massive scalability of the simulator for reactive transport problems involving strong solution-mineral interactions and fast kinetics. It has been applied to study the highly nonlinearly coupled reactive transport system of a promising in situ environmental remediation that involves urea hydrolysis and calcium carbonate precipitation.
Simulation of Adaptive Kinetic Architectural Structures
DEFF Research Database (Denmark)
Kirkegaard, Poul Henning
2010-01-01
to obtain the control forces that must be known in order to control the shape of a real variable geometry truss structure. An experimental test of the of the shape control approach has been implemented using VGT truss structure and a low-cost data acquisition system based on the open-source Arduino......This project deals with shape control of kinetic structures within the field of adaptable architecture. Here a variable geometry truss cantilever structure is analyzed using MATLAB/SIMULINK and the multibody dynamic software MSC Adams. Active shape control of a structure requires that the kinematic...
Greben, Michael; Khoroshyy, Petro; Liu, Xiangkai; Pi, Xiaodong; Valenta, Jan
2017-07-01
A comprehensive study of the spectrally resolved photoluminescence (PL) decay kinetics of dodecyl-passivated colloidal silicon nanocrystals (Si NCs) is presented. The correct treatment of average decay lifetime is demonstrated. We report on importance to distinguish the external quantum efficiency (QE) from the internal QE. The external QE of the ensemble of Si NCs is measured to be ˜60%, while the internal QE of Si NCs emitting around ˜1.5 eV is evaluated to be near unity. This difference between internal and external QE is attributed to a fraction of "dark" (absorbing but non-emitting) Si NCs in the ensemble. This conclusion is based on the analysis of deconvoluted size-selected decay curves retrieved by the presented mathematical procedure. The homogeneous line-broadening is estimated to be around 180 meV by experimentally challenging single-NC PL measurements. In addition, radiative lifetimes are calculated by the envelope function approximation and confirm the observed exponential increase of lifetime with decreasing emission photon energy.
Enabling Breakthrough Kinetic Simulations of the Magnetosphere Using Petascale Computing
Vu, H. X.; Karimabadi, H.; Omelchenko, Y.; Tatineni, M.; Majumdar, A.; Krauss-Varban, D.; Dorelli, J.
2009-12-01
Currently global magnetospheric simulations are predominantly based on single-fluid magnetohydrodynamics (MHD). MHD simulations have proven useful in studies of the global dynamics of the magnetosphere with the goal of predicting eminent features of substorms and other global events. But it is well known that the magnetosphere is dominated by ion kinetic effects, which is ignored in MHD simulations, and many key aspects of the magnetosphere relating to transport and structure of boundaries await global kinetic simulations. We are using our recent innovations in hybrid (electron fluid, kinetic ions) simulations, as being developed in our Hybrid3D (H3D) code, and the power of massively parallel machines to make, breakthrough 3D global kinetic simulations of the magnetosphere. The innovations include (i) multi-zone (asynchronous) algorithm, (ii) dynamic load balancing, and (iii) code adaptation and optimization to large number of processors. In this presentation we will show preliminary results of our progress to date using from 512 to over 8192 cores. In particular, we focus on what we believe to be the first demonstration of the formation of a flux rope in 3D global hybrid simulations. As in the MHD simulations, the resulting flux rope has a very complex structure, wrapping up field lines from different regions and appears to be connected on at least one end to Earth. Magnetic topology of the FTE is examined to reveal the existence of several separators (3D X-lines). The formation and growth of this structure will be discussed and spatial profile of the magnetic and plasma variables will be compared with those from MHD simulations.
The Particle-in-Cell and Kinetic Simulation Software Center
Mori, W. B.; Decyk, V. K.; Tableman, A.; Fonseca, R. A.; Tsung, F. S.; Hu, Q.; Winjum, B. J.; An, W.; Dalichaouch, T. N.; Davidson, A.; Hildebrand, L.; Joglekar, A.; May, J.; Miller, K.; Touati, M.; Xu, X. L.
2017-10-01
The UCLA Particle-in-Cell and Kinetic Simulation Software Center (PICKSC) aims to support an international community of PIC and plasma kinetic software developers, users, and educators; to increase the use of this software for accelerating the rate of scientific discovery; and to be a repository of knowledge and history for PIC. We discuss progress towards making available and documenting illustrative open-source software programs and distinct production programs; developing and comparing different PIC algorithms; coordinating the development of resources for the educational use of kinetic software; and the outcomes of our first sponsored OSIRIS users workshop. We also welcome input and discussion from anyone interested in using or developing kinetic software, in obtaining access to our codes, in collaborating, in sharing their own software, or in commenting on how PICKSC can better serve the DPP community. Supported by NSF under Grant ACI-1339893 and by the UCLA Institute for Digital Research and Education.
How a Fully Automated eHealth Program Simulates Three Therapeutic Processes: A Case Study.
Holter, Marianne T S; Johansen, Ayna; Brendryen, Håvar
2016-06-28
eHealth programs may be better understood by breaking down the components of one particular program and discussing its potential for interactivity and tailoring in regard to concepts from face-to-face counseling. In the search for the efficacious elements within eHealth programs, it is important to understand how a program using lapse management may simultaneously support working alliance, internalization of motivation, and behavior maintenance. These processes have been applied to fully automated eHealth programs individually. However, given their significance in face-to-face counseling, it may be important to simulate the processes simultaneously in interactive, tailored programs. We propose a theoretical model for how fully automated behavior change eHealth programs may be more effective by simulating a therapist's support of a working alliance, internalization of motivation, and managing lapses. We show how the model is derived from theory and its application to Endre, a fully automated smoking cessation program that engages the user in several "counseling sessions" about quitting. A descriptive case study based on tools from the intervention mapping protocol shows how each therapeutic process is simulated. The program supports the user's working alliance through alliance factors, the nonembodied relational agent Endre and computerized motivational interviewing. Computerized motivational interviewing also supports internalized motivation to quit, whereas a lapse management component responds to lapses. The description operationalizes working alliance, internalization of motivation, and managing lapses, in terms of eHealth support of smoking cessation. A program may simulate working alliance, internalization of motivation, and lapse management through interactivity and individual tailoring, potentially making fully automated eHealth behavior change programs more effective.
Kinetic simulations of Rayleigh-Taylor instabilities
International Nuclear Information System (INIS)
Sagert, Irina; Bauer, Wolfgang; Colbry, Dirk; Howell, Jim; Staber, Alec; Strother, Terrance
2014-01-01
We report on an ongoing project to develop a large scale Direct Simulation Monte Carlo code. The code is primarily aimed towards applications in astrophysics such as simulations of core-collapse supernovae. It has been tested on shock wave phenomena in the continuum limit and for matter out of equilibrium. In the current work we focus on the study of fluid instabilities. Like shock waves these are routinely used as test-cases for hydrodynamic codes and are discussed to play an important role in the explosion mechanism of core-collapse supernovae. As a first test we study the evolution of a single-mode Rayleigh-Taylor instability at the interface of a light and a heavy fluid in the presence of a gravitational acceleration. To suppress small-wavelength instabilities caused by the irregularity in the separation layer we use a large particle mean free path. The latter leads to the development of a diffusion layer as particles propagate from one fluid into the other. For small amplitudes, when the instability is in the linear regime, we compare its position and shape to the analytic prediction. Despite the broadening of the fluid interface we see a good agreement with the analytic solution. At later times we observe the development of a mushroom like shape caused by secondary Kelvin-Helmholtz instabilities as seen in hydrodynamic simulations and consistent with experimental observations.
Kinetic Simulations of Particle Acceleration at Shocks
Energy Technology Data Exchange (ETDEWEB)
Caprioli, Damiano [Princeton University; Guo, Fan [Los Alamos National Laboratory
2015-07-16
Collisionless shocks are mediated by collective electromagnetic interactions and are sources of non-thermal particles and emission. The full particle-in-cell approach and a hybrid approach are sketched, simulations of collisionless shocks are shown using a multicolor presentation. Results for SN 1006, a case involving ion acceleration and B field amplification where the shock is parallel, are shown. Electron acceleration takes place in planetary bow shocks and galaxy clusters. It is concluded that acceleration at shocks can be efficient: >15%; CRs amplify B field via streaming instability; ion DSA is efficient at parallel, strong shocks; ions are injected via reflection and shock drift acceleration; and electron DSA is efficient at oblique shocks.
Toluene and benzyl decomposition mechanisms: elementary reactions and kinetic simulations.
Derudi, Marco; Polino, Daniela; Cavallotti, Carlo
2011-12-28
The high temperature decomposition kinetics of toluene and benzyl were investigated by combining a kinetic analysis with the ab initio/master equation study of new reaction channels. It was found that similarly to toluene, which decomposes to benzyl and phenyl losing atomic hydrogen and methyl, also benzyl decomposition proceeds through two channels with similar products. The first leads to the formation of fulvenallene and hydrogen and has already been investigated in detail in recent publications. In this work it is proposed that benzyl can decompose also through a second decomposition channel to form benzyne and methyl. The channel specific kinetic constants of benzyl decomposition were determined by integrating the RRKM/master equation over the C(7)H(7) potential energy surface. The energies of wells and saddle points were determined at the CCSD(T) level on B3LYP/6-31+G(d,p) structures. A kinetic mechanism was then formulated, which comprises the benzyl and toluene decomposition reactions together with a recently proposed fulvenallene decomposition mechanism, the decomposition kinetics of the fulvenallenyl radical, and some reactions describing the secondary chemistry originated by the decomposition products. The kinetic mechanism so obtained was used to simulate the production of H atoms measured in a wide pressure and temperature range using different experimental setups. The calculated and experimental data are in good agreement. Kinetic constants of the new reaction channels here examined are reported as a function of temperature at different pressures. The mechanism here proposed is not compatible with the assumption often used in literature kinetic mechanisms that benzyl decomposition can be effectively described through a lumped reaction whose products are the cyclopentadienyl radical and acetylene.
A scalable fully implicit framework for reservoir simulation on parallel computers
Yang, Haijian
2017-11-10
The modeling of multiphase fluid flow in porous medium is of interest in the field of reservoir simulation. The promising numerical methods in the literature are mostly based on the explicit or semi-implicit approach, which both have certain stability restrictions on the time step size. In this work, we introduce and study a scalable fully implicit solver for the simulation of two-phase flow in a porous medium with capillarity, gravity and compressibility, which is free from the limitations of the conventional methods. In the fully implicit framework, a mixed finite element method is applied to discretize the model equations for the spatial terms, and the implicit Backward Euler scheme with adaptive time stepping is used for the temporal integration. The resultant nonlinear system arising at each time step is solved in a monolithic way by using a Newton–Krylov type method. The corresponding linear system from the Newton iteration is large sparse, nonsymmetric and ill-conditioned, consequently posing a significant challenge to the fully implicit solver. To address this issue, the family of additive Schwarz preconditioners is taken into account to accelerate the convergence of the linear system, and thereby improves the robustness of the outer Newton method. Several test cases in one, two and three dimensions are used to validate the correctness of the scheme and examine the performance of the newly developed algorithm on parallel computers.
Miller, K. L.; Berg, S. J.; Davison, J. H.; Sudicky, E. A.; Forsyth, P. A.
2018-01-01
Although high performance computers and advanced numerical methods have made the application of fully-integrated surface and subsurface flow and transport models such as HydroGeoSphere common place, run times for large complex basin models can still be on the order of days to weeks, thus, limiting the usefulness of traditional workhorse algorithms for uncertainty quantification (UQ) such as Latin Hypercube simulation (LHS) or Monte Carlo simulation (MCS), which generally require thousands of simulations to achieve an acceptable level of accuracy. In this paper we investigate non-intrusive polynomial chaos for uncertainty quantification, which in contrast to random sampling methods (e.g., LHS and MCS), represents a model response of interest as a weighted sum of polynomials over the random inputs. Once a chaos expansion has been constructed, approximating the mean, covariance, probability density function, cumulative distribution function, and other common statistics as well as local and global sensitivity measures is straightforward and computationally inexpensive, thus making PCE an attractive UQ method for hydrologic models with long run times. Our polynomial chaos implementation was validated through comparison with analytical solutions as well as solutions obtained via LHS for simple numerical problems. It was then used to quantify parametric uncertainty in a series of numerical problems with increasing complexity, including a two-dimensional fully-saturated, steady flow and transient transport problem with six uncertain parameters and one quantity of interest; a one-dimensional variably-saturated column test involving transient flow and transport, four uncertain parameters, and two quantities of interest at 101 spatial locations and five different times each (1010 total); and a three-dimensional fully-integrated surface and subsurface flow and transport problem for a small test catchment involving seven uncertain parameters and three quantities of interest at
Kinetic simulations of plasmoid chain dynamics
Markidis, S.; Henri, P.; Lapenta, G.; Divin, A.; Goldman, M.; Newman, D.; Laure, E.
2013-08-01
The dynamics of a plasmoid chain is studied with three dimensional Particle-in-Cell simulations. The evolution of the system with and without a uniform guide field, whose strength is 1/3 the asymptotic magnetic field, is investigated. The plasmoid chain forms by spontaneous magnetic reconnection: the tearing instability rapidly disrupts the initial current sheet generating several small-scale plasmoids that rapidly grow in size coalescing and kinking. The plasmoid kink is mainly driven by the coalescence process. It is found that the presence of guide field strongly influences the evolution of the plasmoid chain. Without a guide field, a main reconnection site dominates and smaller reconnection regions are included in larger ones, leading to an hierarchical structure of the plasmoid-dominated current sheet. On the contrary in presence of a guide field, plasmoids have approximately the same size and the hierarchical structure does not emerge, a strong core magnetic field develops in the center of the plasmoid in the direction of the existing guide field, and bump-on-tail instability, leading to the formation of electron holes, is detected in proximity of the plasmoids.
Kinetic electrons in global electromagnetic gyrokinetic particle simulations
Nishimura, Y.; Wang, W.
2005-10-01
Employing an electromagnetic gyrokinetic simulation model,ootnotetextZ. Lin and L. Chen, Phys. Plasmas 8, 1447 (2001). kinetic electron dynamics in global tokamak geometry is investigated. The massless fluid electron model is developed as a base. We further evolve gyrokinetic equations for non-adiabatic kinetic electrons. To obtain the magnetic perturbation, the fluid-kinetic hybrid electron model^1 employs the inverse of the Faraday's law. Instead, the Ampere's law is used as a closure relation to avoid uncertainties in estimating ue|, the moment of the electron velocities. The physics goal is to investigate the finite beta effects on the turbulent transport, as well as α particle driven turbulence.ootnotetextI. Holod, Z. Lin, et al., this conference. This work is supported by Department of Energy (DOE) Cooperative Agreement No. DE-FC02-03ER54695 (UCI), DOE Contract No. DE-AC02-76CH03073 (PPPL).
Fully Coupled Aero-Thermochemical-Elastic Simulations of an Eroding Graphite Nozzle
Blades, E. L.; Reveles, N. D.; Nucci, M.; Maclean, M.
2017-01-01
A multiphysics simulation capability has been developed that incorporates mutual interactions between aerodynamics, structural response from aero/thermal loading, ablation/pyrolysis, heating, and surface-to-surface radiation to perform high-fidelity, fully coupled aerothermoelastic ablation simulations, which to date had been unattainable. The multiphysics framework couples CHAR (a 3-D implicit charring ablator solver), Loci/CHEM (a computational fluid dynamics solver for high-speed chemically reacting flows), and Abaqus (a nonlinear structural dynamics solver) to create a fully coupled aerothermoelastic charring ablative solver. The solvers are tightly coupled in a fully integrated fashion to resolve the effects of the ablation pyrolysis and charring process and chemistry products upon the flow field, the changes in surface geometry due to recession upon the flow field, and thermal-structural analysis of the body from the induced aerodynamic heating from the flow field. The multiphysics framework was successfully demonstrated on a solid rocket motor graphite nozzle erosion application. Comparisons were made with available experimental data that measured the throat erosion during the motor firing. The erosion data is well characterized, as the test rig was equipped with a windowed nozzle section for real-time X-ray radiography diagnostics of the instantaneous throat variations for deducing the instantaneous erosion rates. The nozzle initially undergoes a nozzle contraction due to thermal expansion before ablation effects are able to widen the throat. A series of parameters studies were conducted using the coupled simulation capability to determine the sensitivity of the nozzle erosion to different parameters. The parameter studies included the shape of the nozzle throat (flat versus rounded), the material properties, the effect of the choice of turbulence model, and the inclusion or exclusion of the mechanical thermal expansion. Overall, the predicted results match
International Nuclear Information System (INIS)
Shim, S.Y.; Carlson, P.A.; Baxter, D.K.
1992-01-01
A prototype research reactor, designated MAPLE-X10 (Multipurpose Applied Physics Lattice Experimental - X 10MW), is currently being built at AECL's Chalk River Laboratories. The CATHENA (Canadian Algorithm for Thermalhydraulic Network Analysis) two-fluid code was used in the safety analysis of the reactor to determine the adequacy of core cooling during postulated reactivity and loss-of-forced-flow transients. The system responses to a postulated transient are predicted including the feedback between reactor kinetics, thermalhydrauilcs and the reactor control systems. This paper describes the MAPLE-X10 reactor and the modelling methodology used. Sample simulations of postulated loss-of-heat-sink and loss-of-regulation transients are presented. (author)
Directory of Open Access Journals (Sweden)
Shunde Yin
2018-03-01
Simulation of thermal fracturing during cold CO2 injection involves the coupled processes of heat transfer, mass transport, rock deforming as well as fracture propagation. To model such a complex coupled system, a fully coupled finite element framework for thermal fracturing simulation is presented. This framework is based on the theory of non-isothermal multiphase flow in fracturing porous media. It takes advantage of recent advances in stabilized finite element and extended finite element methods. The stabilized finite element method overcomes the numerical instability encountered when the traditional finite element method is used to solve the convection dominated heat transfer equation, while the extended finite element method overcomes the limitation with traditional finite element method that a model has to be remeshed when a fracture is initiated or propagating and fracturing paths have to be aligned with element boundaries.
Non-linear punctual kinetics applied to PWR reactors simulation
International Nuclear Information System (INIS)
Cysne, F.S.
1978-11-01
In order to study some kinds of nuclear reactor accidents, a simulation is made using the punctual kinetics model for the reactor core. The following integration methods are used: Hansen's method in which a linearization is made and CSMP using a variable interval fourth-order Runge Kutta method. The results were good and were compared with those obtained by the code Dinamica I which uses a finite difference integration method of backward kind. (Author) [pt
Liu, Lulu
2013-01-01
The fully implicit approach is attractive in reservoir simulation for reasons of numerical stability and the avoidance of splitting errors when solving multiphase flow problems, but a large nonlinear system must be solved at each time step, so efficient and robust numerical methods are required to treat the nonlinearity. The Additive Schwarz Preconditioned Inexact Newton (ASPIN) framework, as an option for the outermost solver, successfully handles strong nonlinearities in computational fluid dynamics, but is barely explored for the highly nonlinear models of complex multiphase flow with capillarity, heterogeneity, and complex geometry. In this paper, the fully implicit ASPIN method is demonstrated for a finite volume discretization based on incompressible two-phase reservoir simulators in the presence of capillary forces and gravity. Numerical experiments show that the number of global nonlinear iterations is not only scalable with respect to the number of processors, but also significantly reduced compared with the standard inexact Newton method with a backtracking technique. Moreover, the ASPIN method, in contrast with the IMPES method, saves overall execution time because of the savings in timestep size.
Vlasov simulations of kinetic Alfvén waves at proton kinetic scales
Energy Technology Data Exchange (ETDEWEB)
Vásconez, C. L. [Dipartimento di Fisica, Università della Calabria, I-87036 Cosenza (Italy); Observatorio Astronómico de Quito, Escuela Politécnica Nacional, Quito (Ecuador); Valentini, F.; Veltri, P. [Dipartimento di Fisica, Università della Calabria, I-87036 Cosenza (Italy); Camporeale, E. [Centrum Wiskunde and Informatica, Amsterdam (Netherlands)
2014-11-15
Kinetic Alfvén waves represent an important subject in space plasma physics, since they are thought to play a crucial role in the development of the turbulent energy cascade in the solar wind plasma at short wavelengths (of the order of the proton gyro radius ρ{sub p} and/or inertial length d{sub p} and beyond). A full understanding of the physical mechanisms which govern the kinetic plasma dynamics at these scales can provide important clues on the problem of the turbulent dissipation and heating in collisionless systems. In this paper, hybrid Vlasov-Maxwell simulations are employed to analyze in detail the features of the kinetic Alfvén waves at proton kinetic scales, in typical conditions of the solar wind environment (proton plasma beta β{sub p} = 1). In particular, linear and nonlinear regimes of propagation of these fluctuations have been investigated in a single-wave situation, focusing on the physical processes of collisionless Landau damping and wave-particle resonant interaction. Interestingly, since for wavelengths close to d{sub p} and β{sub p} ≃ 1 (for which ρ{sub p} ≃ d{sub p}) the kinetic Alfvén waves have small phase speed compared to the proton thermal velocity, wave-particle interaction processes produce significant deformations in the core of the particle velocity distribution, appearing as phase space vortices and resulting in flat-top velocity profiles. Moreover, as the Eulerian hybrid Vlasov-Maxwell algorithm allows for a clean almost noise-free description of the velocity space, three-dimensional plots of the proton velocity distribution help to emphasize how the plasma departs from the Maxwellian configuration of thermodynamic equilibrium due to nonlinear kinetic effects.
Chang, Kyungsik
2012-09-01
We report on the isogeometric residual-based variational multiscale (VMS) large eddy simulation of a fully developed turbulent flow over a wavy wall. To assess the predictive capability of the VMS modeling framework, we compare its predictions against the results from direct numerical simulation (DNS) and large eddy simulation (LES) and, when available, against experimental measurements. We use C 1 quadratic B-spline basis functions to represent the smooth geometry of the sinusoidal lower wall and the solution variables. The Reynolds numbers of the flows considered are 6760 and 30,000 based on the bulk velocity and average channel height. The ratio of amplitude to wavelength (α/λ) of the sinusoidal wavy surface is set to 0.05. The computational domain is 2λ×1.05λ×λ in the streamwise, wall-normal and spanwise directions, respectively. For the Re=6760 case, mean averaged quantities, including velocity and pressure profiles, and the separation/reattachment points in the recirculation region, are compared with DNS and experimental data. The turbulent kinetic energy and Reynolds stress are in good agreement with benchmark data. Coherent structures over the wavy wall are observed in isosurfaces of the Q-criterion and show similar features to those previously reported in the literature. Comparable accuracy to DNS solutions is obtained with at least one order of magnitude fewer degrees of freedom. For the Re=30,000 case, good agreement was obtained for mean wall shear stress and velocity profiles compared with available LES results reported in the literature. © 2012 Elsevier Ltd.
Two-dimensional fully dynamic SEM simulations of the 2011 Tohoku earthquake cycle
Shimizu, H.; Hirahara, K.
2014-12-01
Earthquake cycle simulations have been performed to successfully reproduce the historical earthquake occurrences. Most of them are quasi-dynamic, where inertial effects are approximated using the radiation damping proposed by Rice [1993]. Lapusta et al. [2000, 2009] developed a methodology capable of the detailed description of seismic and aseismic slip and gradual process of earthquake nucleation in the entire earthquake cycle. Their fully dynamic simulations have produced earthquake cycles considerably different from quasi-dynamic ones. Those simulations have, however, never been performed for interplate earthquakes at subduction zones. Many studies showed that on dipping faults such as interplate earthquakes at subduction zones, normal stress is changed during faulting due to the interaction with Earth's free surface. This change in normal stress not only affects the earthquake rupture process, but also causes the residual stress variation that might affect the long-term histories of earthquake cycle. Accounting for such effects, we perform two-dimensional simulations of the 2011 Tohoku earthquake cycle. Our model is in-plane and a laboratory derived rate and state friction acts on a dipping fault embedded on an elastic half-space that reaches the free surface. We extended the spectral element method (SEM) code [Ampuero, 2002] to incorporate a conforming mesh of triangles and quadrangles introduced in Komatitsch et al. [2001], which enables us to analyze the complex geometry with ease. The problem is solved by the methodology almost the same as Kaneko et al. [2011], which is the combined scheme switching in turn a fully dynamic SEM and a quasi-static SEM. The difference is the dip-slip thrust fault in our study in contrast to the vertical strike slip fault. With this method, we can analyze how the dynamic rupture with surface breakout interacting with the free surface affects the long-term earthquake cycle. We discuss the fully dynamic earthquake cycle results
Energy Technology Data Exchange (ETDEWEB)
Zhao, Haihua [Idaho National Lab. (INL), Idaho Falls, ID (United States); Zhang, Hongbin [Idaho National Lab. (INL), Idaho Falls, ID (United States); Zou, Ling [Idaho National Lab. (INL), Idaho Falls, ID (United States); Anders, David [Idaho National Lab. (INL), Idaho Falls, ID (United States); Martineau, Richard [Idaho National Lab. (INL), Idaho Falls, ID (United States)
2014-10-01
The RELAP-7 code is the next generation nuclear reactor system safety analysis code being developed at the Idaho National Laboratory (INL). The RELAP-7 code develop-ment effort started in October of 2011 and by the end of the second development year, a number of physical components with simplified two phase flow capability have been de-veloped to support the simplified boiling water reactor (BWR) extended station blackout (SBO) analyses. The demonstration case includes the major components for the primary system of a BWR, as well as the safety system components for the safety relief valve (SRV), the reactor core isolation cooling (RCIC) system, and the wet well. Three scenar-ios for the SBO simulations have been considered. Since RELAP-7 is not a severe acci-dent analysis code, the simulation stops when fuel clad temperature reaches damage point. Scenario I represents an extreme station blackout accident without any external cooling and cooling water injection. The system pressure is controlled by automatically releasing steam through SRVs. Scenario II includes the RCIC system but without SRV. The RCIC system is fully coupled with the reactor primary system and all the major components are dynamically simulated. The third scenario includes both the RCIC system and the SRV to provide a more realistic simulation. This paper will describe the major models and dis-cuss the results for the three scenarios. The RELAP-7 simulations for the three simplified SBO scenarios show the importance of dynamically simulating the SRVs, the RCIC sys-tem, and the wet well system to the reactor safety during extended SBO accidents.
Collisionless spectral-kinetic Simulation of the Multipole Resonance Probe
Dobrygin, Wladislaw; Szeremley, Daniel; Schilling, Christian; Oberrath, Jens; Eremin, Denis; Mussenbrock, Thomas; Brinkmann, Ralf Peter
2012-10-01
Plasma resonance spectroscopy is a well established plasma diagnostic method realized in several designs. One of these designs is the multipole resonance probe (MRP). In its idealized - geometrically simplified - version it consists of two dielectrically shielded, hemispherical electrodes to which an RF signal is applied. A numerical tool is under development, which is capable of simulating the dynamics of the plasma surrounding the MRP in electrostatic approximation. In the simulation the potential is separeted in an inner and a vacuum potential. The inner potential is influenced by the charged partilces and is calculated by a specialized Poisson solver. The vacuum potential fulfills Laplace's equetion and consists of the applied voltage of the probe as boundary condition. Both potentials are expanded in spherical harmonics. For a practical particle pusher implementation, the expansion must be appropriately truncated. Compared to a PIC simulation a grid is unnecessary to calculate the force on the particles. This work purpose is a collisionless kinetic simulation, which can be used to investigate kinetic effects on the resonance behavior of the MRP.[4pt] [1] M. Lapke et al., Appl. Phys. Lett. 93, 2008, 051502.
Tieleman, D.P; Berendsen, H.J.C.
1996-01-01
We compared molecular dynamics simulations of a bilayer of 128 fully hydrated phospholipid (DPPC) molecules, using different parameters and macroscopic boundary conditions. The same system was studied under constant pressure, constant volume, and constant surface tension boundary conditions, with
Fully three dimensional simulations of rotating convection at low Prandtl number
Kaplan, E.; Schaeffer, N.; Cardin, P.
2016-12-01
Rotating thermal convection in spheres or spherical shells has been extensively studied for Prandtl number unity.However, planetary cores are made of liquid metals which have low Prandtl numbers Pr ≤ 0.1. Recently, using a quasi-geostrophic approximation, Guervilly & Cardin (2016) have studied nonlinear convection in rotating full sphere with internal heating at low Prandtl (0.01 ≤ Pr ≤ 0.1) and Ekman (10-8 ≤ Ek ≤ 10-5 ) numbers. They have found a bifurcation between a weak branch characterized by thermal Rossby waves and a strong branch characterized by a strong zonal flow with multiple jets. In these quasi-geostrophic simulations, where vorticity is defined to be constant along the axis of rotation, these bifurcations could be super- or sub-critical or exhibit hysteresis depending on the Ek and Prnumbers of the simulations. Here we present fully three dimensional simulations carried out over a portion of the parameter space (down to Ek = 10-6, Pr = 0.01) that confirm the scaling and bifurcations of the weak and strong branches found in the QG models. Additionally, by modeling the full flow we get information about the full meridional circulation of the convective fluid. The vigorous flows of the sub-critical strong branch may help to generate powerful dynamos before an inner-core has been formed, with a heat flux extracted from the mantle very close to the adiabatic flux.
Temporal acceleration of spatially distributed kinetic Monte Carlo simulations
International Nuclear Information System (INIS)
Chatterjee, Abhijit; Vlachos, Dionisios G.
2006-01-01
The computational intensity of kinetic Monte Carlo (KMC) simulation is a major impediment in simulating large length and time scales. In recent work, an approximate method for KMC simulation of spatially uniform systems, termed the binomial τ-leap method, was introduced [A. Chatterjee, D.G. Vlachos, M.A. Katsoulakis, Binomial distribution based τ-leap accelerated stochastic simulation, J. Chem. Phys. 122 (2005) 024112], where molecular bundles instead of individual processes are executed over coarse-grained time increments. This temporal coarse-graining can lead to significant computational savings but its generalization to spatially lattice KMC simulation has not been realized yet. Here we extend the binomial τ-leap method to lattice KMC simulations by combining it with spatially adaptive coarse-graining. Absolute stability and computational speed-up analyses for spatial systems along with simulations provide insights into the conditions where accuracy and substantial acceleration of the new spatio-temporal coarse-graining method are ensured. Model systems demonstrate that the r-time increment criterion of Chatterjee et al. obeys the absolute stability limit for values of r up to near 1
Zeng, Qinglei; Liu, Zhanli; Wang, Tao; Gao, Yue; Zhuang, Zhuo
2018-02-01
In hydraulic fracturing process in shale rock, multiple fractures perpendicular to a horizontal wellbore are usually driven to propagate simultaneously by the pumping operation. In this paper, a numerical method is developed for the propagation of multiple hydraulic fractures (HFs) by fully coupling the deformation and fracturing of solid formation, fluid flow in fractures, fluid partitioning through a horizontal wellbore and perforation entry loss effect. The extended finite element method (XFEM) is adopted to model arbitrary growth of the fractures. Newton's iteration is proposed to solve these fully coupled nonlinear equations, which is more efficient comparing to the widely adopted fixed-point iteration in the literatures and avoids the need to impose fluid pressure boundary condition when solving flow equations. A secant iterative method based on the stress intensity factor (SIF) is proposed to capture different propagation velocities of multiple fractures. The numerical results are compared with theoretical solutions in literatures to verify the accuracy of the method. The simultaneous propagation of multiple HFs is simulated by the newly proposed algorithm. The coupled influences of propagation regime, stress interaction, wellbore pressure loss and perforation entry loss on simultaneous propagation of multiple HFs are investigated.
Kinetic Simulation and Energetic Neutral Atom Imaging of the Magnetosphere
Fok, Mei-Ching H.
2011-01-01
Advanced simulation tools and measurement techniques have been developed to study the dynamic magnetosphere and its response to drivers in the solar wind. The Comprehensive Ring Current Model (CRCM) is a kinetic code that solves the 3D distribution in space, energy and pitch-angle information of energetic ions and electrons. Energetic Neutral Atom (ENA) imagers have been carried in past and current satellite missions. Global morphology of energetic ions were revealed by the observed ENA images. We have combined simulation and ENA analysis techniques to study the development of ring current ions during magnetic storms and substorms. We identify the timing and location of particle injection and loss. We examine the evolution of ion energy and pitch-angle distribution during different phases of a storm. In this talk we will discuss the findings from our ring current studies and how our simulation and ENA analysis tools can be applied to the upcoming TRIO-CINAMA mission.
Numerical simulations of a fully developed liquid-metal magnetohydrodynamic flow in a circular duct
Directory of Open Access Journals (Sweden)
Xinghui Cai
2015-01-01
Full Text Available In this paper, a kind of new meshless method, two-level radial point interpolation method, has been developed to analyze the fully developed liquid-metal Magnetohydrodynamic (MHD flow under the externally applied magnetic field in a circular duct with thin conducting walls. This method applied the radial point interpolation method (RPIM to solve the two levels Galerkin weak form formulations. As the shape functions from RPIM possess Kronecker delta function properties, the essential boundary conditions of MHD flow problems are easily to be enforced. Numerical simulations of MHD flow in the circular duct with partial conducting walls are carried out, showing that the method is very stable in the computation.
Fully coupled numerical simulation of fire in tunnels: From fire scenario to structural response
Directory of Open Access Journals (Sweden)
Pesavento F.
2013-09-01
Full Text Available In this paper we present an efficient tool for simulation of a fire scenario in a tunnel. The strategy adopted is based on a 3D-2D coupling technique between the fluid domain and the solid one. So, the thermally driven CFD part is solved in a three dimensional cavity i.e. the tunnel, and the concrete part is solved on 2D sections normal to the tunnel axis, at appropriate intervals. The heat flux and temperature values, which serve as coupling terms between the fluid and the structural problem, are interpolated between the sections. Between the solid and the fluid domain an interface layer is created for the calculation of the heat flux exchange based on a “wall law”. In the analysis of the concrete structures, concrete is treated as a multiphase porous material. Some examples of application of this fully coupled tool will be shown.
Kinetic modeling and exploratory numerical simulation of chloroplastic starch degradation
Directory of Open Access Journals (Sweden)
Nag Ambarish
2011-06-01
Full Text Available Abstract Background Higher plants and algae are able to fix atmospheric carbon dioxide through photosynthesis and store this fixed carbon in large quantities as starch, which can be hydrolyzed into sugars serving as feedstock for fermentation to biofuels and precursors. Rational engineering of carbon flow in plant cells requires a greater understanding of how starch breakdown fluxes respond to variations in enzyme concentrations, kinetic parameters, and metabolite concentrations. We have therefore developed and simulated a detailed kinetic ordinary differential equation model of the degradation pathways for starch synthesized in plants and green algae, which to our knowledge is the most complete such model reported to date. Results Simulation with 9 internal metabolites and 8 external metabolites, the concentrations of the latter fixed at reasonable biochemical values, leads to a single reference solution showing β-amylase activity to be the rate-limiting step in carbon flow from starch degradation. Additionally, the response coefficients for stromal glucose to the glucose transporter kcat and KM are substantial, whereas those for cytosolic glucose are not, consistent with a kinetic bottleneck due to transport. Response coefficient norms show stromal maltopentaose and cytosolic glucosylated arabinogalactan to be the most and least globally sensitive metabolites, respectively, and β-amylase kcat and KM for starch to be the kinetic parameters with the largest aggregate effect on metabolite concentrations as a whole. The latter kinetic parameters, together with those for glucose transport, have the greatest effect on stromal glucose, which is a precursor for biofuel synthetic pathways. Exploration of the steady-state solution space with respect to concentrations of 6 external metabolites and 8 dynamic metabolite concentrations show that stromal metabolism is strongly coupled to starch levels, and that transport between compartments serves to
International Nuclear Information System (INIS)
So, Geoffrey C.; Norman, Michael L.; Reynolds, Daniel R.; Wise, John H.
2014-01-01
We use a fully coupled cosmological simulation including dark matter dynamics, multispecies hydrodynamics, nonequilibrium chemical ionization, flux-limited diffusion radiation transport, and a parameterized model of star formation and feedback (thermal and radiative) to investigate the epoch of hydrogen reionization in detail. In this paper, the first of several application papers, we investigate the mechanics of reionization from stellar sources forming in high-z galaxies, the utility of various formulations for the gas clumping factor on accurately estimating the effective recombination time in the intergalactic medium (IGM), and the photon budget required to achieve reionization. We also test the accuracy of the static and time-dependent models of Madau et al. as predictors of reionization completion/maintenance. We simulate a WMAP7 ΛCDM cosmological model in a 20 comoving Mpc cube, resolved with 800 3 uniform fluid cells and dark matter particles. By tuning our star formation recipe to approximately match the observed high-redshift star formation rate density and galaxy luminosity function, we have created a fully coupled radiation hydrodynamical realization of hydrogen reionization, which begins to ionize at z ≈ 10 and is completed at z ≈ 5.8 without further tuning. We find that roughly two ionizing photons per H atom are required to convert the neutral IGM to a highly ionized state. After reionization concludes, we find that the quantity n-dot ion ×(1 Gyr)/n H is ∼9 at z = 5, in rough agreement with measurements of the ionizing emissivity by Becker and Bolton. The complicated events during reionization that lead to this number can be generally described as inside-out, but in reality, the narrative depends on the level of ionization of the gas one attributes as being ionized. We find that the formula for the ionizing photon production rate needed to maintain the IGM in an ionized state derived by Madau et al. should not be used to predict the epoch of
Thermodynamic and kinetic simulation of transient liquid-phase bonding
Lindner, Brad
The use of numeric computational methods for the simulation of materials systems is becoming more prevalent and an understanding of these tools may soon be a necessity for Materials Engineers and Scientists. The applicability of numerical simulation methods to transient liquid-phase (TLP) bonding is evaluated using a type 316L/MBF-51 material system. The comparisons involve the calculation of bulk diffusivities, tracking of interface positions during dissolution, widening, and isothermal solidification stages, as well as comparison of elemental composition profiles. The simulations were performed with Thermo-Calc and DICTRA software packages and the experiments with differential scanning calorimetry (DSC), scanning electron microscopy (SEM), energy dispersive spectroscopy (EDS), and optical microscopic methods. Analytical methods are also discussed to enhance understanding. The results of the investigation show that while general agreement between simulations and experiments can be obtained, assumptions made with the simulation programs may cause difficulty in interpretation of the results unless the user has sufficient, mathematical, thermodynamic, kinetic, and simulation background.
Ruel, Allison V; Lee, Yuo-Yu; Boles, John; Boettner, Friedrich; Su, Edwin; Westrich, Geoffrey H
2015-07-01
After total hip replacement surgery, patients are eager to resume the activities of daily life, particularly driving. Most surgeons recommend waiting 6 weeks after surgery to resume driving; however, there is no evidence to indicate that patients cannot resume driving earlier. Our purpose was to evaluate when in the recovery period following THA that patients regain or improve upon their preoperative braking reaction time, allowing them to safely resume driving. We measured and compared pre- and postoperative braking reaction times of 90 patients from 3 different surgeons using a Fully Interactive Driving Simulator (Simulator Systems International, Tulsa, OK). We defined a return to safe braking reaction time as a return to a time value that is either equal to or less than the preoperative braking reaction time. Patients tested at 2 and 3 weeks after surgery had slower braking reaction times than preoperative times by an average of 0.069 and 0.009 s, respectively. At 4 weeks after surgery, however, patients improved their reaction times by 0.035 s (p = 0.0398). In addition, at 2, 3, and 4 weeks postoperatively, the results also demonstrated that patient less than 70 years of age recovered faster. Based upon the results of this study, most patients should be allowed to return to driving 4 weeks following minimally invasive primary total hip arthroplasty.
MODFLOW-OWHM v2: The next generation of fully integrated hydrologic simulation software
Boyce, S. E.; Hanson, R. T.; Ferguson, I. M.; Reimann, T.; Henson, W.; Mehl, S.; Leake, S.; Maddock, T.
2016-12-01
The One-Water Hydrologic Flow Model (One-Water) is a MODFLOW-based integrated hydrologic flow model designed for the analysis of a broad range of conjunctive-use and climate-related issues. One-Water fully links the movement and use of groundwater, surface water, and imported water for consumption by agriculture and natural vegetation on the landscape, and for potable and other uses within a supply-and-demand framework. One-Water includes linkages for deformation-, flow-, and head-dependent flows; additional observation and parameter options for higher-order calibrations; and redesigned code for facilitation of self-updating models and faster simulation run times. The next version of One-Water, currently under development, will include a new surface-water operations module that simulates dynamic reservoir operations, a new sustainability analysis package that facilitates the estimation and simulation of reduced storage depletion and captured discharge, a conduit-flow process for karst aquifers and leaky pipe networks, a soil zone process that adds an enhanced infiltration process, interflow, deep percolation and soil moisture, and a new subsidence and aquifer compaction package. It will also include enhancements to local grid refinement, and additional features to facilitate easier model updates, faster execution, better error messages, and more integration/cross communication between the traditional MODFLOW packages. By retaining and tracking the water within the hydrosphere, One-Water accounts for "all of the water everywhere and all of the time." This philosophy provides more confidence in the water accounting by the scientific community and provides the public a foundation needed to address wider classes of problems. Ultimately, more complex questions are being asked about water resources, so they require a more complete answer about conjunctive-use and climate-related issues.
Pavlov, Alexander S; Khalatur, Pavel G
2016-06-28
Using a fully atomistic model, we perform large-scale molecular dynamics simulations of sulfur-cured polybutadiene (PB) and nanosilica-filled PB composites. A well-integrated network without sol fraction is built dynamically by cross-linking the coarse-grained precursor chains in the presence of embedded silica nanoparticles. Initial configurations for subsequent atomistic simulations are obtained by reverse mapping of the well-equilibrated coarse-grained systems. Based on the concept of "maximally inflated knot" introduced by Grosberg et al., we show that the networks simulated in this study behave as mechanically isotropic systems. Analysis of the network topology in terms of graph theory reveals that mechanically inactive tree-like structures are the dominant structural components of the weakly cross-linked elastomer, while cycles are mainly responsible for the transmission of mechanical forces through the network. We demonstrate that quantities such as the system density, thermal expansion coefficient, glass transition temperature and initial Young's modulus can be predicted in qualitative and sometimes even in quantitative agreement with experiments. The nano-filled system demonstrates a notable increase in the glass transition temperature and an approximately two-fold increase in the nearly equilibrium value of elastic modulus relative to the unfilled elastomer even at relatively small amounts of filler particles. We also examine the structural rearrangement of the nanocomposite subjected to tensile deformation. Under high strain-rate loading, the formation of structural defects (microcavities) within the polymer bulk is observed. The nucleation and growth of cavities in the post-yielding strain hardening regime mainly take place at the elastomer/nanoparticle interfaces. As a result, the cavities are concentrated just near the embedded nanoparticles. Therefore, while the silica nanofiller increases the elastic modulus of the elastomer, it also creates a more
A transient fully coupled climate-ice-sheet simulation of the last glacial inception
Lofverstrom, M.; Otto-Bliesner, B. L.; Lipscomb, W. H.; Fyke, J. G.; Marshall, S.; Sacks, B.; Brady, E. C.
2017-12-01
The last glacial inception occurred around 115 ka, following a relative minimum in the Northern Hemisphere summer insolation. It is believed that small and spatially separated ice caps initially formed in the high elevation regions of northern Canada, Scandinavia, and along the Siberian Arctic coast. These ice caps subsequently migrated down in the valleys where they coalesced and formed the initial seeds of the large coherent ice masses that covered the northern parts of the North American and Eurasian continents over most of the last glacial cycle. Sea level records show that the initial growth period lasted for about 10 kyrs, and the resulting ice sheets may have lowered the global sea level by as much as 30 to 50 meters. Here we examine the transient climate system evolution over the period between 118 and 110 ka, using the fully coupled Community Earth System Model, version 2 (CESM2). This model features a two-way coupled high-resolution (4x4 km) ice-sheet component (Community Ice Sheet model, version 2; CISM2) that simulates ice sheets as an interactive component of the climate system. We impose a transient forcing protocol where the greenhouse gas concentrations and the orbital parameters follow the nominal year in the simulation; the model topography is also dynamically evolving in order to reflect changes in ice elevation throughout the simulation. The analysis focuses on how the climate system evolves over this time interval, with a special focus on glacial inception in the high-latitude continents. Results will highlight how the evolving ice sheets compare to data and previous model based reconstructions.
A spectral Poisson solver for kinetic plasma simulation
Szeremley, Daniel; Obberath, Jens; Brinkmann, Ralf
2011-10-01
Plasma resonance spectroscopy is a well established plasma diagnostic method, realized in several designs. One of these designs is the multipole resonance probe (MRP). In its idealized - geometrically simplified - version it consists of two dielectrically shielded, hemispherical electrodes to which an RF signal is applied. A numerical tool is under development which is capable of simulating the dynamics of the plasma surrounding the MRP in electrostatic approximation. In this contribution we concentrate on the specialized Poisson solver for that tool. The plasma is represented by an ensemble of point charges. By expanding both the charge density and the potential into spherical harmonics, a largely analytical solution of the Poisson problem can be employed. For a practical implementation, the expansion must be appropriately truncated. With this spectral solver we are able to efficiently solve the Poisson equation in a kinetic plasma simulation without the need of introducing a spatial discretization.
NLTE atomic kinetics modeling in ICF target simulations
Patel, Mehul V.; Mauche, Christopher W.; Scott, Howard A.; Jones, Ogden S.; Shields, Benjamin T.
2017-10-01
Radiation hydrodynamics (HYDRA) simulations using recently developed 1D spherical and 2D cylindrical hohlraum models have enabled a reassessment of the accuracy of energetics modeling across a range of NIF target configurations. Higher-resolution hohlraum calculations generally find that the X-ray drive discrepancies are greater than previously reported. We identify important physics sensitivities in the modeling of the NLTE wall plasma and highlight sensitivity variations between different hohlraum configurations (e.g. hohlraum gas fill). Additionally, 1D capsule only simulations show the importance of applying a similar level of rigor to NLTE capsule ablator modeling. Taken together, these results show how improved target performance predictions can be achieved by performing inline atomic kinetics using more complete models for the underlying atomic structure and transitions. Prepared by LLNL under Contract DE-AC52-07NA27344.
A Comparison of Fully-Coupled 3D In-Stent Restenosis Simulations to In-vivo Data
Zun, P.S.; Anikina, T.; Svitenkov, A.I.; Hoekstra, A.G.
We describe our fully-coupled 3D multiscale model of in-stent restenosis, with blood flow simulations coupled to smooth muscle cell proliferation, and report results of numerical simulations performed with this model. This novel model is based on several previously reported 2D models. We study the
Wu, Xiaohua; Moin, Parviz; Adrian, Ronald J; Baltzer, Jon R
2015-06-30
The precise dynamics of breakdown in pipe transition is a century-old unresolved problem in fluid mechanics. We demonstrate that the abruptness and mysteriousness attributed to the Osborne Reynolds pipe transition can be partially resolved with a spatially developing direct simulation that carries weakly but finitely perturbed laminar inflow through gradual rather than abrupt transition arriving at the fully developed turbulent state. Our results with this approach show during transition the energy norms of such inlet perturbations grow exponentially rather than algebraically with axial distance. When inlet disturbance is located in the core region, helical vortex filaments evolve into large-scale reverse hairpin vortices. The interaction of these reverse hairpins among themselves or with the near-wall flow when they descend to the surface from the core produces small-scale hairpin packets, which leads to breakdown. When inlet disturbance is near the wall, certain quasi-spanwise structure is stretched into a Lambda vortex, and develops into a large-scale hairpin vortex. Small-scale hairpin packets emerge near the tip region of the large-scale hairpin vortex, and subsequently grow into a turbulent spot, which is itself a local concentration of small-scale hairpin vortices. This vortex dynamics is broadly analogous to that in the boundary layer bypass transition and in the secondary instability and breakdown stage of natural transition, suggesting the possibility of a partial unification. Under parabolic base flow the friction factor overshoots Moody's correlation. Plug base flow requires stronger inlet disturbance for transition. Accuracy of the results is demonstrated by comparing with analytical solutions before breakdown, and with fully developed turbulence measurements after the completion of transition.
MAGNETIC NULL POINTS IN KINETIC SIMULATIONS OF SPACE PLASMAS
International Nuclear Information System (INIS)
Olshevsky, Vyacheslav; Innocenti, Maria Elena; Cazzola, Emanuele; Lapenta, Giovanni; Deca, Jan; Divin, Andrey; Peng, Ivy Bo; Markidis, Stefano
2016-01-01
We present a systematic attempt to study magnetic null points and the associated magnetic energy conversion in kinetic particle-in-cell simulations of various plasma configurations. We address three-dimensional simulations performed with the semi-implicit kinetic electromagnetic code iPic3D in different setups: variations of a Harris current sheet, dipolar and quadrupolar magnetospheres interacting with the solar wind, and a relaxing turbulent configuration with multiple null points. Spiral nulls are more likely created in space plasmas: in all our simulations except lunar magnetic anomaly (LMA) and quadrupolar mini-magnetosphere the number of spiral nulls prevails over the number of radial nulls by a factor of 3–9. We show that often magnetic nulls do not indicate the regions of intensive energy dissipation. Energy dissipation events caused by topological bifurcations at radial nulls are rather rare and short-lived. The so-called X-lines formed by the radial nulls in the Harris current sheet and LMA simulations are rather stable and do not exhibit any energy dissipation. Energy dissipation is more powerful in the vicinity of spiral nulls enclosed by magnetic flux ropes with strong currents at their axes (their cross sections resemble 2D magnetic islands). These null lines reminiscent of Z-pinches efficiently dissipate magnetic energy due to secondary instabilities such as the two-stream or kinking instability, accompanied by changes in magnetic topology. Current enhancements accompanied by spiral nulls may signal magnetic energy conversion sites in the observational data
Modeling of subtle kinetic processes in plasma simulation
International Nuclear Information System (INIS)
Sydora, R.D.; Decyk, V.K.; Dawson, J.M.
1988-01-01
A new diagnostic method for plasma simulation models is presented which enables one to probe the subtle dielectric properties of the plasma medium. The procedure involves the removal of the background plasma response in order to isolate the effects of small perturbing influences which are externally added. We have found the technique accurately describes fundamental kinetic plasma behavior such as the shielding of individual test charges and currents. Wave emission studies and drag of test particles has been carried out in explicit particle algorithms as well as large time step implicit and gyrokinetic models. Accurate plasma behavior is produced and it is possible to investigate in detail, processes which can be compared with plasma kinetic theory. The technique of subtraction is not only limited to particle simulation models but also can be used in MHD or fluid models where resolution is difficult due to the intensity of the background response relative to the phenomena one is interested in measuring, such as a weakly grouwing instability or nonlinear mode coupling effect. (author)
International Nuclear Information System (INIS)
Oeien, A.H.
1977-06-01
Sets of lower order and higher order kinetic and macroscopic equations are developed for a plasma where collisions are important but electrons and ions are allowed to have different temperatures when transports, due to gradients and fields, set in. Solving the lower order kinetic equations and taking appropriate velocity moments we show that usual classical transports emerge. From the higher order kinetic equations special notice is taken of some new correction terms to the classical transports. These corrections are linear in gradients and fields, some of which are found in a two-temperature state only. (Auth.)
Yang, Min; Sun, Peide; Wang, Ruyi; Han, Jingyi; Wang, Jianqiao; Song, Yingqi; Cai, Jing; Tang, Xiudi
2013-09-01
An optimal operating condition for ammonia removal at low temperature, based on fully coupled activated sludge model (FCASM), was determined in a full-scale oxidation ditch process wastewater treatment plant (WWTP). The FCASM-based mechanisms model was calibrated and validated with the data measured on site. Several important kinetic parameters of the modified model were tested through respirometry experiment. Validated model was used to evaluate the relationship between ammonia removal and operating parameters, such as temperature (T), dissolved oxygen (DO), solid retention time (SRT) and hydraulic retention time of oxidation ditch (HRT). The simulated results showed that low temperature have a negative effect on the ammonia removal. Through orthogonal simulation tests of the last three factors and combination with the analysis of variance, the optimal operating mode acquired of DO, SRT, HRT for the WWTP at low temperature were 3.5 mg L(-1), 15 d and 14 h, respectively. Copyright © 2013 Elsevier Ltd. All rights reserved.
Testing and Modeling of a 3-MW Wind Turbine Using Fully Coupled Simulation Codes (Poster)
Energy Technology Data Exchange (ETDEWEB)
LaCava, W.; Guo, Y.; Van Dam, J.; Bergua, R.; Casanovas, C.; Cugat, C.
2012-06-01
This poster describes the NREL/Alstom Wind testing and model verification of the Alstom 3-MW wind turbine located at NREL's National Wind Technology Center. NREL,in collaboration with ALSTOM Wind, is studying a 3-MW wind turbine installed at the National Wind Technology Center(NWTC). The project analyzes the turbine design using a state-of-the-art simulation code validated with detailed test data. This poster describes the testing and the model validation effort, and provides conclusions about the performance of the unique drive train configuration used in this wind turbine. The 3-MW machine has been operating at the NWTC since March 2011, and drive train measurements will be collected through the spring of 2012. The NWTC testing site has particularly turbulent wind patterns that allow for the measurement of large transient loads and the resulting turbine response. This poster describes the 3-MW turbine test project, the instrumentation installed, and the load cases captured. The design of a reliable wind turbine drive train increasingly relies on the use of advanced simulation to predict structural responses in a varying wind field. This poster presents a fully coupled, aero-elastic and dynamic model of the wind turbine. It also shows the methodology used to validate the model, including the use of measured tower modes, model-to-model comparisons of the power curve, and mainshaft bending predictions for various load cases. The drivetrain is designed to only transmit torque to the gearbox, eliminating non-torque moments that are known to cause gear misalignment. Preliminary results show that the drivetrain is able to divert bending loads in extreme loading cases, and that a significantly smaller bending moment is induced on the mainshaft compared to a three-point mounting design.
Monte Carlo simulation on kinetics of batch and semi-batch free radical polymerization
Shao, Jing
2015-10-27
Based on Monte Carlo simulation technology, we proposed a hybrid routine which combines reaction mechanism together with coarse-grained molecular simulation to study the kinetics of free radical polymerization. By comparing with previous experimental and simulation studies, we showed the capability of our Monte Carlo scheme on representing polymerization kinetics in batch and semi-batch processes. Various kinetics information, such as instant monomer conversion, molecular weight, and polydispersity etc. are readily calculated from Monte Carlo simulation. The kinetic constants such as polymerization rate k p is determined in the simulation without of “steady-state” hypothesis. We explored the mechanism for the variation of polymerization kinetics those observed in previous studies, as well as polymerization-induced phase separation. Our Monte Carlo simulation scheme is versatile on studying polymerization kinetics in batch and semi-batch processes.
Mixed finite element-based fully conservative methods for simulating wormhole propagation
Kou, Jisheng
2015-10-11
Wormhole propagation during reactive dissolution of carbonates plays a very important role in the product enhancement of oil and gas reservoir. Because of high velocity and nonuniform porosity, the Darcy–Forchheimer model is applicable for this problem instead of conventional Darcy framework. We develop a mixed finite element scheme for numerical simulation of this problem, in which mixed finite element methods are used not only for the Darcy–Forchheimer flow equations but also for the solute transport equation by introducing an auxiliary flux variable to guarantee full mass conservation. In theoretical analysis aspects, based on the cut-off operator of solute concentration, we construct an analytical function to control and handle the change of porosity with time; we treat the auxiliary flux variable as a function of velocity and establish its properties; we employ the coupled analysis approach to deal with the fully coupling relation of multivariables. From this, the stability analysis and a priori error estimates for velocity, pressure, concentration and porosity are established in different norms. Numerical results are also given to verify theoretical analysis and effectiveness of the proposed scheme.
Simulation methods with extended stability for stiff biochemical Kinetics
Directory of Open Access Journals (Sweden)
Rué Pau
2010-08-01
Full Text Available Abstract Background With increasing computer power, simulating the dynamics of complex systems in chemistry and biology is becoming increasingly routine. The modelling of individual reactions in (biochemical systems involves a large number of random events that can be simulated by the stochastic simulation algorithm (SSA. The key quantity is the step size, or waiting time, τ, whose value inversely depends on the size of the propensities of the different channel reactions and which needs to be re-evaluated after every firing event. Such a discrete event simulation may be extremely expensive, in particular for stiff systems where τ can be very short due to the fast kinetics of some of the channel reactions. Several alternative methods have been put forward to increase the integration step size. The so-called τ-leap approach takes a larger step size by allowing all the reactions to fire, from a Poisson or Binomial distribution, within that step. Although the expected value for the different species in the reactive system is maintained with respect to more precise methods, the variance at steady state can suffer from large errors as τ grows. Results In this paper we extend Poisson τ-leap methods to a general class of Runge-Kutta (RK τ-leap methods. We show that with the proper selection of the coefficients, the variance of the extended τ-leap can be well-behaved, leading to significantly larger step sizes. Conclusions The benefit of adapting the extended method to the use of RK frameworks is clear in terms of speed of calculation, as the number of evaluations of the Poisson distribution is still one set per time step, as in the original τ-leap method. The approach paves the way to explore new multiscale methods to simulate (biochemical systems.
Hybrid framework for the simulation of stochastic chemical kinetics
Duncan, Andrew; Erban, Radek; Zygalakis, Konstantinos
2016-12-01
Stochasticity plays a fundamental role in various biochemical processes, such as cell regulatory networks and enzyme cascades. Isothermal, well-mixed systems can be modelled as Markov processes, typically simulated using the Gillespie Stochastic Simulation Algorithm (SSA) [25]. While easy to implement and exact, the computational cost of using the Gillespie SSA to simulate such systems can become prohibitive as the frequency of reaction events increases. This has motivated numerous coarse-grained schemes, where the "fast" reactions are approximated either using Langevin dynamics or deterministically. While such approaches provide a good approximation when all reactants are abundant, the approximation breaks down when one or more species exist only in small concentrations and the fluctuations arising from the discrete nature of the reactions become significant. This is particularly problematic when using such methods to compute statistics of extinction times for chemical species, as well as simulating non-equilibrium systems such as cell-cycle models in which a single species can cycle between abundance and scarcity. In this paper, a hybrid jump-diffusion model for simulating well-mixed stochastic kinetics is derived. It acts as a bridge between the Gillespie SSA and the chemical Langevin equation. For low reactant reactions the underlying behaviour is purely discrete, while purely diffusive when the concentrations of all species are large, with the two different behaviours coexisting in the intermediate region. A bound on the weak error in the classical large volume scaling limit is obtained, and three different numerical discretisations of the jump-diffusion model are described. The benefits of such a formalism are illustrated using computational examples.
Zheng, Weihua; Andrec, Michael; Gallicchio, Emilio; Levy, Ronald M
2009-08-27
We present an approach to recover kinetics from a simplified protein folding model at different temperatures using the combined power of replica exchange (RE), a kinetic network, and effective stochastic dynamics. While RE simulations generate a large set of discrete states with the correct thermodynamics, kinetic information is lost due to the random exchange of temperatures. We show how we can recover the kinetics of a 2D continuous potential with an entropic barrier by using RE-generated discrete states as nodes of a kinetic network. By choosing the neighbors and the microscopic rates between the neighbors appropriately, the correct kinetics of the system can be recovered by running a kinetic simulation on the network. We fine-tune the parameters of the network by comparison with the effective drift velocities and diffusion coefficients of the system determined from short-time stochastic trajectories. One of the advantages of the kinetic network model is that the network can be built on a high-dimensional discretized state space, which can consist of multiple paths not consistent with a single reaction coordinate.
Gan, Jiaye
The purpose of this research is to develop high fidelity numerical methods to investigate the complex aeroelasticity fluid-structural problems of aircraft and aircraft engine turbomachinery. Unsteady 3D compressible Navier-Stokes equations in generalized coordinates are solved to simulate the complex fluid dynamic problems in aeroelasticity. An efficient and low diffusion E-CUSP (LDE) scheme designed to minimize numerical dissipation is used as a Riemann solver to capture shock waves in transonic and supersonic flows. An improved hybrid turbulence modeling, delayed detached eddy simulation (DDES), is implemented to simulate shock induced separation and rotating stall flows. High order accuracy (3rd and 5th order) weighted essentially non-oscillatory (WENO) schemes for inviscid flux and a conservative 2nd and 4th order viscous flux differencing are employed. To resolve the nonlinear interaction between flow and vibrating blade structures, a fully coupled fluid-structure interaction (FSI) procedure that solves the structural modal equations and time accurate Navier-Stokes equations simultaneously is adopted. A rotor/stator sliding interpolation technique is developed to accurately capture the blade rows interaction at the interface with general grid distribution. Phase lag boundary conditions (BC) based on the time shift (direct store) method and the Fourier series phase lag BC are applied to consider the effect of phase difference for a sector of annulus simulation. Extensive validations are conducted to demonstrate high accuracy and robustness of the high fidelity FSI methodology. The accuracy and robustness of RANS, URANS and DDES turbulence models with high order schemes for predicting the lift and drag of the DLR-F6 configuration are verified. The DDES predicts the drag very well whereas the URANS model significantly over predicts the drag. DDES of a finned projectile base flows is conducted to further validate the high fidelity methods with vortical flow. The
Simulation of styrene polymerization reactors: kinetic and thermodynamic modeling
Directory of Open Access Journals (Sweden)
A. S. Almeida
2008-06-01
Full Text Available A mathematical model for the free radical polymerization of styrene is developed to predict the steady-state and dynamic behavior of a continuous process. Special emphasis is given for the kinetic and thermodynamic models, where the most sensitive parameters were estimated using data from an industrial plant. The thermodynamic model is based on a cubic equation of state and a mixing rule applied to the low-pressure vapor-liquid equilibrium of polymeric solutions, suitable for modeling the auto-refrigerated polymerization reactors, which use the vaporization rate to remove the reaction heat from the exothermic reactions. The simulation results show the high predictive capability of the proposed model when compared with plant data for conversion, average molecular weights, polydispersity, melt flow index, and thermal properties for different polymer grades.
Physically consistent simulation of mesoscale chemical kinetics: The non-negative FIS-α method
International Nuclear Information System (INIS)
Dana, Saswati; Raha, Soumyendu
2011-01-01
Biochemical pathways involving chemical kinetics in medium concentrations (i.e., at mesoscale) of the reacting molecules can be approximated as chemical Langevin equations (CLE) systems. We address the physically consistent non-negative simulation of the CLE sample paths as well as the issue of non-Lipschitz diffusion coefficients when a species approaches depletion and any stiffness due to faster reactions. The non-negative Fully Implicit Stochastic α (FIS α) method in which stopped reaction channels due to depleted reactants are deleted until a reactant concentration rises again, for non-negativity preservation and in which a positive definite Jacobian is maintained to deal with possible stiffness, is proposed and analysed. The method is illustrated with the computation of active Protein Kinase C response in the Protein Kinase C pathway.
Kahsay, Getu; Broeckhoven, Ken; Adams, Erwin; Desmet, Gert; Cabooter, Deirdre
2014-05-01
After the great commercial success of sub-3 µm superficially porous particles, vendors are now also starting to commercialize 5 µm superficially porous particles, as an alternative to their fully porous counterparts which are routinely used in pharmaceutical analysis. In this study, the performance of 5 µm superficially porous particles was compared to that of fully porous 5 µm particles in terms of efficiency, separation performance and loadability on a conventional HPLC instrument. Van Deemter and kinetic plots were first used to evaluate the efficiency and performance of both particle types using alkylphenones as a test mixture. The van Deemter and kinetic plots showed that the superficially porous particles provide a superior kinetic performance compared to the fully porous particles over the entire relevant range of separation conditions, when both support types were evaluated at the same operating pressure. The same observations were made both for isocratic and gradient analysis. The superior performance was further demonstrated for the separation of a pharmaceutical compound (griseofulvin) and its impurities, where a gain in analysis time of around 2 could be obtained using the superficially porous particles. Finally, both particle types were evaluated in terms of loadability by plotting the resolution of the active pharmaceutical ingredient and its closest impurity as a function of the signal-to-noise ratio obtained for the smallest impurity. It was demonstrated that the superficially porous particles show better separation performance for griseofulvin and its impurities without significantly compromising sensitivity due to loadability issues in comparison with their fully porous counterparts. Moreover these columns can be used on conventional equipment without modifications to obtain a significant improvement in analysis time. Copyright © 2014 Elsevier B.V. All rights reserved.
Rani, Sarma; Pratap Vanka, Surya
1999-11-01
A LES study of the modification of turbulence in a fully-developed turbulent pipe flow by dispersed heavy particles at Re_τ = 360 is presented. A 64 (radial) x 64 (azimuthal) x 128 (axial) grid has been used. An Eulerian-Lagrangian approach has been used for treating the continuous and the dispersed phases respectively. The particle equation of motion included only the drag force. Three different LES models are used in the continuous fluid simulation: (i) A “No-Model” LES (coarse-grid DNS) (ii) Smagorinsky’s model and (iii) Schumann’s model . The motivation behind employing the Schumann’s model is to study the impact of sub-grid-scale fluctuations on the particle motion and their (SGS fluctuations) modulation, in turn, by the particles. The effect of particles on fluid turbulence is investigated by tracking 100000 particles of different diameters. Our studies confirm the preferential concentration of particles in the near wall region. It is observed that the inclusion of two-way coupling reduces the preferential concentration of particles. In addition, it was found that two-way coupling attenuates the fluid turbulence. However, we expect the above trends to differ depending upon the particle diameter, volumetric and mass fractions. The effect of SGS fluctuations on the particle dispersion and turbulence modulation is also being investigated. Other relevant statistics for the continuous and the dispersed phases are collected for the cases of one-way and two-way coupling. These statistics are compared to study the modulation of turbulence by the particles.
Numerical simulation of the kinetic effects in the solar wind
Sokolov, I.; Toth, G.; Gombosi, T. I.
2017-12-01
Global numerical simulations of the solar wind are usually based on the ideal or resistive MagnetoHydroDynamics (MHD) equations. Within a framework of MHD the electric field is assumed to vanish in the co-moving frame of reference (ideal MHD) or to obey a simple and non-physical scalar Ohm's law (resistive MHD). The Maxwellian distribution functions are assumed, the electron and ion temperatures may be different. Non-disversive MHD waves can be present in this numerical model. The averaged equations for MHD turbulence may be included as well as the energy and momentum exchange between the turbulent and regular motion. With the use of explicit numerical scheme, the time step is controlled by the MHD wave propagtion time across the numerical cell (the CFL condition) More refined approach includes the Hall effect vie the generalized Ohm's law. The Lorentz force acting on light electrons is assumed to vanish, which gives the expression for local electric field in terms of the total electric current, the ion current as well as the electron pressure gradient and magnetic field. The waves (whistlers, ion-cyclotron waves etc) aquire dispersion and the short-wavelength perturbations propagate with elevated speed thus strengthening the CFL condition. If the grid size is sufficiently small to resolve ion skindepth scale, then the timestep is much shorter than the ion gyration period. The next natural step is to use hybrid code to resolve the ion kinetic effects. The hybrid numerical scheme employs the same generalized Ohm's law as Hall MHD and suffers from the same constraint on the time step while solving evolution of the electromagnetic field. The important distiction, however, is that by sloving particle motion for ions we can achieve more detailed description of the kinetic effect without significant degrade in the computational efficiency, because the time-step is sufficient to resolve the particle gyration. We present the fisrt numerical results from coupled BATS
Jovian Plasma Torus Interaction with Europa: 3D Hybrid Kinetic Simulation. First results
Lipatov, A. S.; Cooper, J. F.; Paterson, W. R.; Sittler, E. C.; Hartle, R. E.; Simpson, D. G.
2010-01-01
The hybrid kinetic model supports comprehensive simulation of the interaction between different spatial and energetic elements of the Europa-moon-magnetosphere system with respect to variable upstream magnetic field and flux or density distributions of plasma and energetic ions, electrons, and neutral atoms. This capability is critical for improving the interpretation of the existing Europa flyby measurements from the Galileo orbiter mission, and for planning flyby and orbital measurements, (including the surface and atmospheric compositions) for future missions. The simulations are based on recent models of the atmosphere of Europa (Cassidy etal.,2007;Shematovichetal.,2005). In contrast to previous approaches with MHD simulations, the hybrid model allows us to fully take into account the finite gyro radius effect and electron pressure, and to correctly estimate the ion velocity distribution and the fluxes along the magnetic field (assuming an initial Maxwellian velocity distribution for upstream background ions).Non-thermal distributions of upstream plasma will be addressed in future work. Photoionization,electron-impact ionization, charge exchange and collisions between the ions and neutrals are also included in our model. We consider two models for background plasma:(a) with O(++) ions; (b) with O(++) and S(++) ions. The majority of O2 atmosphere is thermal with an extended cold population (Cassidyetal.,2007). A few first simulations already include an induced magnetic dipole; however, several important effects of induced magnetic fields arising from oceanic shell conductivity will be addressed in later work.
Energy Technology Data Exchange (ETDEWEB)
Veneziani, Carmela [Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
2016-07-25
Two sets of simulations were performed within this allocation: 1) a 12-year fully-coupled experiment in pre-industrial conditions, using the CICE4 version of the sea-ice model; 2) a set of multi-decadal ocean-ice-only experiments, forced with CORE-I atmospheric fields and using the CICE5 version of the sea-ice model.
Energy Technology Data Exchange (ETDEWEB)
Pitz, William J. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); McNenly, Matt J. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Whitesides, Russell [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Mehl, Marco [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Killingsworth, Nick J. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Westbrook, Charles K. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
2015-12-17
Predictive chemical kinetic models are needed to represent next-generation fuel components and their mixtures with conventional gasoline and diesel fuels. These kinetic models will allow the prediction of the effect of alternative fuel blends in CFD simulations of advanced spark-ignition and compression-ignition engines. Enabled by kinetic models, CFD simulations can be used to optimize fuel formulations for advanced combustion engines so that maximum engine efficiency, fossil fuel displacement goals, and low pollutant emission goals can be achieved.
Kinetic parameters of uracil dosimeter in simulated extraterrestrial UV radiation
Kovács, G.; Gróf, P.; Bérces, A.; Patel, M. R.; Lammer, H.; Rontó, Gy.
Studies of the solar UV environment on Earth 2.0 Gyr to 3.8 Gyr ago suggest that the terrestrial atmosphere was essentially anoxic, resulting in an ozone column abundance insufficient for protecting the planetary surface in the UV-B (280 nm - 315 nm) and the UV-C (200 nm - 280 nm) ranges. Since, short wavelength solar UV radiation in the UV-B and UV-C range penetrated through the atmosphere to the unprotected early Earth's surface, associated biological consequences may be expected. We discuss experimental data obtained as follows: Radiation sources applied were solar simulator and high power deuterium lamp, the wavelength were adjusted by interference filters (210, 230, 250 nm) and the irradiances were measured by OL754 spectroradiometer. The photo-reverse effect depends highly on the wavelength of the exposed radiation. Shorter wavelength UV radiation of about 200 nm is strongly effective in monomerization, while the longer wavelengths prefer the production of dimerization. In case of polychromatic light, like in space or on a planetary surface which is unprotected by an ozone layer the two processes run parallel. We could demonstrate experimentally, for the case of a uracil thin-layer that the photo-reaction process of the nucleotides can be both dimerization and the reverse process: monomerization. These results are important for the study of solar UV effects on organisms in the early terrestrial environment as well as for the search for life on Mars since we can show that biological harmful effects can also be reduced by shorter wavelength UV radiation, which is of importance in reducing DNA damages provoked by wavelengths longer than about 240 nm. Our earlier results showed that dimerization of the pyrimidin base uracil can be described by a first order kinetics, and this reaction gives the possibility to determine the dose of the UV source applied. This work is a theoretical and experimental approach to the relevant parameters of the first order kinetics.
Ali, Azhar Tareq; Warip, Mohd Nazri Mohd; Yaakob, Naimah; Abduljabbar, Waleed Khalid; Atta, Abdu Mohammed Ali
2017-11-01
Vehicular Ad-hoc Networks (VANETs) is an area of wireless technologies that is attracting a great deal of interest. There are still several areas of VANETS, such as security and routing protocols, medium access control, that lack large amounts of research. There is also a lack of freely available simulators that can quickly and accurately simulate VANETs. The main goal of this paper is to develop a freely available VANETS simulator and to evaluate popular mobile ad-hoc network routing protocols in several VANETS scenarios. The VANETS simulator consisted of a network simulator, traffic (mobility simulator) and used a client-server application to keep the two simulators in sync. The VANETS simulator also models buildings to create a more realistic wireless network environment. Ad-Hoc Distance Vector routing (AODV), Dynamic Source Routing (DSR) and Dynamic MANET On-demand (DYMO) were initially simulated in a city, country, and highway environment to provide an overall evaluation.
Energy Technology Data Exchange (ETDEWEB)
Veneziani, Carmela [Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
2017-02-06
Two sets of simulations were performed within this allocation: 1) a 12-year fully-coupled experiment in preindustrial conditions, using the CICE4 version of the sea-ice model; 2) a set of multi-decadal ocean-ice-only experiments, forced with CORE-I atmospheric fields and using the CICE5 version of the sea-ice model. Results from simulation 1) are presented in Figures 1-3, and specific results from a simulation in 2) with tracer releases are presented in Figure 4.
Hydrodenitrogenation mechanism of aromatic amines. Kinetic study and simulation
International Nuclear Information System (INIS)
D'Araujo, P.A.P.
1994-06-01
The decomposition of model molecules reacting alone or in competition was studied in a fixed bed reactor at 623 K and 7 MPa over a sulfided NiMo/Al 2 O 3 catalyst. The inhibiting effect of H 2 S and some nitrogen molecules, namely quinoline type compounds plays a major role in the transformation of anilines intermediates. On the other hand H 2 S acts as a cocatalyst and promote carbon-nitrogen bond cleavage, specially at low H 2 S partial pressure. When the H 2 S partial pressure is greater than the nitrogen compound partial pressure an inhibiting effect of H 2 S occurs and its promoting effect on carbon-nitrogen bond cleavage is cancelled. Hydrogen has a positive but moderate effect in hydrogenation steps. The mechanism of carbon-nitrogen bond scission depends on the structure of the nitrogen molecule namely on the hybridization of the carbon atom bearing the nitrogen atom. If the carbon a with respect to the nitrogen is monosubstituted the mechanism is essentially a nucleophilic substitution. When the degree of substitution increases the elimination mechanism becomes more important and the two mechanisms are in competition. With a sulfided catalyst, H 2 S from the gas phase doesn't change the importance of each mechanism, it just increases the rate of the reaction. In the presence of an oxide catalyst the contribution of the two mechanisms change. This result shows the importance of the sulphur species from the surface. Using isotopic exchange we could demonstrate that the sites able to dissociate H 2 S and H 2 are the same, and that the dissociation is of heterolytic nature. The kinetic modeling of hydrotreatment reactions using the CHEMKIN/SURFACE CHEMKIN package seems to be a convenient method in order to understand the kinetic and mechanistic phenomena in hydrodenitrogenation. The preliminary simulations in the case of 2.6 diethylaniline showed that only one type of site is not sufficient in order to account for the experimental results. Further simulations
Monte Carlo kinetics simulations of ice-mantle formation on interstellar grains
Garrod, Robin
2015-08-01
The majority of interstellar dust-grain chemical kinetics models use rate equations, or alternative population-based simulation methods, to trace the time-dependent formation of grain-surface molecules and ice mantles. Such methods are efficient, but are incapable of considering explicitly the morphologies of the dust grains, the structure of the ices formed thereon, or the influence of local surface composition on the chemistry.A new Monte Carlo chemical kinetics model, MIMICK, is presented here, whose prototype results were published recently (Garrod 2013, ApJ, 778, 158). The model calculates the strengths and positions of the potential mimima on the surface, on the fly, according to the individual pair-wise (van der Waals) bonds between surface species, allowing the structure of the ice to build up naturally as surface diffusion and chemistry occur. The prototype model considered contributions to a surface particle's potential only from contiguous (or "bonded") neighbors; the full model considers contributions from surface constituents from short to long range. Simulations are conducted on a fully 3-D user-generated dust-grain with amorphous surface characteristics. The chemical network has also been extended from the simple water system previously published, and now includes 33 chemical species and 55 reactions. This allows the major interstellar ice components to be simulated, such as water, methane, ammonia and methanol, as well as a small selection of more complex molecules, including methyl formate (HCOOCH3).The new model results indicate that the porosity of interstellar ices are dependent on multiple variables, including gas density, the dust temperature, and the relative accretion rates of key gas-phase species. The results presented also have implications for the formation of complex organic molecules on dust-grain surfaces at very low temperatures.
Innocenti, M. E.; Norgren, C.; Newman, D.; Goldman, M.; Markidis, S.; Lapenta, G.
2016-05-01
The newly developed fully kinetic, semi-implicit, adaptive multi-level multi-domain (MLMD) method is used to simulate, at realistic mass ratio, the development of the lower hybrid drift instability (LHDI) in the terrestrial magnetotail over a large wavenumber range and at a low computational cost. The power spectra of the perpendicular electric field and of the fluctuations of the parallel magnetic field are studied at wavenumbers and times that allow to appreciate the onset of the electrostatic and electromagnetic LHDI branches and of the kink instability. The coupling between electric and magnetic field fluctuations observed by Norgren et al. ["Lower hybrid drift waves: Space observations," Phys. Rev. Lett. 109, 055001 (2012)] for high wavenumber LHDI waves in the terrestrial magnetotail is verified. In the MLMD simulations presented, a domain ("coarse grid") is simulated with low resolution. A small fraction of the entire domain is then simulated with higher resolution also ("refined grid") to capture smaller scale, higher frequency processes. Initially, the MLMD method is validated for LHDI simulations. MLMD simulations with different levels of grid refinement are validated against the standard semi-implicit particle in cell simulations of domains corresponding to both the coarse and the refined grid. Precious information regarding the applicability of the MLMD method to turbulence simulations is derived. The power spectra of MLMD simulations done with different levels of refinements are then compared. They consistently show a break in the magnetic field spectra at k⊥di˜30 , with di the ion skin depth and k⊥ the perpendicular wavenumber. The break is observed at early simulated times, Ωcit <6 , with Ωci the ion cyclotron frequency. It is due to the initial decoupling of electric and magnetic field fluctuations at intermediate and low wavenumbers, before the development of the electromagnetic LHDI branch. Evidence of coupling between electric and magnetic
Atomistic simulations of surfactant adsorption kinetics at interfaces
Iskrenova, Eugeniya; Patnaik, Soumya
2014-03-01
Heat transfer control and enhancement is an important and challenging problem in a variety of industrial and technological applications including aircraft thermal management. The role of additives in nucleate boiling and phase change in general has long been recognized and studied experimentally and modeled theoretically but in-depth description and atomistic understanding of the multiscale processes involved are still needed for better prediction and control of the heat transfer efficiency. Surfactant additives have been experimentally observed to either enhance or inhibit the boiling heat transfer depending on the surfactant concentration and chemistry and, on a molecular level, their addition leads to dynamic surface tension and changes in interfacial and transfer properties, thus contributing to the complexity of the problem. We present our atomistic modeling study of the interfacial adsorption kinetics of aqueous surfactant (sodium dodecyl sulfate) systems at a range of concentrations at room and boiling temperatures. Classical molecular dynamics and Umbrella Sampling simulations were used to study the surfactant transport properties and estimate the adsorption and desorption rates at liquid-vacuum and liquid-solid interfaces. The authors gratefully acknowledge funding from AFOSR Thermal Science Program and the Air Force Research Laboratory DoD Supercomputing Resource Center for computing time and resources.
Kinetic Monte Carlo Simulation of Oxygen Diffusion in Ytterbium Disilicate
Good, Brian S.
2015-01-01
Ytterbium disilicate is of interest as a potential environmental barrier coating for aerospace applications, notably for use in next generation jet turbine engines. In such applications, the transport of oxygen and water vapor through these coatings to the ceramic substrate is undesirable if high temperature oxidation is to be avoided. In an effort to understand the diffusion process in these materials, we have performed kinetic Monte Carlo simulations of vacancy-mediated and interstitial oxygen diffusion in Ytterbium disilicate. Oxygen vacancy and interstitial site energies, vacancy and interstitial formation energies, and migration barrier energies were computed using Density Functional Theory. We have found that, in the case of vacancy-mediated diffusion, many potential diffusion paths involve large barrier energies, but some paths have barrier energies smaller than one electron volt. However, computed vacancy formation energies suggest that the intrinsic vacancy concentration is small. In the case of interstitial diffusion, migration barrier energies are typically around one electron volt, but the interstitial defect formation energies are positive, with the result that the disilicate is unlikely to exhibit experience significant oxygen permeability except at very high temperature.
Fully-implicit simulation of vertical-equilibrium models with hysteresis and capillary fringe
Nilsen, Halvor Møll; Lie, Knut-Andreas; Andersen, Odd
2015-01-01
- Geological carbon storage represents a new and substantial challenge for the subsurface geosciences. To increase understanding and make good engineering decisions, containment processes and large-scale storage operations must be simulated in a thousand year perspective. A hierarchy of models of increasing computational complexity for analysis and simulation of large-scale \\co storage has been implemented as a separate module of the open-source Matlab Reservoir Simulation Toolbox (MRS...
Numerical simulations of a fully developed liquid-metal magnetohydrodynamic flow in a circular duct
Xinghui Cai; Hongfu Qiang; Sanqiang Dong; Guoliang Wang; Jiangren Lu
2015-01-01
In this paper, a kind of new meshless method, two-level radial point interpolation method, has been developed to analyze the fully developed liquid-metal Magnetohydrodynamic (MHD) flow under the externally applied magnetic field in a circular duct with thin conducting walls. This method applied the radial point interpolation method (RPIM) to solve the two levels Galerkin weak form formulations. As the shape functions from RPIM possess Kronecker delta function properties, the essential boundar...
Quevillon, Michael J; Whitmer, Jonathan K
2018-01-02
Ionic liquid crystals occupy an intriguing middle ground between room-temperature ionic liquids and mesostructured liquid crystals. Here, we examine a non-polarizable, fully atomistic model of the 1-alkyl-3-methylimidazolium nitrate family using molecular dynamics in the constant pressure-constant temperature ensemble. These materials exhibit a distinct "smectic" liquid phase, characterized by layers formed by the molecules, which separate the ionic and aliphatic moieties. In particular, we discuss the implications this layering may have for electrolyte applications.
Fully implicit Particle-in-cell algorithms for multiscale plasma simulation
Energy Technology Data Exchange (ETDEWEB)
Chacon, Luis [Los Alamos National Laboratory
2015-07-16
The outline of the paper is as follows: Particle-in-cell (PIC) methods for fully ionized collisionless plasmas, explicit vs. implicit PIC, 1D ES implicit PIC (charge and energy conservation, moment-based acceleration), and generalization to Multi-D EM PIC: Vlasov-Darwin model (review and motivation for Darwin model, conservation properties (energy, charge, and canonical momenta), and numerical benchmarks). The author demonstrates a fully implicit, fully nonlinear, multidimensional PIC formulation that features exact local charge conservation (via a novel particle mover strategy), exact global energy conservation (no particle self-heating or self-cooling), adaptive particle orbit integrator to control errors in momentum conservation, and canonical momenta (EM-PIC only, reduced dimensionality). The approach is free of numerical instabilities: ω_{pe}Δt >> 1, and Δx >> λ_{D}. It requires many fewer dofs (vs. explicit PIC) for comparable accuracy in challenging problems. Significant CPU gains (vs explicit PIC) have been demonstrated. The method has much potential for efficiency gains vs. explicit in long-time-scale applications. Moment-based acceleration is effective in minimizing N_{FE}, leading to an optimal algorithm.
Improved Kinetic Models for High-Speed Combustion Simulation
National Research Council Canada - National Science Library
Montgomery, C. J; Tang, Q; Sarofim, A. F; Bockelie, M. J; Gritton, J. K; Bozzelli, J. W; Gouldin, F. C; Fisher, E. M; Chakravarthy, S
2008-01-01
Report developed under an STTR contract. The overall goal of this STTR project has been to improve the realism of chemical kinetics in computational fluid dynamics modeling of hydrocarbon-fueled scramjet combustors...
Accelerated Simulation of Kinetic Transport Using Variational Principles and Sparsity
Energy Technology Data Exchange (ETDEWEB)
Caflisch, Russel [Univ. of California, Los Angeles, CA (United States)
2017-06-30
This project is centered on the development and application of techniques of sparsity and compressed sensing for variational principles, PDEs and physics problems, in particular for kinetic transport. This included derivation of sparse modes for elliptic and parabolic problems coming from variational principles. The research results of this project are on methods for sparsity in differential equations and their applications and on application of sparsity ideas to kinetic transport of plasmas.
The development of fully dynamic rotating machine models for nuclear training simulators
International Nuclear Information System (INIS)
Birsa, J.J.
1990-01-01
Prior to beginning the development of an enhanced set of electrical plant models for several nuclear training simulators, an extensive literature search was conducted to evaluate and select rotating machine models for use on these simulators. These models include the main generator, diesel generators, in-plant electric power distribution and off-side power. Form the results of this search, various models were investigated and several were selected for further evaluation. Several computer studies were performed on the selected models in order to determine their suitability for use in a training simulator environment. One surprising result of this study was that a number of established, classical models could not be made to reproduce actual plant steady-state data over the range necessary for a training simulator. This evaluation process and its results are presented in this paper. Various historical, as well as contemporary, electrical models of rotating machines are discussed. Specific criteria for selection of rotating machine models for training simulator use are presented
Multiscale GasKinetics/Particle (MGP) Simulation for Rocket Plume/Lunar Dust Interactions, Phase I
National Aeronautics and Space Administration — A Multiscale GasKinetic/Particle (MGP) computational method is proposed to simulate the plume-crater-interaction/dust-impingement(PCIDI) problem. The MGP method...
National Research Council Canada - National Science Library
Liu, Jiwen; Tam, Chung-Jen; Lu, Tianfeng; Law, Chung K
2006-01-01
The VULCAN CFD code integrated with a reduced chemical kinetic mechanism was applied to simulate cavity-stabilized ethylene-air flames and to predict flame stability limits in supersonic flows based...
Collision model for fully resolved simulations of flows laden with finite-size particles
Costa, P.; Boersma, B.J.; Westerweel, J.; Breugem, W.P.
2015-01-01
We present a collision model for particle-particle and particle-wall interactions in interface-resolved simulations of particle-laden flows. Three types of interparticle interactions are taken into account: (1) long- and (2) short-range hydrodynamic interactions, and (3) solid-solid contact.
DEFF Research Database (Denmark)
Skjøth-Rasmussen, Martin Skov; Glarborg, Peter; Jensen, Anker
2003-01-01
It is desired to make detailed chemical kinetic mechanisms applicable to the complex geometries of practical combustion devices simulated with computational fluid dynamics tools. This work presents a novel general approach to combining computational fluid dynamics and a detailed chemical kinetic...... mechanism. It involves post-processing of data extracted from computational fluid dynamics simulations. Application of this approach successfully describes combustion chemistry in a standard swirl burner, the so-called Harwell furnace. Nevertheless, it needs validation against more complex combustion models...
Isothermal crystallization kinetics in simulated high-level nuclear waste glass
International Nuclear Information System (INIS)
Vienna, J.D.; Hrma, P.; Smith, D.E.
1997-01-01
Crystallization kinetics of a simulated high-level waste (HLW) glass were measured and modelled. Kinetics of acmite growth in the standard HW39-4 glass were measured using the isothermal method. A time-temperature-transformation (TTT) diagram was generated from these data. Classical glass-crystal transformation kinetic models were empirically applied to the crystallization data. These models adequately describe the kinetics of crystallization in complex HLW glasses (i.e., RSquared = 0.908). An approach to measurement, fitting, and use of TTT diagrams for prediction of crystallinity in a HLW glass canister is proposed
Fully-Coupled Thermo-Electrical Modeling and Simulation of Transition Metal Oxide Memristors
Energy Technology Data Exchange (ETDEWEB)
Mamaluy, Denis [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Gao, Xujiao [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Tierney, Brian David [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Marinella, Matthew [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Mickel, Patrick [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Tierney, Brian D. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)
2016-11-01
Transition metal oxide (TMO) memristors have recently attracted special attention from the semiconductor industry and academia. Memristors are one of the strongest candidates to replace flash memory, and possibly DRAM and SRAM in the near future. Moreover, memristors have a high potential to enable beyond-CMOS technology advances in novel architectures for high performance computing (HPC). The utility of memristors has been demonstrated in reprogrammable logic (cross-bar switches), brain-inspired computing and in non-CMOS complementary logic. Indeed, the potential use of memristors as logic devices is especially important considering the inevitable end of CMOS technology scaling that is anticipated by 2025. In order to aid the on-going Sandia memristor fabrication effort with a memristor design tool and establish a clear physical picture of resistance switching in TMO memristors, we have created and validated with experimental data a simulation tool we name the Memristor Charge Transport (MCT) Simulator.
The ISS as a platform for a fully simulated mars voyage
Narici, Livio; Reitz, Guenther
2016-07-01
The ISS can mimic the impact of microgravity, radiation, living and psychological conditions that astronauts will face during a deep space cruise, for example to Mars. This suggests the ISS as the most valuable "analogue" for deep space exploration. NASA has indeed suggested a 'full-up deep space simulation on last available ISS Mission: 6/7 crew for one year duration; full simulation of time delays & autonomous operations'. This idea should be pushed further. It is indeed conceivable to use the ISS as the final "analogue", performing a real 'dry-run' of a deep space mission (such as a mission to Mars), as close as reasonably possible to what will be the real voyage. This Mars ISS dry run (ISS4Mars) would last 500-800 days, mimicking most of the challenges which will be undertaken such as length, isolation, food provision, decision making, time delays, health monitoring diagnostic and therapeutic actions and more: not a collection of "single experiments", but a complete exploration simulation were all the pieces will come together for the first in space simulated Mars voyage. Most of these challenges are the same that those that will be encountered during a Moon voyage, with the most evident exceptions being the duration and the communication delay. At the time of the Mars ISS dry run all the science and technological challenges will have to be mostly solved by dedicated works. These solutions will be synergistically deployed in the dry run which will simulate all the different aspects of the voyage, the trip to Mars, the permanence on the planet and the return to Earth. During the dry run i) There will be no arrivals/departure of spacecrafts; 2) Proper communications delay with ground will be simulated; 3) Decision processes will migrate from Ground to ISS; 4) Permanence on Mars will be simulated. Mars ISS dry run will use just a portion of the ISS which will be totally isolated from the rest of the ISS, leaving to the other ISS portions the task to provide the
TREDI: fully 3D beam dynamics simulation of RF guns, bendings and FELs
Giannessi, L; Quattromini, M
1999-01-01
We describe a three-dimensional code modelling the propagation of charged beams in accelerator devices. The inclusion of space charge fields is taken into account by means of the Lienard-Wiechert retarded potentials. As an illustration of the capabilities of the program, the results of a simulation are given that, describe the beam dynamics from the cathode to the undulator through the whole accelerating system. Evidence of bunching in the undulator, as an indication of SASE is observed.
Caravaca, Manuel; Sanchez-Andrada, Pilar; Soto, Antonio; Alajarin, Mateo
2014-12-14
The kinetic-thermodynamic switching point of a multistep process, whose reaction mechanism has been elucidated by DFT calculations, can be calculated by means of an efficient model based on the Network Simulation Method (NSM). This method can solve, fast and effectively, a difficult system of differential equations derived from a complex kinetic scheme by establishing a formal equivalence between the chemical system and an electrical network. The NSM employs very short simulation times to determine the dependence of the switching time on the temperature, a fundamental topic to take control over the product composition which has not been treated exhaustively so far, and that could be applied for synthetic purposes avoiding laborious and costly experimental trials.
Effects of long-range electrostatic forces on simulated protein folding kinetics.
Robertson, Alex; Luttmann, Edgar; Pande, Vijay S
2008-04-15
Molecular dynamics simulations are a useful tool for characterizing protein folding pathways. There are several methods of treating electrostatic forces in these simulations with varying degrees of physical fidelity and computational efficiency. In this article, we compare the reaction field (RF) algorithm, particle-mesh Ewald (PME), and tapered cutoffs with increasing cutoff radii to address the impact of the electrostatics method employed on the folding kinetics. We quantitatively compare different methods by a correlation of quantitative measures of protein folding kinetics. The results of these comparisons show that for protein folding kinetics, the RF algorithm can quantitatively reproduce the kinetics of the more costly PME algorithm. These results not only assist the selection of appropriate algorithms for future simulations, but also give insight on the role that long-range electrostatic forces have in protein folding. (c) 2007 Wiley Periodicals, Inc.
for simulating kinetic profiles of multi-step chemical systems
African Journals Online (AJOL)
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time and as a consequence it is necessary to use the medium of calculus to write and solve these equations [4]. Detailed chemical kinetic models incorporate elementary ... mix of experimentation, literature search for existing information and the application of theory. When studying a chemical reaction experimentally, some ...
Luo, Kun; Hu, Chenshu; Wu, Fan; Fan, Jianren
2017-05-01
In the present work, a direct numerical simulation (DNS) of dilute particulate flow in a turbulent boundary layer has been conducted, containing thousands of finite-sized solid rigid particles. The particle surfaces are resolved with the multi-direct forcing immersed-boundary method. This is, to the best of the authors' knowledge, the first DNS study of a turbulent boundary layer laden with finite-sized particles. The particles have a diameter of approximately 11.3 wall units, a density of 3.3 times that of the fluid, and a solid volume fraction of 1/1000. The simulation shows that the onset and the completion of the transition processes are shifted earlier with the inclusion of the solid phase and that the resulting streamwise mean velocity of the boundary layer in the particle-laden case is almost consistent with the results of the single-phase case. At the same time, relatively stronger particle movements are observed in the near-wall regions, due to the driving of the counterrotating streamwise vortexes. As a result, increased levels of dissipation occur on the particle surfaces, and the root mean square of the fluctuating velocities of the fluid in the near-wall regions is decreased. Under the present parameters, including the particle Stokes number St+ = 24 and the particle Reynolds number Rep = 33 based on the maximum instantaneous fluid-solid velocity lag, no vortex shedding behind the particle is observed. Lastly, a trajectory analysis of the particles shows the influence of turbophoresis on particle wall-normal concentration, and the particles that originated between y+ = 60 and 2/3 of the boundary-layer thickness are the most influenced.
Queiruga, A. F.; Moridis, G. J.
2016-12-01
A numerical model is presented for the simulation of the evolution of hydraulic fracture in general geological media that couples a peridynamic mechanical model and finite element models for porous flow and fracture flow. The two-dimensional model captures porous flow through rock; thin-film flow through hydraulic fractures; mechanical deformation due to applied loads, pore pressure, and fracture pressure; and fracture growth and deformation. The fracture mesh is built dynamically as the fracture grows, connecting broken peridynamic bonds. While a simple finite element model of Darcian flow is employed in the presented results, the formulation and implementation of the peridynamic and fracture models allows the code to be easily coupled to any other hydrogeological code. The dynamic evolution of the system is solved by implicit Runge-Kutta integration. The mechanical deformation, matrix pore pressure, and fracture pressure fields are solved fully-coupled in staggered nonlinear iterations at each Runge-Kutta stage, and the damage field is updated sequentially at each time step. The accuracy and convergence rates of the peridynamic model is studied by comparing numerical results to analytical solutions in linear mechanics, and the fully-coupled model is benchmarked against Terzhaghi's consolidation problem. Applications of the model to simulating pressure-driven hydraulic fracture extension of a lone fracture and a fracture interacting with preexisting natural fractures are presented.
LibSBMLSim: a reference implementation of fully functional SBML simulator.
Takizawa, Hiromu; Nakamura, Kazushige; Tabira, Akito; Chikahara, Yoichi; Matsui, Tatsuhiro; Hiroi, Noriko; Funahashi, Akira
2013-06-01
The Systems Biology Markup Language (SBML) is currently supported by >230 software tools, among which 160 support numerical integration of ordinary differential equation (ODE) models. Although SBML is a widely accepted standard within this field, there is still no language-neutral library that supports all features of SBML for simulating ODE models. Therefore, a demand exists for a simple portable implementation of a numerical integrator that supports SBML to enhance the development of a computational platform for systems biology. We implemented a library called libSBMLSim, which supports all the features of SBML and confirmed that the library passes all tests in the SBML test suite including those for SBML Events, AlgebraicRules, 'fast' attribute on Reactions and Delay. LibSBMLSim is implemented in the C programming language and does not depend on any third-party library except libSBML, which is a library to handle SBML documents. For the numerical integrator, both explicit and implicit methods are written from scratch to support all the functionality of SBML features in a straightforward implementation. We succeeded in implementing libSBMLSim as a platform-independent library that can run on most common operating systems (Windows, MacOSX and Linux) and also provides several language bindings (Java, C#, Python and Ruby). The source code of libSBMLSim is available from http://fun.bio.keio.ac.jp/software/libsbmlsim/. LibSBMLSim is distributed under the terms of LGPL. Supplementary data are available at Bioinformatics online.
Simulations and first manufacturing steps of a fully integrated WDM-element in the visible spectrum
Höll, S.; Haupt, M.; Fischer, U. H. P.
2013-09-01
Due to their economical and easy-manageable advantages, POFs (polymer optical fiber) are going to replace traditional communication media such as copper and glass step by step within short distance communication systems. POFs are already used in various fields of optical communication, e.g. the automotive sector or in-house communication. Though single channel communication systems are state of the art technology, using of only one channel/wavelength for communication limits the bandwidth. For future scenarios this traditional technology is the bottleneck of bandwidth, particularly for HDTV with IP-TV. One solution to breakthrough this limitation is to use more than one wavelength over one single fiber, this is called WDM (wavelength division multiplexing) and is well-established for GOF communication. This technique will be adapted for the visible spectrum for POF. However this multiplexing technology requires two more key-elements: a multiplexer, which combines the multiple wavelengths signals into one fiber, and a demultiplexer at the end of the network to separate the colored signals. In this paper, the development of this key-element based on a Rowland spectrometer will be shown. It starts with the simulation, this is done by means of raytracing. Also the next process steps and solutions for injection molding are described.
Direct comparison of quantum and simulated annealing on a fully connected Ising ferromagnet
Wauters, Matteo M.; Fazio, Rosario; Nishimori, Hidetoshi; Santoro, Giuseppe E.
2017-08-01
We compare the performance of quantum annealing (QA, through Schrödinger dynamics) and simulated annealing (SA, through a classical master equation) on the p -spin infinite range ferromagnetic Ising model, by slowly driving the system across its equilibrium, quantum or classical, phase transition. When the phase transition is second order (p =2 , the familiar two-spin Ising interaction) SA shows a remarkable exponential speed-up over QA. For a first-order phase transition (p ≥3 , i.e., with multispin Ising interactions), in contrast, the classical annealing dynamics appears to remain stuck in the disordered phase, while we have clear evidence that QA shows a residual energy which decreases towards zero when the total annealing time τ increases, albeit in a rather slow (logarithmic) fashion. This is one of the rare examples where a limited quantum speedup, a speedup by QA over SA, has been shown to exist by direct solutions of the Schrödinger and master equations in combination with a nonequilibrium Landau-Zener analysis. We also analyze the imaginary-time QA dynamics of the model, finding a 1 /τ2 behavior for all finite values of p , as predicted by the adiabatic theorem of quantum mechanics. The Grover-search limit p (odd )=∞ is also discussed.
Numerical Simulations of Kinetic Alfvén Waves to Study Spectral ...
Indian Academy of Sciences (India)
Numerical Simulations of Kinetic Alfvén Waves to Study Spectral. Index in Solar Wind Turbulence and Particle Heating. R. P. Sharma. ∗. & H. D. Singh. Center for Energy Studies, Indian Institute of Technology, Delhi 110 016, India. ∗ e-mail: rpsharma@ces.iitd.ernet.in. Abstract. We present numerical simulations of the ...
Fan, Yaqing; Durlofsky, Louis J.; Tchelepi, Hamdi A.
2012-06-01
A numerical simulation framework for coupled multiphase flow, multicomponent transport and geochemical reactions in porous media is presented. The approach is an element-based formulation that combines the compositional modeling capabilities used in oil reservoir simulation with the treatment of chemical reactions used in groundwater modeling. The procedure employs a conservative finite-volume method with a fully-implicit treatment in time in order to preserve the nonlinear coupling of flow, transport, reactions, and mass transfer across phases. Phase behavior is described using cubic equations of state. In this framework, all the governing equations and associated constraints are cast in discrete residual form, such that any variable, or coefficient, can depend on any other variable in the problem. Prior to linearization, which is applied to construct the Jacobian matrix, no algebraic or analytic manipulation need be performed to reduce the nonlinear sets of equations and unknowns. Once the complete Jacobian matrix is assembled, a series of algebraic reductions (Schur complements), of the type used in compositional reservoir simulation, are performed to reduce the number of discrete equations that must be solved simultaneously. A GMRES solution strategy with CPR (Constrained Pressure Residual) preconditioning is applied to solve the reduced linear system. We demonstrate the formulation using two CO2 sequestration problems, one of which involves chemical reactions. The simulations demonstrate the efficiency and applicability of the overall procedure for modeling the long-term fate of sequestered CO2.
Anaerobic digestion of buffalo dung: simulation of process kinetics
International Nuclear Information System (INIS)
Sahito, A.R.
2015-01-01
Assessment of kinetic of AD (Anaerobic Digestion) is a beneficial practice to forecast the performance of the process. It is helpful in the design of AD vessels, substrate feeding and digestate exit systems. The aim of this work was to assess the kinetics of anaerobically digested buffalo dung at different quantities of water added. It comprises the assessment of the specific methane production on the basis of VS (Volatile Solids) added in each reactor by using three first order models, i.e. the modified Gompertz model, the Cone model and the Exponential Curve Factor model. The analysis was tested by using the three statistical parameters, i.e. the coefficient of multiple determinations, the standard deviation of residuals and the Akaike's Information Criteria. The result reveals that the Exponential Curve Factor model was the best model that described the experimental data well. Moreover, there was not a direct or indirect relation between the kinetic coefficients of the AD process with the varying total or volatile solid content. (author)
Orientationally ordered phase produced by fully antinematic interactions: A simulation study
Romano, Silvano; de Matteis, Giovanni
2011-07-01
We consider here a classical model, consisting of D2h symmetric particles, whose centers of mass are associated with a three-dimensional simple-cubic lattice; the pair potential is isotropic in orientation space, and restricted to nearest neighbors. Two orthonormal triads define orientations of a pair of interacting particles; the simplest potential models proposed in the literature can be written as a linear combination involving the squares of the scalar products between corresponding unit vectors only, thus depending on three parameters, and making the interaction model rather versatile. A coupling constant with negative sign tends to keep the two interacting unit vectors parallel to each other, whereas a positive sign tends to keep them mutually orthogonal (antinematic coupling). We address here a special, extreme case of the above family, involving only antinematic couplings: more precisely, three antinematic terms whose coefficients are set to a common positive value (hence the name PPP model). The model under investigation produces a doubly degenerate pair ground state; the nearest-neighbor range of the interaction and the bipartite character of the lattice can propagate the pair ground state and increase the overall degeneracy, but without producing frustration. The model was investigated by a simplified molecular field treatment as well as by Monte Carlo simulation, whose results suggested a second-order transition to a low-temperature biaxially ordered phase; ground-state configurations producing orientational order have been selected by thermal fluctuations. The molecular field treatment also predicted a continuous transition, and was found to overestimate the transition temperature by a factor 2.
Collision model for fully resolved simulations of flows laden with finite-size particles.
Costa, Pedro; Boersma, Bendiks Jan; Westerweel, Jerry; Breugem, Wim-Paul
2015-11-01
We present a collision model for particle-particle and particle-wall interactions in interface-resolved simulations of particle-laden flows. Three types of interparticle interactions are taken into account: (1) long- and (2) short-range hydrodynamic interactions, and (3) solid-solid contact. Long-range interactions are incorporated through an efficient and second-order-accurate immersed boundary method (IBM). Short-range interactions are also partly reproduced by the IBM. However, since the IBM uses a fixed grid, a lubrication model is needed for an interparticle gap width smaller than the grid spacing. The lubrication model is based on asymptotic expansions of analytical solutions for canonical lubrication interactions between spheres in the Stokes regime. Roughness effects are incorporated by making the lubrication correction independent of the gap width for gap widths smaller than ∼1% of the particle radius. This correction is applied until the particles reach solid-solid contact. To model solid-solid contact we use a variant of a linear soft-sphere collision model capable of stretching the collision time. This choice is computationally attractive because it allows us to reduce the number of time steps required for integrating the collision force accurately and is physically realistic, provided that the prescribed collision time is much smaller than the characteristic time scale of particle motion. We verified the numerical implementation of our collision model and validated it against several benchmark cases for immersed head-on particle-wall and particle-particle collisions, and oblique particle-wall collisions. The results show good agreement with experimental data.
Bao, J.; Liu, D.; Lin, Z.
2017-10-01
A conservative scheme of drift kinetic electrons for gyrokinetic simulations of kinetic-magnetohydrodynamic processes in toroidal plasmas has been formulated and verified. Both vector potential and electron perturbed distribution function are decomposed into adiabatic part with analytic solution and non-adiabatic part solved numerically. The adiabatic parallel electric field is solved directly from the electron adiabatic response, resulting in a high degree of accuracy. The consistency between electrostatic potential and parallel vector potential is enforced by using the electron continuity equation. Since particles are only used to calculate the non-adiabatic response, which is used to calculate the non-adiabatic vector potential through Ohm's law, the conservative scheme minimizes the electron particle noise and mitigates the cancellation problem. Linear dispersion relations of the kinetic Alfvén wave and the collisionless tearing mode in cylindrical geometry have been verified in gyrokinetic toroidal code simulations, which show that the perpendicular grid size can be larger than the electron collisionless skin depth when the mode wavelength is longer than the electron skin depth.
Coupling Chemical Kinetics and Flashes in Reactive, Thermal and Compositional Reservoir Simulation
DEFF Research Database (Denmark)
Kristensen, Morten Rode; Gerritsen, Margot G.; Thomsen, Per Grove
2007-01-01
of convergence and error test failures by more than 50% compared to direct integration without the new algorithm. To facilitate the algorithmic development we construct a virtual kinetic cell model. We use implicit one-step ESDIRK (Explicit Singly Diagonal Implicit Runge-Kutta) methods for integration...... of the kinetics. The kinetic cell model serves both as a tool for the development and testing of tailored solvers as well as a testbed for studying the interactions between chemical kinetics and phase behavior. A comparison between a Kvalue correlation based approach and a more rigorous equation of state based......Phase changes are known to cause convergence problems for integration of stiff kinetics in thermal and compositional reservoir simulations. We propose an algorithm for detection and location of phase changes based on discrete event system theory. The algorithm provides a robust way for handling...
Atomistic Simulations of Nonequilibrium Crystal-Growth Kinetics from Alloy Melts
Yang, Yang; Humadi, Harith; Buta, Dorel; Laird, Brian B.; Sun, Deyan; Hoyt, Jeffrey J.; Asta, Mark
2011-07-01
Nonequilibrium kinetic properties of alloy crystal-melt interfaces are calculated by molecular-dynamics simulations. The relationships between the interface velocity, thermodynamic driving force, and solute partition coefficient are computed and analyzed within the framework of kinetic theories accounting for solute trapping and solute drag. The results show a transition to complete solute trapping at high growth velocities, establish appreciable solute drag at low growth velocities, and provide insights into the nature of crystalline anisotropies and solute effects on interface mobilities.
Radford, Isolde H; Fersht, Alan R; Settanni, Giovanni
2011-06-09
Atomistic molecular dynamics simulations of the TZ1 beta-hairpin peptide have been carried out using an implicit model for the solvent. The trajectories have been analyzed using a Markov state model defined on the projections along two significant observables and a kinetic network approach. The Markov state model allowed for an unbiased identification of the metastable states of the system, and provided the basis for commitment probability calculations performed on the kinetic network. The kinetic network analysis served to extract the main transition state for folding of the peptide and to validate the results from the Markov state analysis. The combination of the two techniques allowed for a consistent and concise characterization of the dynamics of the peptide. The slowest relaxation process identified is the exchange between variably folded and denatured species, and the second slowest process is the exchange between two different subsets of the denatured state which could not be otherwise identified by simple inspection of the projected trajectory. The third slowest process is the exchange between a fully native and a partially folded intermediate state characterized by a native turn with a proximal backbone H-bond, and frayed side-chain packing and termini. The transition state for the main folding reaction is similar to the intermediate state, although a more native like side-chain packing is observed.
Ekici, Altug; Tjiputra, Jerry; Grini, Alf; Muri, Helene
2017-04-01
We have simulated 3 different radiation management geoengineering methods (CCT - cirrus cloud thinning; SAI - stratospheric aerosol injection; MSB - marine sky brightening) on top of future RCP8.5 scenario with the fully coupled Norwegian Earth System Model (NorESM). A globally consistent cooling in both atmosphere and soil is observed with all methods. However, precipitation patterns are dependent on the used method. Globally CCT and MSB methods do not affect the vegetation carbon budget, while SAI leads to a loss compared to RCP8.5 simulations. Spatially the most sensitive region is the tropics. Here, the changes in vegetation carbon content are related to the precipitation changes. Increase in soil carbon is projected in all three methods, the biggest change seen in SAI method. Simulations with CCT method leads to twice as much soil carbon retention in the tropics compared to the MSB method. Our findings show that there are unforeseen regional consequences of such geoengineering methods in the biogeochemical cycles and they should be considered with care in future climate policies.
Particle-in-cell Simulations with Kinetic Electrons
International Nuclear Information System (INIS)
Lewandowski, J.L.V.
2004-01-01
A new scheme, based on an exact separation between adiabatic and nonadiabatic electron responses, for particle-in-cell (PIC) simulations of drift-type modes is presented. The (linear and nonlinear) elliptic equations for the scalar fields are solved using a multi-grid solver. The new scheme yields linear growth rates in excellent agreement with theory and it is shown to conserve energy well into the nonlinear regime. It is also demonstrated that simulations with few electrons are reliable and accurate, suggesting that large-scale, PIC simulations with electron dynamics in toroidal geometry (e.g., tokamaks and stellarators plasmas) are within reach of present-day massively parallel supercomputers
Zaidi, H; Morel, Christian
1998-01-01
This paper describes the implementation of the Eidolon Monte Carlo program designed to simulate fully three-dimensional (3D) cylindrical positron tomographs on a MIMD parallel architecture. The original code was written in Objective-C and developed under the NeXTSTEP development environment. Different steps involved in porting the software on a parallel architecture based on PowerPC 604 processors running under AIX 4.1 are presented. Basic aspects and strategies of running Monte Carlo calculations on parallel computers are described. A linear decrease of the computing time was achieved with the number of computing nodes. The improved time performances resulting from parallelisation of the Monte Carlo calculations makes it an attractive tool for modelling photon transport in 3D positron tomography. The parallelisation paradigm used in this work is independent from the chosen parallel architecture
Kinetic Energy from Supernova Feedback in High-resolution Galaxy Simulations
Simpson, Christine M.; Bryan, Greg L.; Hummels, Cameron; Ostriker, Jeremiah P.
2015-08-01
We describe a new method for adding a prescribed amount of kinetic energy to simulated gas modeled on a cartesian grid by directly altering grid cells’ mass and velocity in a distributed fashion. The method is explored in the context of supernova (SN) feedback in high-resolution (˜10 pc) hydrodynamic simulations of galaxy formation. Resolution dependence is a primary consideration in our application of the method, and simulations of isolated explosions (performed at different resolutions) motivate a resolution-dependent scaling for the injected fraction of kinetic energy that we apply in cosmological simulations of a 109 M⊙ dwarf halo. We find that in high-density media (≳50 cm-3) with coarse resolution (≳4 pc per cell), results are sensitive to the initial kinetic energy fraction due to early and rapid cooling. In our galaxy simulations, the deposition of small amounts of SN energy in kinetic form (as little as 1%) has a dramatic impact on the evolution of the system, resulting in an order-of-magnitude suppression of stellar mass. The overall behavior of the galaxy in the two highest resolution simulations we perform appears to converge. We discuss the resulting distribution of stellar metallicities, an observable sensitive to galactic wind properties, and find that while the new method demonstrates increased agreement with observed systems, significant discrepancies remain, likely due to simplistic assumptions that neglect contributions from SNe Ia and stellar winds.
Advances in petascale kinetic plasma simulation with VPIC and Roadrunner
Energy Technology Data Exchange (ETDEWEB)
Bowers, Kevin J [Los Alamos National Laboratory; Albright, Brian J [Los Alamos National Laboratory; Yin, Lin [Los Alamos National Laboratory; Daughton, William S [Los Alamos National Laboratory; Roytershteyn, Vadim [Los Alamos National Laboratory; Kwan, Thomas J T [Los Alamos National Laboratory
2009-01-01
VPIC, a first-principles 3d electromagnetic charge-conserving relativistic kinetic particle-in-cell (PIC) code, was recently adapted to run on Los Alamos's Roadrunner, the first supercomputer to break a petaflop (10{sup 15} floating point operations per second) in the TOP500 supercomputer performance rankings. They give a brief overview of the modeling capabilities and optimization techniques used in VPIC and the computational characteristics of petascale supercomputers like Roadrunner. They then discuss three applications enabled by VPIC's unprecedented performance on Roadrunner: modeling laser plasma interaction in upcoming inertial confinement fusion experiments at the National Ignition Facility (NIF), modeling short pulse laser GeV ion acceleration and modeling reconnection in magnetic confinement fusion experiments.
DSMC Simulation of Entry Vehicle Flowfields Using a Collision-Based Chemical Kinetics Approach
Wilmoth, R. G.; VanGilder, D. B.; Papp, J. L.
2011-05-01
A study of high-altitude, nonequilibrium flows about an Orion Command Module (CM) is conducted using the collision-based chemical kinetics approach introduced by Bird in 2008. DSMC simulations are performed for Earth entry flow conditions and show significant differences in molecular dissociation in the shock layer from those obtained using traditional temperature-based procedures with an attendant reduction in the surface heat flux. Reaction rates derived from equilibrium simulations are also presented for selected reactions relevant to entry flow kinetics, and comparisons to various experimental and theoretical results are presented.
Nonlinear kinetic modeling and simulations of Raman scattering in a two-dimensional geometry
Directory of Open Access Journals (Sweden)
Bénisti Didier
2013-11-01
Full Text Available In this paper, we present our nonlinear kinetic modeling of stimulated Raman scattering (SRS by the means of envelope equations, whose coefficients have been derived using a mixture of perturbative and adiabatic calculations. First examples of the numerical resolution of these envelope equations in a two-dimensional homogeneous plasma are given, and the results are compared against those of particle-in-cell (PIC simulations. These preliminary comparisons are encouraging since our envelope code provides threshold intensities consistent with those of PIC simulations while requiring computational resources reduced by 4 to 5 orders of magnitude compared to full-kinetic codes.
Directory of Open Access Journals (Sweden)
M Pomarède
2016-09-01
Full Text Available Numerical simulation of Vortex-Induced-Vibrations (VIV of a rigid circular elastically-mounted cylinder submitted to a fluid cross-flow has been extensively studied over the past decades, both experimentally and numerically, because of its theoretical and practical interest for understanding Flow-Induced-Vibrations (FIV problems. In this context, the present article aims to expose a numerical study based on fully-coupled fluid-solid computations compared to previously published work [34], [36]. The computational procedure relies on a partitioned method ensuring the coupling between fluid and structure solvers. The fluid solver involves a moving mesh formulation for simulation of the fluid structure interface motion. Energy exchanges between fluid and solid models are ensured through convenient numerical schemes. The present study is devoted to a low Reynolds number configuration. Cylinder motion magnitude, hydrodynamic forces, oscillation frequency and fluid vortex shedding modes are investigated and the “lock-in” phenomenon is reproduced numerically. These numerical results are proposed for code validation purposes before investigating larger industrial applications such as configurations involving tube arrays under cross-flows [4].
Energy Technology Data Exchange (ETDEWEB)
Beji, Tarek; Merci, Bart [Ghent Univ. (Belgium). Dept. of Flow, Heat and Combustion Mechanics; Bonte, Frederick [Bel V, Brussels (Belgium)
2015-12-15
This paper presents a computational fluid dynamics (CFD)-based modelling strategy for real-scale cable tray fires. The challenge was to perform fully predictive simulations (that could be called 'blind' simulations) using solely information from laboratory-scale experiments, in addition to the geometrical arrangement of the cables. The results of the latter experiments were used (1) to construct the fuel molecule and the chemical reaction for combustion, and (2) to estimate the overall pyrolysis and burning behaviour. More particularly, the strategy regarding the second point consists of adopting a surface-based pyrolysis model. Since the burning behaviour of each cable could not be tracked individually (due to computational constraints), 'groups' of cables were modelled with an overall cable surface area equal to the actual value. The results obtained for one large-scale test (a stack of five horizontal trays) are quite encouraging, especially for the peak Heat Release Rate (HRR) that was predicted with a relative deviation of 3 %. The time to reach the peak is however overestimated by 4.7 min (i.e. 94 %). Also, the fire duration is overestimated by 5 min (i.e. 24 %). These discrepancies are mainly attributed to differences in the HRRPUA (heat release rate per unit area) profiles between the small-scale and large-scale. The latter was calculated by estimating the burning area of cables using video fire analysis (VFA).
International Nuclear Information System (INIS)
Moreau, Matthieu
2014-01-01
Immuno-PET imaging can be used to assess the pharmacokinetic in radioimmunotherapy. When using iodine-124, PET quantitative imaging is limited by physics-based degrading factors within the detection system and the object, such as the long positron range in water and the complex spectrum of gamma photons. The objective of this thesis was to develop a fully 3D tomographic reconstruction method (S(MC)2PET) using Monte Carlo simulations for estimating the system matrix, in the context of preclinical imaging with iodine-124. The Monte Carlo simulation platform GATE was used for that respect. Several complexities of system matrices were calculated, with at least a model of the PET system response function. Physics processes in the object was either neglected or taken into account using a precise or a simplified object description. The impact of modelling refinement and statistical variance related to the system matrix elements was evaluated on final reconstructed images. These studies showed that a high level of complexity did not always improve qualitative and quantitative results, owing to the high-variance of the associated system matrices. (author)
Energy Technology Data Exchange (ETDEWEB)
Kabir, Mohammad Rizviul [GKSS-Forschungszentrum Geesthacht GmbH (Germany). Inst. fuer Materialforschung
2008-07-01
The present work deals with the modeling and simulation of deformation and fracture behavior of fully lamellar {gamma}TiAl alloy; focusing on understanding the variability of local material properties and their influences on translamellar fracture. Afracture model has been presented that takes the inhomogeneity of the local deformation behavior of the lamellar colonies as well as the variability in fracture strength and toughness into consideration. To obtain the necessary model parameters, a hybrid methodology of experiments and simulations has been adopted. The experiments were performed at room temperature that demonstrates quasi-brittle response of the TiAl polycrystal. Aremarkable variation in stress-strain curves has been found in the tensile tests. Additional fracture tests showed significant variations in crack initiation and propagation during translamellar fracture. Analyzing the fracture surfaces, the micromechanical causes of these macroscopic scatter have been explained. The investigation shows that the global scatter in deformation and fracture response is highly influenced by the colony orientation and tilting angle with respect to the loading axis. The deformation and fracture behavior have been simulated by a finite element model including the material decohesion process described by a cohesive model. In order to capture the scatter of the macroscopic behavior, a stochastic approach is chosen. The local variability of stressstrain in the polycrystal and the variability of fracture parameters of the colonies are implemented in the stochastic approach of the cohesive model. It has been shown that the proposed approach is able to predict the stochastic nature of crack initiation and propagation as observed from the experiments. The global specimen failure with stable or unstable crack propagation can be explained in terms of the local variation of material properties. (orig.)
Growth Kinetics of the Homogeneously Nucleated Water Droplets: Simulation Results
International Nuclear Information System (INIS)
Mokshin, Anatolii V; Galimzyanov, Bulat N
2012-01-01
The growth of homogeneously nucleated droplets in water vapor at the fixed temperatures T = 273, 283, 293, 303, 313, 323, 333, 343, 353, 363 and 373 K (the pressure p = 1 atm.) is investigated on the basis of the coarse-grained molecular dynamics simulation data with the mW-model. The treatment of simulation results is performed by means of the statistical method within the mean-first-passage-time approach, where the reaction coordinate is associated with the largest droplet size. It is found that the water droplet growth is characterized by the next features: (i) the rescaled growth law is unified at all the considered temperatures and (ii) the droplet growth evolves with acceleration and follows the power law.
Computer simulation of kinetic properties of plasmas. Final report
International Nuclear Information System (INIS)
Denavit, J.
1982-08-01
The research was directed toward the development and testing of new numerical methods for particle and hybrid simulation of plasmas, and their application to physical problems of current significance to Magnetic Fusion Energy. This project will terminate on August 31, 1982 and this Final Report describes: (1) the research accomplished since the last renewal on October 1, 1981; and (2) a perspective of the work done since the beginning of the project in February 1972
Directory of Open Access Journals (Sweden)
Antonio Tripodi
2017-05-01
Full Text Available Process simulation represents an important tool for plant design and optimization, either applied to well established or to newly developed processes. Suitable thermodynamic packages should be selected in order to properly describe the behavior of reactors and unit operations and to precisely define phase equilibria. Moreover, a detailed and representative kinetic scheme should be available to predict correctly the dependence of the process on its main variables. This review points out some models and methods for kinetic analysis specifically applied to the simulation of catalytic processes, as a basis for process design and optimization. Attention is paid also to microkinetic modelling and to the methods based on first principles, to elucidate mechanisms and independently calculate thermodynamic and kinetic parameters. Different case studies support the discussion. At first, we have selected two basic examples from the industrial chemistry practice, e.g., ammonia and methanol synthesis, which may be described through a relatively simple reaction pathway and the relative available kinetic scheme. Then, a more complex reaction network is deeply discussed to define the conversion of bioethanol into syngas/hydrogen or into building blocks, such as ethylene. In this case, lumped kinetic schemes completely fail the description of process behavior. Thus, in this case, more detailed—e.g., microkinetic—schemes should be available to implement into the simulator. However, the correct definition of all the kinetic data when complex microkinetic mechanisms are used, often leads to unreliable, highly correlated parameters. In such cases, greater effort to independently estimate some relevant kinetic/thermodynamic data through Density Functional Theory (DFT/ab initio methods may be helpful to improve process description.
A Simulational approach to teaching statistical mechanics and kinetic theory
International Nuclear Information System (INIS)
Karabulut, H.
2005-01-01
A computer simulation demonstrating how Maxwell-Boltzmann distribution is reached in gases from a nonequilibrium distribution is presented. The algorithm can be generalized to the cases of gas particles (atoms or molecules) with internal degrees of freedom such as electronic excitations and vibrational-rotational energy levels. Another generalization of the algorithm is the case of mixture of two different gases. By choosing the collision cross sections properly one can create quasi equilibrium distributions. For example by choosing same atom cross sections large and different atom cross sections very small one can create mixture of two gases with different temperatures where two gases slowly interact and come to equilibrium in a long time. Similarly, for the case one kind of atom with internal degrees of freedom one can create situations that internal degrees of freedom come to the equilibrium much later than translational degrees of freedom. In all these cases the equilibrium distribution that the algorithm gives is the same as expected from the statistical mechanics. The algorithm can also be extended to cover the case of chemical equilibrium where species A and B react to form AB molecules. The laws of chemical equilibrium can be observed from this simulation. The chemical equilibrium simulation can also help to teach the elusive concept of chemical potential
Sarathy, Mani
2018-04-03
Toluene primary reference fuel (TPRF) (mixture of toluene, iso-octane and heptane) is a suitable surrogate to represent a wide spectrum of real fuels with varying octane sensitivity. Investigating different surrogates in engine simulations is a prerequisite to identify the best matching mixture. However, running 3D engine simulations using detailed models is currently impossible and reduction of detailed models is essential. This work presents an AramcoMech reduced kinetic model developed at King Abdullah University of Science and Technology (KAUST) for simulating complex TPRF surrogate blends. A semi-decoupling approach was used together with species and reaction lumping to obtain a reduced kinetic model. The model was widely validated against experimental data including shock tube ignition delay times and premixed laminar flame speeds. Finally, the model was utilized to simulate the combustion of a low reactivity gasoline fuel under partially premixed combustion conditions.
A Hands-On Classroom Simulation to Demonstrate Concepts in Enzyme Kinetics
Junker, Matthew
2010-01-01
A classroom exercise is described to introduce enzyme kinetics in an undergraduate biochemistry or chemistry course. The exercise is a simulation in which a student acts as an enzyme that "catalyzes" the unscrewing of a nut from a bolt. With other students assisting, the student enzyme carries out reactions with bolt-nut substrates under different…
Numerical Simulations of Kinetic Alfvén Waves to Study Spectral ...
Indian Academy of Sciences (India)
2016-01-27
Jan 27, 2016 ... We present numerical simulations of the modified nonlinear Schrödinger equation satisfied by kinetic Alfvén waves (KAWs) leading to the formation of magnetic filaments at different times. The relevance of these filamentary structures to solar wind turbulence and particle heating has also been pointed out.
Multi-Physics Simulation of TREAT Kinetics using MAMMOTH
Energy Technology Data Exchange (ETDEWEB)
DeHart, Mark; Gleicher, Frederick; Ortensi, Javier; Alberti, Anthony; Palmer, Todd
2015-11-01
With the advent of next generation reactor systems and new fuel designs, the U.S. Department of Energy (DOE) has identified the need for the resumption of transient testing of nuclear fuels. DOE has decided that the Transient Reactor Test Facility (TREAT) at Idaho National Laboratory (INL) is best suited for future testing. TREAT is a thermal neutron spectrum nuclear test facility that is designed to test nuclear fuels in transient scenarios. These specific fuels transient tests range from simple temperature transients to full fuel melt accidents. The current TREAT core is driven by highly enriched uranium (HEU) dispersed in a graphite matrix (1:10000 U-235/C atom ratio). At the center of the core, fuel is removed allowing for the insertion of an experimental test vehicle. TREAT’s design provides experimental flexibility and inherent safety during neutron pulsing. This safety stems from the graphite in the driver fuel having a strong negative temperature coefficient of reactivity resulting from a thermal Maxwellian shift with increased leakage, as well as graphite acting as a temperature sink. Air cooling is available, but is generally used post-transient for heat removal. DOE and INL have expressed a desire to develop a simulation capability that will accurately model the experiments before they are irradiated at the facility, with an emphasis on effective and safe operation while minimizing experimental time and cost. At INL, the Multi-physics Object Oriented Simulation Environment (MOOSE) has been selected as the model development framework for this work. This paper describes the results of preliminary simulations of a TREAT fuel element under transient conditions using the MOOSE-based MAMMOTH reactor physics tool.
Kinetics of promethium-147 in a simulated pond
International Nuclear Information System (INIS)
Shang Zhaorong
1995-03-01
The dynamic behaviour of 147 Pm in a simulated aquatic ecosystem which consists of water, soil and aquatic lives. The results are as follows: The accumulation of 147 Pm in the ecosystem can be expressed by an exponential function; the aquatic plants have the highest capacity of concentration of 147 Pm, they can be used as bio-monitors and cleaning agents of contamination of 147 Pm in water; the absorption of 147 Pm by cardio is few, and the most of it accumulates in bone; 147 Pm in soil has little penetrability, and about 80% of it accumulates within 1 cm of top soil. (10 refs., 1 fig., 5 tabs.)
A multilevel iterative field solver for implicit, kinetic, plasma simulation
International Nuclear Information System (INIS)
Knoll, D.A.; Lapenta, G.; Brackbill, J.U.
1999-01-01
The equation for electrostatic potential which arises from the implicit moment method in plasma simulation is a nonsymmetric elliptic equation. The authors present results using a simple multigrid method as a preconditioner to General Minimum RESidual (GMRES) to iteratively solve this nonsymmetric elliptic equation in two dimensions. It is demonstrated that a simple multigrid method produces an effective preconditioner. It is also demonstrated that under some conditions the required number of linear iterations is independent of grid dimension. Results are presented for both uniform and nonuniform grid problems
Walczak, Karl; Chen, Yikai; Karp, Christoph; Beeman, Jeffrey W; Shaner, Matthew; Spurgeon, Joshua; Sharp, Ian D; Amashukeli, Xenia; West, William; Jin, Jian; Lewis, Nathan S; Xiang, Chengxiang
2015-02-01
A fully integrated solar-driven water-splitting system comprised of WO3 /FTO/p(+) n Si as the photoanode, Pt/TiO2 /Ti/n(+) p Si as the photocathode, and Nafion as the membrane separator, was simulated, assembled, operated in 1.0 M HClO4 , and evaluated for performance and safety characteristics under dual side illumination. A multi-physics model that accounted for the performance of the photoabsorbers and electrocatalysts, ion transport in the solution electrolyte, and gaseous product crossover was first used to define the optimal geometric design space for the system. The photoelectrodes and the membrane separators were then interconnected in a louvered design system configuration, for which the light-absorbing area and the solution-transport pathways were simultaneously optimized. The performance of the photocathode and the photoanode were separately evaluated in a traditional three-electrode photoelectrochemical cell configuration. The photocathode and photoanode were then assembled back-to-back in a tandem configuration to provide sufficient photovoltage to sustain solar-driven unassisted water-splitting. The current-voltage characteristics of the photoelectrodes showed that the low photocurrent density of the photoanode limited the overall solar-to-hydrogen (STH) conversion efficiency due to the large band gap of WO3 . A hydrogen-production rate of 0.17 mL hr(-1) and a STH conversion efficiency of 0.24 % was observed in a full cell configuration for >20 h with minimal product crossover in the fully operational, intrinsically safe, solar-driven water-splitting system. The solar-to-hydrogen conversion efficiency, ηSTH , calculated using the multiphysics numerical simulation was in excellent agreement with the experimental behavior of the system. The value of ηSTH was entirely limited by the performance of the photoelectrochemical assemblies employed in this study. The louvered design provides a robust platform for implementation of various types of
Multinomial tau-leaping method for stochastic kinetic simulations
Pettigrew, Michel F.; Resat, Haluk
2007-02-01
We introduce the multinomial tau-leaping (MτL) method for general reaction networks with multichannel reactant dependencies. The MτL method is an extension of the binomial tau-leaping method where efficiency is improved in several ways. First, τ-leaping steps are determined simply and efficiently using a priori information and Poisson distribution-based estimates of expectation values for reaction numbers over a tentative τ-leaping step. Second, networks are partitioned into closed groups of reactions and corresponding reactants in which no group reactant set is found in any other group. Third, product formation is factored into upper-bound estimation of the number of times a particular reaction occurs. Together, these features allow larger time steps where the numbers of reactions occurring simultaneously in a multichannel manner are estimated accurately using a multinomial distribution. Furthermore, we develop a simple procedure that places a specific upper bound on the total reaction number to ensure non-negativity of species populations over a single multiple-reaction step. Using two disparate test case problems involving cellular processes—epidermal growth factor receptor signaling and a lactose operon model—we show that the τ-leaping based methods such as the MτL algorithm can significantly reduce the number of simulation steps thus increasing the numerical efficiency over the exact stochastic simulation algorithm by orders of magnitude.
Multinomial Tau-Leaping Method for Stochastic Kinetic Simulations
Energy Technology Data Exchange (ETDEWEB)
Pettigrew, Michel F.; Resat, Haluk
2007-02-28
We introduce the multinomial tau-leaping (MtL) method, an improved version of the binomial tau-leaping method, for general reaction networks. Improvements in efficiency are achieved in several ways. Firstly, tau-leaping steps are determined simply and efficiently using a-prior information. Secondly, networks are partitioned into closed groups of reactions and corresponding reactants in which no group reactant or reaction is found in any other group. Thirdly, product formation is factored into upper bound estimation of the number of times a particular reaction occurs. Together, these features allow for larger time steps where the numbers of reactions occurring simultaneously in a multi-channel manner are estimated accurately using a multinomial distribution. Using a wide range of test case problems of scientific and practical interest involving cellular processes, such as epidermal growth factor receptor signaling and lactose operon model incorporating gene transcription and translation, we show that tau-leaping based methods like the MtL algorithm can significantly reduce the number of simulation steps thus increasing the numerical efficiency over the exact stochastic simulation algorithm by orders of magnitude. Furthermore, the simultaneous multi-channel representation capability of the MtL algorithm makes it a candidate for FPGA implementation or for parallelization in parallel computing environments.
Kinetic Simulation of the Dissipation of a Turbulent Cascade
Roberts, D. A.; Roytershteyn, V.; Wicks, R. T.
2015-12-01
The solar wind fluctuations undergo a turbulent cascade that presumably results, in some unknown fashion, in the deposition of energy into randomized motions, i.e. "heating." The observed evolution of spectra, cross-helicity, and non-adiabatic thermal properties of the plasma provide strong evidence for a nonlinear cascade, but the currently available temporal/spatial resolution of (mostly) single spacecraft measurments leaves many questions open. Large-scale particle-in-cell simulations allow us to explore the fate of cascading energy from "MHD" scales to the scales where wave-particle interactions become important. Simulations to date have shown a number of characteristics similar to that of solar wind plasma, including steeper magnetic spectra parallel to the mean magnetic field than perpendicular to it, a spectral break near the ion inertial length, and bounded anisotropic temperatures. Detailed analysis has revealed "magnetic holes" and nonthermal particle distributions. We are in the process of analyzing a variety of initial conditions as well as looking in more detail at issues such as nonlinear vs linear dynamics, and of how distribution functions vary with conditions in the plasma. This paper will report latest results on these and other issues.
Keune, Jessica; Sulis, Mauro; Kollet, Stefan; Wada, Yoshihide
2017-04-01
Recent studies indicate that anthropogenic impacts on the terrestrial water cycle lead to a redistribution of water resources in space and time, can trigger land-atmosphere feedbacks, such as the soil moisture-precipitation feedback, and potentially enhance convection and precipitation. Yet, these studies do not consider the full hydrologic cycle from the bedrock to the atmosphere or apply simplified hydrologic models, neglecting the connection of irrigation to water withdrawal and groundwater depletion. Thus, there is a need to incorporate water resource management in 3D hydrologic models coupled to earth system models. This study addresses the impact of water resource management, i.e. irrigation and groundwater abstraction, on land-atmosphere feedbacks through the terrestrial hydrologic cycle in a physics-based soil-vegetation-atmosphere system simulating 3D groundwater dynamics at the continental scale. The integrated Terrestrial Systems Modeling Platform, TerrSysMP, consisting of the three-dimensional subsurface and overland flow model ParFlow, the Community Land Model CLM3.5 and the numerical weather prediction model COSMO of the German Weather Service, is set up over the European CORDEX domain in 0.11° resolution. The model closes the terrestrial water and energy cycles from aquifers into the atmosphere. Anthropogenic impacts are considered by applying actual daily estimates of irrigation and groundwater abstraction from Wada et al. (2012, 2016), as a source at the land surface and explicit removal of groundwater from aquifer storage, respectively. Simulations of the fully coupled system are performed over the 2003 European heat wave and compared to a reference simulation, which does not consider human interactions in the terrestrial water cycle. We study the space and time characteristics and evolution of temperature extremes, and soil moisture and precipitation anomalies influenced by human water management during the heat wave. A first set of simulations
Jakumeit, J.; Jana, S.; Waclawczyk, T.; Mehdizadeh, A.; Sadiki, A.; Jouani, J.
2012-07-01
The impact of mold-filling and oxide film enclosure on gas porosity in A356 was investigated using a three-phase, fully-coupled, mold-filling and solidification simulation. For the prediction of gas porosity, a fourth hydrogen phase was added. At the solidification front hydrogen is rejected from the solid and accumulates in the melt. Pores nucleate if the solute gas exceeds the solubility limit. Air and melt are separated by a volume of fluid interface and special treatment of the hydrogen phase convection was necessary to limit the hydrogen to the melt. Folding of the melt surface was used as a source for oxide film entrainment. These oxide films were transported with the melt and used as nucleation sites for gas porosity formation. The influence of melt flow due to filling and oxide film distribution was analyzed using a simple 3-block test geometry. The test geometry was cast in A356 and analyzed by computer tomography to validate the porosity prediction.
Full Tokamak discharge simulation and kinetic plasma profile control for ITER
International Nuclear Information System (INIS)
Hee Kim, S.
2009-10-01
Understanding non-linearly coupled physics between plasma transport and free-boundary equilibrium evolution is essential to operating future tokamak devices, such as ITER and DEMO, in the advanced tokamak operation regimes. To study the non-linearly coupled physics, we need a simulation tool which can self-consistently calculate all the main plasma physics, taking the operational constraints into account. As the main part of this thesis work, we have developed a full tokamak discharge simulator by combining a non-linear free-boundary plasma equilibrium evolution code, DINA-CH, and an advanced transport modelling code, CRONOS. This tokamak discharge simulator has been used to study the feasibility of ITER operation scenarios and several specific issues related to ITER operation. In parallel, DINA-CH has been used to study free-boundary physics questions, such as the magnetic triggering of edge localized modes (ELMs) and plasma dynamic response to disturbances. One of the very challenging tasks in ITER, the active control of kinetic plasma profiles, has also been studied. In the part devoted to free-boundary tokamak discharge simulations, we have studied dynamic responses of the free-boundary plasma equilibrium to either external voltage perturbations or internal plasma disturbances using DINA-CH. Firstly, the opposite plasma behaviour observed in the magnetic triggering of ELMs between TCV and ASDEX Upgrade has been investigated. Both plasmas experience similar local flux surface expansions near the upper G-coil set and passive stabilization loop (PSL) when the ELMs are triggered, due to the presence of the PSLs located inside the vacuum vessel of ASDEX Upgrade. Secondly, plasma dynamic responses to strong disturbances anticipated in ITER are examined to study the capability of the feedback control system in rejecting the disturbances. Specified uncontrolled ELMs were controllable with the feedback control systems. However, the specifications for fast H-L mode
Plasmoid Chain Dynamics in Three-Dimensional Kinetic Simulations
Markidis, S.; Henri, P.; Lapenta, G.; Divin, A.; Goldman, M.; Newman, D.; Laure, E.
2013-10-01
We study the dynamics of a plasmoid chain with three dimensional Particle-in-Cell simulations. The evolution of the system with and without a uniform guide field, whose strength is 1/3 the asymptotic magnetic field, is investigated. The plasmoid chain forms by spontaneous magnetic reconnection: the tearing instability rapidly disrupts the initial current sheet generating several small-scale plasmoids, that rapidly grow in size coalescing and kinking. The plasmoid kink is mainly driven by the coalescence process. The presence of guide field strongly influences the evolution of the plasmoid chain. Without a guide field, a main reconnection site dominates and smaller reconnection regions are included in larger ones, leading to an hierarchical structure of the plasmoid-dominated current sheet. On the contrary in presence of a guide field, plasmoids have approximately the same size and the hierarchical structure does not emerge, a strong core magnetic field develops in the center of the plasmoid in the direction of the existing guide field, and bump-on-tail instability, leading to the formation of electron holes, is detected in proximity of the plasmoids. The present work is supported by NASA MMS Grant NNX08AO84G. Additional support rom the European Commission's Seventh Framework Programme under the grant agreement no. 287703 (CRESTA, cresta-project.eu).
Kinetic behaviour of tritium water in the simulated paddy
International Nuclear Information System (INIS)
Wang Shouxiang; Chen Chuanqun; Zhang Yongxi; Sun Zhiming; Huang Dan; Hu Bingmin
1993-02-01
The dynamic process of movement and transportation for tritium water in the simulated paddy have been investigated. The results showed that after the paddy water was filled the tritium water not only was transferred to the components of the system but also was rapidly dissipated to the outside of the system. The states of tritium in the rice and soil were tritium of free water and bound tritium. The tritium concentration in the early paddy water and late paddy water was monotonously decreasing with the time increasing. The tritium concentration of free water in the overground part of early rice was increasing at begin, and reached to maximum at the 8th day, then went down. The tritium concentration in bound tritium was monotonously increasing, and at the 22th day it was higher than free water tritium. The tritium concentration in early rice root was lower than in the overground part. The tritium concentrations of free water tritium and bound tritium in the overground part and root of late rice were decreasing at the sampling period. The total tritium in the soil of early rice could reach the maximum value within one day and then it decreased, but in the soil of late rice it was monotonously decreasing with the time
Xiong, Yi
Tight oil reservoirs have received great attention in recent years as unconventional and promising petroleum resources; they are reshaping the U.S. crude oil market due to their substantial production. However, fluid flow behaviors in tight oil reservoirs are not well studied or understood due to the complexities in the physics involved. Specific characteristics of tight oil reservoirs, such as nano-pore scale and strong stress-dependency result in complex porous medium fluid flow behaviors. Recent field observations and laboratory experiments indicate that large effects of pore confinement and rock compaction have non-negligible impacts on the production performance of tight oil reservoirs. On the other hand, there are approximations or limitations for modeling tight oil reservoirs under the effects of pore confinement and rock compaction with current reservoir simulation techniques. Thus this dissertation aims to develop a compositional model coupled with geomechanics with capabilities to model and understand the complex fluid flow behaviors of multiphase, multi-component fluids in tight oil reservoirs. MSFLOW_COM (Multiphase Subsurface FLOW COMpositional model) has been developed with the capability to model the effects of pore confinement and rock compaction for multiphase fluid flow in tight oil reservoirs. The pore confinement effect is represented by the effect of capillary pressure on vapor-liquid equilibrium (VLE), and modeled with the VLE calculation method in MSFLOW_COM. The fully coupled geomechanical model is developed from the linear elastic theory for a poro-elastic system and formulated in terms of the mean stress. Rock compaction is then described using stress-dependent rock properties, especially stress-dependent permeability. Thus MSFLOW_COM has the capabilities to model the complex fluid flow behaviors of tight oil reservoirs, fully coupled with geomechanics. In addition, MSFLOW_COM is validated against laboratory experimental data, analytical
Photodegradation kinetics, products and mechanism of timolol under simulated sunlight
Energy Technology Data Exchange (ETDEWEB)
Chen, Yong, E-mail: ychen@hust.edu.cn [School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074 (China); Liang, Qi; Zhou, Danna [College of Material Science and Chemical Engineering, China University of Geosciences, Wuhan 430074 (China); Wang, Zongping, E-mail: zongpingw@hust.edu.cn [School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074 (China); Tao, Tao [School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074 (China); Zuo, Yuegang [Department of Chemistry and Biochemistry, University of Massachusetts Dartmouth, 285 Old Westport Road, North Dartmouth, MA 02747 (United States)
2013-05-15
Highlights: ► The indirect degradation of timolol is first investigated in fulvic acid solution. ► {sup 3}FA{sup *} and {sup 1}O{sub 2} accounted for the degradation of timolol in the aerated FA solutions. ► The presence of halides inhibited the degradation in the order of Cl{sup −} < Br{sup −} < I{sup −}. ► The role of I{sup −} in the degradation was first found to be concentration-dependent. ► The photoproducts of timolol were identified by LC-DAD/ESI-MS/MS analysis. -- Abstract: The photodegradation of β-blocker timolol in fulvic acid (FA) solution was investigated under simulated sunlight. The triplet excited state of FA ({sup 3}FA{sup *}) and singlet oxygen ({sup 1}O{sub 2}) were the main reactive species responsible for the degradation of timolol in the aerated FA solutions. Both dissolved oxygen and iodide ions (I{sup −}) are the efficient quenchers of {sup 3}FA{sup *}. The photodegradation was drastically accelerated after removing the dissolved oxygen. The presence of I{sup −} inhibited the photosensitized degradation of timolol in the deoxygenated FA solutions, whereas the role of I{sup −} in the reaction was concentration-dependent in the aerated solutions. The other halide ions such as chloride (Cl{sup −}) and bromide (Br{sup −}) exhibited less effect on the photodegradation of timolol in both aerated and deoxygenated solutions. By LC-DAD/ESI-MS/MS analysis, the photoproducts of timolol in both aerated and deoxygenated FA solutions were identified. Electron transfer interaction occurred between {sup 3}FA{sup *} and amine moiety of timolol, leading to the cleavage of C–O bond in the side chain and oxidation of the hexatomic ring. These findings suggest the photosensitized degradation was a significant pathway for the elimination of timolol in natural waters.
Energy Technology Data Exchange (ETDEWEB)
Kim, Kyungsang; Ye, Jong Chul, E-mail: jong.ye@kaist.ac.kr [Bio Imaging and Signal Processing Laboratory, Department of Bio and Brain Engineering, KAIST 291, Daehak-ro, Yuseong-gu, Daejeon 34141 (Korea, Republic of); Lee, Taewon; Cho, Seungryong [Medical Imaging and Radiotherapeutics Laboratory, Department of Nuclear and Quantum Engineering, KAIST 291, Daehak-ro, Yuseong-gu, Daejeon 34141 (Korea, Republic of); Seong, Younghun; Lee, Jongha; Jang, Kwang Eun [Samsung Advanced Institute of Technology, Samsung Electronics, 130, Samsung-ro, Yeongtong-gu, Suwon-si, Gyeonggi-do, 443-803 (Korea, Republic of); Choi, Jaegu; Choi, Young Wook [Korea Electrotechnology Research Institute (KERI), 111, Hanggaul-ro, Sangnok-gu, Ansan-si, Gyeonggi-do, 426-170 (Korea, Republic of); Kim, Hak Hee; Shin, Hee Jung; Cha, Joo Hee [Department of Radiology and Research Institute of Radiology, Asan Medical Center, University of Ulsan College of Medicine, 88 Olympic-ro, 43-gil, Songpa-gu, Seoul, 138-736 (Korea, Republic of)
2015-09-15
Purpose: In digital breast tomosynthesis (DBT), scatter correction is highly desirable, as it improves image quality at low doses. Because the DBT detector panel is typically stationary during the source rotation, antiscatter grids are not generally compatible with DBT; thus, a software-based scatter correction is required. This work proposes a fully iterative scatter correction method that uses a novel fast Monte Carlo simulation (MCS) with a tissue-composition ratio estimation technique for DBT imaging. Methods: To apply MCS to scatter estimation, the material composition in each voxel should be known. To overcome the lack of prior accurate knowledge of tissue composition for DBT, a tissue-composition ratio is estimated based on the observation that the breast tissues are principally composed of adipose and glandular tissues. Using this approximation, the composition ratio can be estimated from the reconstructed attenuation coefficients, and the scatter distribution can then be estimated by MCS using the composition ratio. The scatter estimation and image reconstruction procedures can be performed iteratively until an acceptable accuracy is achieved. For practical use, (i) the authors have implemented a fast MCS using a graphics processing unit (GPU), (ii) the MCS is simplified to transport only x-rays in the energy range of 10–50 keV, modeling Rayleigh and Compton scattering and the photoelectric effect using the tissue-composition ratio of adipose and glandular tissues, and (iii) downsampling is used because the scatter distribution varies rather smoothly. Results: The authors have demonstrated that the proposed method can accurately estimate the scatter distribution, and that the contrast-to-noise ratio of the final reconstructed image is significantly improved. The authors validated the performance of the MCS by changing the tissue thickness, composition ratio, and x-ray energy. The authors confirmed that the tissue-composition ratio estimation was quite
Energy Technology Data Exchange (ETDEWEB)
Wolery, Thomas J. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Tayne, Andrew [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Jove-Colon, Carlos F. [Sandia National Lab. (SNL-CA), Livermore, CA (United States)
2011-07-29
Thermodynamic data are essential for understanding and evaluating geochemical processes, as by speciation-solubility calculations, reaction -path modeling, or reactive transport simulation. These data are required to evaluate both equilibrium states and the kinetic approach to such states (via the affinity term in rate laws). The development of thermodynamic databases for these purposes has a long history in geochemistry (e.g., Garrels and Christ, 1965; Helgeson et al., 1969; Helgeson et al., 1978, Johnson et al., 1992; Robie and Hemingway, 1995), paralleled by related and applicable work in the larger scientific community (e.g., Wagman et al., 1982, 1989; Cox et al., 1989; Barin and Platzki, 1995; Binneweis and Milke, 1999). The Yucca Mountain Project developed two qualified thermodynamic databases for to model geochemical processes, including ones involving repository components such as spent fuel. The first of the two (BSC, 2007a) was for systems containing dilute aqueous solutions only, the other (BSC, 2007b) for systems involving concentrated aqueous solutions and incorporating a model for such based on Pitzer’s (1991) equations . A 25°C-only database with similarities to the latter was also developed for WIPP (cf. Xiong, 2005). The YMP dilute systems database is widely used in the geochemistry community for a variety of applications involving rock/water interactions. The purpose of the present task is to improve these databases for work on the Used Fuel Disposition Project and maintain some semblance of order that will support qualification in support of the development of future underground high level nuclear waste disposal.
KMCLib: A general framework for lattice kinetic Monte Carlo (KMC) simulations
Leetmaa, Mikael; Skorodumova, Natalia V.
2014-09-01
.4 LTS, CentOS release 5.9, Mac OSX 10.5.8 and Mac OSX 10.8.2, but should run on any system that can have a C++ compiler, MPI and a Python interpreter. Has the code been vectorized or parallelized?: Yes. From one to hundreds of processors depending on the type of input and simulation. RAM: From a few megabytes to several gigabytes depending on input parameters and the size of the system to simulate. Classification: 4.13, 16.13. External routines: KMCLib uses an external Mersenne Twister pseudo random number generator that is included in the code. A Python 2.7 interpreter and a standard C++ runtime library are needed to run the serial version of the code. For running the parallel version an MPI implementation is needed, such as e.g. MPICH from http://www.mpich.org or Open-MPI from http://www.open-mpi.org. SWIG (obtainable from http://www.swig.org/) and CMake (obtainable from http://www.cmake.org/) are needed for building the backend module, Sphinx (obtainable from http://sphinx-doc.org) for building the documentation and CPPUNIT (obtainable from http://sourceforge.net/projects/cppunit/) for building the C++ unit tests. Nature of problem: Atomic scale simulation of slowly evolving dynamics is a great challenge in many areas of computational materials science and catalysis. When the rare-events dynamics of interest is orders of magnitude slower than the typical atomic vibrational frequencies a straight-forward propagation of the equations of motions for the particles in the simulation cannot reach time scales of relevance for modeling the slow dynamics. Solution method: KMCLib provides an implementation of the kinetic Monte Carlo (KMC) method that solves the slow dynamics problem by utilizing the separation of time scales between fast vibrational motion and the slowly evolving rare-events dynamics. Only the latter is treated explicitly and the system is simulated as jumping between fully equilibrated local energy minima on the slow-dynamics potential energy surface
Benchmark test of drift-kinetic and gyrokinetic codes through neoclassical transport simulations
International Nuclear Information System (INIS)
Satake, S.; Sugama, H.; Watanabe, T.-H.; Idomura, Yasuhiro
2009-09-01
Two simulation codes that solve the drift-kinetic or gyrokinetic equation in toroidal plasmas are benchmarked by comparing the simulation results of neoclassical transport. The two codes are the drift-kinetic δf Monte Carlo code (FORTEC-3D) and the gyrokinetic full- f Vlasov code (GT5D), both of which solve radially-global, five-dimensional kinetic equation with including the linear Fokker-Planck collision operator. In a tokamak configuration, neoclassical radial heat flux and the force balance relation, which relates the parallel mean flow with radial electric field and temperature gradient, are compared between these two codes, and their results are also compared with the local neoclassical transport theory. It is found that the simulation results of the two codes coincide very well in a wide rage of plasma collisionality parameter ν * = 0.01 - 10 and also agree with the theoretical estimations. The time evolution of radial electric field and particle flux, and the radial profile of the geodesic acoustic mode frequency also coincide very well. These facts guarantee the capability of GT5D to simulate plasma turbulence transport with including proper neoclassical effects of collisional diffusion and equilibrium radial electric field. (author)
A kinetic Monte Carlo annealing assessment of the dominant features from ion implant simulations
International Nuclear Information System (INIS)
Martin-Bragado, I.; Jaraiz, M.; Castrillo, P.; Pinacho, R.; Rubio, J.E.; Barbolla, J.
2004-01-01
Ion implantation and subsequent annealing are essential stages in today's advanced CMOS processing. Although the dopant implanted profile can be accurately predicted by analytical fits calibrated with SIMS profiles, the damage has to be estimated with a binary collision approximation implant simulator. Some models have been proposed, like the '+n', in an attempt to simplify the anneal simulation. We have used the atomistic kinetic Monte Carlo dados to elucidate which are the implant modeling features most relevant in the simulation of transient enhanced diffusion (TED). For the experimental conditions studied we find that the spatial correlation of the I, V Frenkel pairs is not critical in order to yield the correct I supersaturation, that can be simulated just taking into account the net I-V excess distribution. In contrast to, simulate impurity clustering/deactivation when there is an impurity concentration comparable to the net I-V excess, the full I and V profiles have to be used
An efficient method to treat low barriers in kinetic ART simulations
Brommer, Peter; Mousseau, Normand
2011-03-01
In kinetic Monte Carlo (KMC) the time scale of the simulation is dominated by the height of the lowest energy barrier separating two states. Rapid back-and-forth movements across very low barriers called flickers are a major limitation of the technique, as they can cost considerable CPU time without advancing the simulation. To accelerate KMC simulations, an energy basin finding algorithm has been presented. In the kinetic Activation-Relaxation technique (kART), KMC events are constructed during the simulation, taking full care of elastic deformations while avoiding the need for complete event search at every step. To account for low energy barriers located in this package, we implement a basin identification scheme that works on the fly as well. We apply this method to interstitial diffusion in bcc iron. There, rapid diffusion paths with low barriers for properly aligned interstitial clusters limit the simulated time. With our method, we can prevent unproductive oscillations in this diffusive basin while maintaining an appropriate distribution of exit states. This considerably extends the time scales accessible to simulation.
Analysis and simulation of phase transformation kinetics of zeolite A from amorphous phases
Energy Technology Data Exchange (ETDEWEB)
Marui, Yukiko; Matsuoka, Masakuni; Uchida, Hirohisa; Takiyama, Hiroshi [Tokyo Univ. of Agriculture and Technology, Koganei, Tokyo (Japan)
2003-05-01
Experiments on transformation rates of zeolite A from amorphous phases at different feed rates to alter the particle size of the amorphous phases were carried out to analyze the kinetics of the transformation, and were analyzed by performing simulation of the transformation. A clear dependence of the induction time for nucleation of zeolite A crystals on the surface area of the amorphous phase was recognized, indicating that the nucleation of zeolite A was heterogeneous and the nucleation rate was almost proportional to the size of the amorphous particles. From the simulation, the mechanism of the transformation was found to be heterogeneous nucleation of zeolite A crystals on the surface of amorphous particles followed by solution mediated phase transformation, and the transformation kinetics were well reproduced at different feed rates. (author)
Analysis and simulation of phase transformation kinetics of zeolite A from amorphous phases
Marui, Y; Uchida, H; Takiyama, H
2003-01-01
Experiments on transformation rates of zeolite A from amorphous phases at different feed rates to alter the particle size of the amorphous phases were carried out to analyze the kinetics of the transformation, and were analyzed by performing simulation of the transformation. A clear dependence of the induction time for nucleation of zeolite A crystals on the surface area of the amorphous phase was recognized, indicating that the nucleation of zeolite A was heterogeneous and the nucleation rate was almost proportional to the size of the amorphous particles. From the simulation, the mechanism of the transformation was found to be heterogeneous nucleation of zeolite A crystals on the surface of amorphous particles followed by solution mediated phase transformation, and the transformation kinetics were well reproduced at different feed rates. (author)
Vlasov and drift kinetic simulation methods based on the symplectic integrator
International Nuclear Information System (INIS)
Watanabe, T.-H.; Sugama, H.
2004-02-01
Vlasov and drift kinetic simulation methods based on the symplectic integrators are benchmarked for test problems on the linear and nonlinear Landau dampings and the Kelvin-Helmholtz (K-H) instability. The explicit symplectic integrator for the separable Hamiltonian straightforwardly leads to generalization of the splitting scheme for the Vlasov-Poisson system. The Nth-order version improves the total energy conservation decreasing the error as ∝ Δt N where Δt denotes the time step size. An Eulerian drift kinetic simulation scheme derived from the implicit symplectic integrator for the non-separable Hamiltonian exactly satisfies the conservation of the energy and the enstrophy in the K-H instability, and results in successful application to the plasma echo. (author)
Simulation of the accumulation kinetics for radiation point defects in a metals with impurity
International Nuclear Information System (INIS)
Iskakov, B.M.; Nurova, A.B.
2001-01-01
In the work a kinetics of vacancies (V) and interstitial atoms (IA) accumulation for cases when the V and IA are recombining with each other, absorbing by drain and capturing by impurity atoms has been simulated. The differential equations system numerical solution was carried out by the Runge-Kutta method. The dynamical equilibrium time achievement for the point radiation defects accumulation process in the metal with impurity is considered
A New Approach to Simulate the Kinetics of Metal Desorption from Mineral Surfaces
Tinnacher, R. M.; Powell, B. A.; Kersting, A. B.; Zavarin, M.
2010-12-01
The relevance of colloid-facilitated metal transport is largely dependent on metal sorption/desorption kinetics and the degree of reversibility of metal surface binding. Thus, transport predictions need to incorporate modeling concepts that can simulate time- and history-dependent surface processes on the microscale. In this study, we characterized the sorption and desorption kinetics of neptunium(V) reactions on goethite in a flow-cell experiment. Modeling was used to evaluate differences between sorption and desorption kinetics in terms of aging, hysteresis, and ‘irreversible’ sorption. First, aging represents a series of surface-chemical processes on the microscale that lead to changes in contaminant surface speciation over time. Second, hysteresis effects indicate fundamental, chemical differences in the microscopic pathways of reactions for net sorption and desorption processes. Both phenomena may result in a sorbed contaminant fraction that is not readily available for exchange with the solution phase (apparent irreversible sorption). Most currently available kinetic sorption/desorption models incorporate fundamental changes in adsorption and desorption behavior indirectly, e.g., by postulating surface sites with different kinetic rates or ‘irreversible’ sorption behavior. We propose a new approach that allows for the specific incorporation of changes in overall reaction pathways for (ad)sorption and desorption processes. Based on experimental results, observed rates for Np(V) desorption from goethite are substantially slower than for (ad)sorption processes. Differences in metal sorption and desorption kinetics can be simulated with a minimum number of fitting parameters by combining isotherm-based sorption rate laws with a modeling concept related to transition state theory (TST). This concept is based on the assumption that changes in reaction pathways for (ad)sorption and desorption processes lead to differences in overall driving forces and
Le, A.; Daughton, W. S.; Ohia, O.; Chen, L. J.; Liu, Y. H.
2017-12-01
We present 3D fully kinetic simulations of asymmetric reconnection with plasma parameters matching MMS magnetopause diffusion region crossings with varying guide fields of 0.1 [Burch et al., Science (2016)], 0.4 [Chen et al. JGR (2017)], and 1 [Burch and Phan, GRL (2016] of the reconnecting sheath field. Strong diamagnetic drifts across the magnetopause current sheet drive lower-hybrid drift instabilities (LHDI) over a range of wavelengths [Daughton, PoP (2003); Roytershteyn et al., PRL (2012)] that develop into a turbulent state. Magnetic field tracing diagnostics are employed to characterize the turbulent magnetic geometry and to evaluate the global reconnection rate. The contributions to Ohm's law are evaluated field line by field line, including time-averaged diagnostics that allow the quantification of anomalous resistivity and viscosity. We examine how fluctuating electric fields and chaotic magnetic field lines contribute to particle mixing across the separatrix, and we characterize the accelerated electron distributions that form under varying magnetic shear or guide field. The LHDI turbulence is found to strongly enhance transport and parallel electron heating in 3D compared to 2D, particularly along the magnetospheric separatrix [Le et al., GRL (2017)]. The PIC simulation results are compared to MMS observations.
Kinetic simulations of X-B and O-X-B mode conversion and its deterioration at high input power
Arefiev, A. V.; Dodin, I. Y.; Köhn, A.; Du Toit, E. J.; Holzhauer, E.; Shevchenko, V. F.; Vann, R. G. L.
2017-11-01
Spherical tokamak plasmas are typically overdense and thus inaccessible to externally-injected microwaves in the electron cyclotron range. The electrostatic electron Bernstein wave (EBW), however, provides a method to access the plasma core for heating and diagnostic purposes. Understanding the details of the coupling process to electromagnetic waves is thus important both for the interpretation of microwave diagnostic data and for assessing the feasibility of EBW heating and current drive. While the coupling is reasonably well-understood in the linear regime, nonlinear physics arising from high input power has not been previously quantified. To tackle this problem, we have performed one- and two-dimensional fully kinetic particle-in-cell simulations of the two possible coupling mechanisms, namely X-B and O-X-B mode conversion. We find that the ion dynamics has a profound effect on the field structure in the nonlinear regime, as high amplitude short-scale oscillations of the longitudinal electric field are excited in the region below the high-density cut-off prior to the arrival of the EBW. We identify this effect as the instability of the X wave with respect to resonant scattering into an EBW and a lower-hybrid wave. We calculate the instability rate analytically and find this basic theory to be in reasonable agreement with our simulation results.
Kinetic Monte Carlo simulation of formation of microstructures in liquid droplets
International Nuclear Information System (INIS)
Block, M; Kunert, R; Schoell, E; Boeck, T; Teubner, Th
2004-01-01
We study the deposition of indium droplets on a glass surface and the subsequent formation of silicon microcrystals inside these droplets. Kinetic Monte Carlo methods are used to analyse the influence of growth temperature, flux of incoming particles, surface coverage, and in particular an energy parameter simulating the surface tension, upon the morphology of growth. According to the experimental conditions of crystallization, a temperature gradient and diffusion in spherical droplets are included. The simulations explain the formation of silicon crystal structures in good agreement with the experiment. The dependence of their shape and the conditions of formation on the growth parameters are investigated in detail
Schilaty, Nathan D; Bates, Nathaniel A; Nagelli, Christopher; Krych, Aaron J; Hewett, Timothy E
2018-03-01
Females are at an increased risk of sustaining noncontact knee ligament injuries as compared with their male counterparts. The kinetics that load the anterior cruciate ligament (ACL) are still under dispute in the literature. The purpose of this study was to determine whether there are differences in knee kinetics between the sexes that lead to greater ACL strain in females when similar external loads are applied during a simulated drop vertical jump landing task. It was hypothesized that female limbs would demonstrate significant differences in knee abduction moment that predispose females to ACL injury when compared with males. Controlled laboratory study. Motion analysis data of 67 athletes who performed a drop vertical jump were collected. The kinematic and kinetic data were used to categorize tertiles of relative risk, and these values were input into a cadaveric impact simulator to assess ligamentous loads during the simulated landing task. Uni- and multiaxial load cells and differential variable reluctance transducer strain sensors were utilized to collect kinetic data and maximum ACL strain for analysis. Conditions of external loads applied to the cadaveric limbs were systematically varied and randomized. Data were analyzed with 2-way repeated-measures analysis of variance and the Fisher exact test. Five kinetic parameters were evaluated. Of the 5 kinetic variables, only knee abduction moment (KAM) demonstrated significant differences in females as compared with males ( F 1,136 = 4.398, P = .038). When normalized to height and weight, this difference between males and females increased in significance ( F 1,136 = 7.155, P = .008). Compared with males, females exhibited a 10.3-N·m increased knee abduction torque at 66 milliseconds postimpact and a 22.3-N·m increased abduction torque at 100 milliseconds postimpact. For loading condition, the condition of "maximum ACL strain" demonstrated a maximum difference of 54.3-N·m increased abduction torque and 74
International Nuclear Information System (INIS)
Danielson, Thomas; Sutton, Jonathan E.; Hin, Céline; Virginia Polytechnic Institute and State University; Savara, Aditya
2017-01-01
Lattice based Kinetic Monte Carlo (KMC) simulations offer a powerful simulation technique for investigating large reaction networks while retaining spatial configuration information, unlike ordinary differential equations. However, large chemical reaction networks can contain reaction processes with rates spanning multiple orders of magnitude. This can lead to the problem of “KMC stiffness” (similar to stiffness in differential equations), where the computational expense has the potential to be overwhelmed by very short time-steps during KMC simulations, with the simulation spending an inordinate amount of KMC steps / cpu-time simulating fast frivolous processes (FFPs) without progressing the system (reaction network). In order to achieve simulation times that are experimentally relevant or desired for predictions, a dynamic throttling algorithm involving separation of the processes into speed-ranks based on event frequencies has been designed and implemented with the intent of decreasing the probability of FFP events, and increasing the probability of slow process events -- allowing rate limiting events to become more likely to be observed in KMC simulations. This Staggered Quasi-Equilibrium Rank-based Throttling for Steady-state (SQERTSS) algorithm designed for use in achieving and simulating steady-state conditions in KMC simulations. Lastly, as shown in this work, the SQERTSS algorithm also works for transient conditions: the correct configuration space and final state will still be achieved if the required assumptions are not violated, with the caveat that the sizes of the time-steps may be distorted during the transient period.
Evaluating gyro-viscosity in the Kelvin-Helmholtz instability by kinetic simulations
Energy Technology Data Exchange (ETDEWEB)
Umeda, Takayuki, E-mail: taka.umeda@nagoya-u.jp; Yamauchi, Natsuki; Wada, Yasutaka; Ueno, Satoshi [Institute for Space-Earth Environmental Research, Nagoya University, Nagoya 464-8601 (Japan)
2016-05-15
In the present paper, the finite-Larmor-radius (gyro-viscous) term [K. V. Roberts and J. B. Taylor, Phys. Rev. Lett. 8, 197–198 (1962)] is evaluated by using a full kinetic Vlasov simulation result of the Kelvin-Helmholtz instability (KHI). The velocity field and the pressure tensor are calculated from the high-resolution data of the velocity distribution functions obtained by the Vlasov simulation, which are used to approximate the Finite-Larmor-Radius (FLR) term according to Roberts and Taylor [Phys. Rev. Lett. 8, 197–198 (1962)]. The direct comparison between the pressure tensor and the FLR term shows an agreement. It is also shown that the anisotropic pressure gradient enhanced the linear growth of the KHI when the inner product between the vorticity of the primary velocity shear layer and the magnetic field is negative, which is consistent with the previous FLR-magnetohydrodynamic simulation result. This result suggests that it is not sufficient for reproducing the kinetic simulation result by fluid simulations to include the FLR term (or the pressure tensor) only in the equation of motion for fluid.
Simulations of Magnetic Reconnection - Kinetic Mechanisms Underlying the Fluid Description of Ions
Aunai, icolas; Belmont, Gerard; Smets, Roch
2012-01-01
Because of its ability to transfer the energy stored in magnetic field together with the breaking of the flux freezing constraint, magnetic reconnection is considered as one of the most important phenomena in plasma physics. When it happens in a collision less environment such as the terrestrial magnetosphere, it should a priori be modelled with in the framework of kinetic physics. The evidence of kinetic features has incidentally for a long time, been shown by researchers with the help of both numerical simulations and satellite observations. However, most of our understanding of the process comes from the more intuitive fluid interpretation with simple closure hypothesis which do not include kinetic effects. To what extent are these two separate descriptions of the same phenomenon related? What is the role of kinetic effects in the averaged/fluid dynamics of reconnection? This thesis addresses these questions for the proton population in the particular case of anti parallel merging with the help of 2D Hybrid simulations. We show that one can not assume, as is usually done, that the acceleration of the proton flow is only due to the Laplace force. Our results show, for symmetric and asymmetric connection, the importance of the pressure force, opposed to the electric one on the separatrices, in the decoupling region. In the symmetric case, we emphasize the kinetic origin of this force by analyzing the proton distribution functions and explain their structure by studying the underlying particle dynamics. Protons, as individual particles, are shown to bounce in the electric potential well created by the Hall effect. The spatial divergence of this well results in a mixing in phase space responsible for the observed structure of the pressure tensor. A detailed energy budget analysis confirms the role of the pressure force for the acceleration; but, contrary to what is sometimes assumed, it also reveals that the major part of the incoming Poynting flux is transferred to
Numerical Simulations of the Kinetic Energy Transfer in the Bath of a BOF Converter
Zhou, Xiaobin; Ersson, Mikael; Zhong, Liangcai; Jönsson, Pär
2016-02-01
The paper focuses on the fundamental aspects of the kinetic energy transfer from a top and bottom gas injection to the bath of the basic oxygen furnace (BOF) by applying a mathematical model. The analyses revealed that the energy transfer is less efficient when top lance height is lowered or the flowrate is increased in the top blowing operations. However, an inverse trend was found that the kinetic energy transfer is increased when the bottom flowrate is increased for the current bottom blowing operation conditions. The kinetic energy transfer index results indicated that the energy transfer for the bottom blowing is much more efficient than that of the top blowing operations. To understand the effects of the upper buoyant phase on the energy dissipation of the bulk liquid in the bath, different mass and physical properties of slag and foam were considered in the bottom blowing simulations. The slag on top of the bath is found to dissipate by 6.6, 9.4, and 11.2 pct for slag mass values of 5, 9, and 15 t compared to the case without slag atop the surface of the bath, respectively. The results showed that the kinetic energy transfer is not largely influenced by the viscosity of the upper slag or the foaming phases.
Korla, Kalyani; Vadlakonda, Lakshmipathi; Mitra, Chanchal K
2015-01-01
In the present work, we have kinetically simulated two mitochondrial shuttles, malate-aspartate shuttle (used for transferring reducing equivalents) and citrate-pyruvate shuttle (used for transferring carbon skeletons). However, the functions of these shuttles are not limited to the points mentioned above, and they can be used in different arrangements to meet different cellular requirements. Both the shuttles are intricately associated with Krebs cycle through the metabolites involved. The study of this system of shuttles and Krebs cycle explores the response of the system in different metabolic environments. Here, we have simulated these subsets individually and then combined them to study the interactions among them and to bring out the dynamics of these pathways in focus. Four antiports and a pyruvate pump were modelled along with the metabolic reactions on both sides of the inner mitochondrial membrane. Michaelis-Menten approach was extended for deriving rate equations of every component of the system. Kinetic simulation was carried out using ordinary differential equation solver in GNU Octave. It was observed that all the components attained steady state, sooner or later, depending on the system conditions. Progress curves and phase plots were plotted to understand the steady state behaviour of the metabolites involved. A comparative analysis between experimental and simulated data show fair agreement thus validating the usefulness and applicability of the model.
Treatment and kinetic modelling of a simulated dye house effluent by enzymatic catalysis.
Cristóvão, Raquel O; Tavares, Ana P M; Loureiro, José M; Boaventura, Rui A R; Macedo, Eugénia A
2009-12-01
Biocatalytic treatment of a synthetic dye house effluent, simulating a textile wastewater containing various reactive dyestuffs (Reactive Yellow 15, Reactive Red 239 and Reactive Black 5) and auxiliary chemicals, was investigated in a batch reactor using a commercial laccase. A high decolourisation (above 86%) was achieved at the maximum wavelength of Reactive Black 5. The decolourisation at the other dyes wavelengths (above 63% for RY15 and around 41% for RR239) and the total decolourisation based on all the visible spectrum (around 55%) were not so good, being somewhat lower than in the case of a mixture of the dyes (above 89% for RB5, 77% for RY15, 68% for RR239 and above 84% for total decolourisation). Even so, these results suggest the applicability of this method to treat textile dyeing wastewaters. Kinetic models were developed to simulate the synthetic effluent decolourisation by commercial laccase. The kinetic constants of the models were estimated by minimizing the difference between the predicted and the experimental time courses. The close correlation between the experimental data and the simulated values seems to demonstrate that the models are able to describe with remarkable accuracy the simulated effluent degradation. Water quality parameters such as TOC, COD, BOD(5) and toxicity were found to be under the maximum permissible discharge limits for textile industries wastewaters.
Kinetic Monte Carlo Simulation of Cation Diffusion in Low-K Ceramics
Good, Brian
2013-01-01
Low thermal conductivity (low-K) ceramic materials are of interest to the aerospace community for use as the thermal barrier component of coating systems for turbine engine components. In particular, zirconia-based materials exhibit both low thermal conductivity and structural stability at high temperature, making them suitable for such applications. Because creep is one of the potential failure modes, and because diffusion is a mechanism by which creep takes place, we have performed computer simulations of cation diffusion in a variety of zirconia-based low-K materials. The kinetic Monte Carlo simulation method is an alternative to the more widely known molecular dynamics (MD) method. It is designed to study "infrequent-event" processes, such as diffusion, for which MD simulation can be highly inefficient. We describe the results of kinetic Monte Carlo computer simulations of cation diffusion in several zirconia-based materials, specifically, zirconia doped with Y, Gd, Nb and Yb. Diffusion paths are identified, and migration energy barriers are obtained from density functional calculations and from the literature. We present results on the temperature dependence of the diffusivity, and on the effects of the presence of oxygen vacancies in cation diffusion barrier complexes as well.
Bai, Song; Jiang, Jun; Zhang, Qun; Xiong, Yujie
2015-05-21
Charge kinetics is highly critical in determining the quantum efficiency of solar-to-chemical conversion in photocatalysis, and this includes, but is not limited to, the separation of photoexcited electron-hole pairs, utilization of plasmonic hot carriers and delivery of photo-induced charges to reaction sites, as well as activation of reactants by energized charges. In this review, we highlight the recent progress on probing and steering charge kinetics toward designing highly efficient photocatalysts and elucidate the fundamentals behind the combinative use of controlled synthesis, characterization techniques (with a focus on spectroscopic characterizations) and theoretical simulations in photocatalysis studies. We first introduce the principles of various processes associated with charge kinetics that account for or may affect photocatalysis, from which a set of parameters that are critical to photocatalyst design can be summarized. We then outline the design rules for photocatalyst structures and their corresponding synthetic approaches. The implementation of characterization techniques and theoretical simulations in different steps of photocatalysis, together with the associated fundamentals and working mechanisms, are also presented. Finally, we discuss the challenges and opportunities for photocatalysis research at this unique intersection as well as the potential impact on other research fields.
HIDENEK: an implicit particle simulation of kinetic-MHD phenomena in three-dimensional plasmas
International Nuclear Information System (INIS)
Tanaka, Motohiko.
1993-05-01
An advanced 'kinetic-MHD' simulation method and its applications to plasma physics are given in this lecture. This method is quite suitable for studying strong nonlinear, kinetic processes associated with large space-scale, low-frequency electromagnetic phenomena of plasmas. A full set of the Maxwell equations, and the Newton-Lorentz equations of motion for particle ions and guiding-center electrons are adopted. In order to retain only the low-frequency waves and instabilities, implicit particle-field equations are derived. The present implicit-particle method is proved to reproduce the MHD eigenmodes such as Alfven, magnetosonic and kinetic Alfven waves in a thermally near-equilibrium plasma. In the second part of the lecture, several physics applications are shown. These include not only the growth of the instabilities of beam ions against the background plasmas and helical kink of the current, but they also demonstrate nonlinear results such as pitch-angle scattering of the ions. Recent progress in the simulation of the Kelvin-Helmholtz instability is also presented with a special emphasis on the mixing of plasma particles. (author)
Multi-scale modelling and numerical simulation of electronic kinetic transport
International Nuclear Information System (INIS)
Duclous, R.
2009-11-01
This research thesis which is at the interface between numerical analysis, plasma physics and applied mathematics, deals with the kinetic modelling and numerical simulations of the electron energy transport and deposition in laser-produced plasmas, having in view the processes of fuel assembly to temperature and density conditions necessary to ignite fusion reactions. After a brief review of the processes at play in the collisional kinetic theory of plasmas, with a focus on basic models and methods to implement, couple and validate them, the author focuses on the collective aspect related to the free-streaming electron transport equation in the non-relativistic limit as well as in the relativistic regime. He discusses the numerical development and analysis of the scheme for the Vlasov-Maxwell system, and the selection of a validation procedure and numerical tests. Then, he investigates more specific aspects of the collective transport: the multi-specie transport, submitted to phase-space discontinuities. Dealing with the multi-scale physics of electron transport with collision source terms, he validates the accuracy of a fast Monte Carlo multi-grid solver for the Fokker-Planck-Landau electron-electron collision operator. He reports realistic simulations for the kinetic electron transport in the frame of the shock ignition scheme, the development and validation of a reduced electron transport angular model. He finally explores the relative importance of the processes involving electron-electron collisions at high energy by means a multi-scale reduced model with relativistic Boltzmann terms
Simulating cancer-cell kinetics after drug treatment: Application to cisplatin on ovarian carcinoma
Montalenti, F.; Sena, G.; Cappella, P.; Ubezio, P.
1998-05-01
The kinetics of a cancer-cell population under the effects of an antitumoral drug is a topic of particular interest. Its theoretical understanding, along with the improvement of experimental investigation techniques, can indeed play an important role in antitumoral therapies development. Starting from the analysis of flow-cytometric data, with the aid of computer simulation we are able to give a detailed, quantitative description of the main kinetic parameters describing drug action on cancer cells. In this paper we describe the main features of our investigation method, showing an application to Igrov-1 ovarian carcinoma cells treated with cisplatin. Intermitotic time of phases, cell-cycle delay, and block effects with consequent repair or cell mortality, in a wide range of drug doses and recovery times, are discussed and interesting information about cisplatin action is found.
Alexeeva, I. V.; Budnik, A. P.; Sipachev, A. V.; Slyunyaev, M. N.
2017-02-01
The theoretical model and program complex for mathematical simulation of processes of transformation the nuclear energy into optical radiation energy was developed. The model includes the equations of gas dynamics, as well as the equations describing the kinetic processes in the non-equilibrium plasma excited by uranium fission fragments. The kinetic processes in the moving irradiated by neutrons argon-xenon gas medium containing uranium nanoparticles was investigated. The space-time evolution of this medium in nonuniform changing over time neutron field was studied. The space-time evolution of the gas parameters (temperature, density, velocity, pressure), as well as the distribution of the concentration of uranium nanoparticles under different initial velocities of the gas and the size of the nanoparticles was calculated. The amplifying properties of a laser-active space-nonuniform nuclear-excited moving argon-xenon medium, containing uranium nanoparticles and irradiated by neutrons, was studied.
Domain-growth kinetics and aspects of pinning: A Monte Carlo simulation study
DEFF Research Database (Denmark)
Castán, T.; Lindgård, Per-Anker
1991-01-01
By means of Monte Carlo computer simulations we study the domain-growth kinetics after a quench across a first-order line to very low and moderate temperatures in a multidegenerate system with nonconserved order parameter. The model is a continuous spin model relevant for martensitic...... transformations, surface reconstructions, and magnetic transitions. No external impurities are introduced, but the model has a number of intrinsic, annealable pinning mechanisms, which strongly influences the growth kinetics. It allows a study of pinning effects of three kinds: (a) pinning of domain walls...... by defects-this is found in effect to stop the growth, forming a metastable state at low temperatures T; (b) temporary pinning by stacking faults or zero-curvature domain walls; and (c) topological pinnings, which are also found to be temporary. These just slow down the growth. The pinning mechanisms...
Simulating Growth Kinetics in a Data-Parallel 3D Lattice Photobioreactor
Directory of Open Access Journals (Sweden)
A. V. Husselmann
2013-01-01
Full Text Available Though there have been many attempts to address growth kinetics in algal photobioreactors, surprisingly little have attempted an agent-based modelling (ABM approach. ABM has been heralded as a method of practical scientific inquiry into systems of a complex nature and has been applied liberally in a range of disciplines including ecology, physics, social science, and microbiology with special emphasis on pathogenic bacterial growth. We bring together agent-based simulation with the Photosynthetic Factory (PSF model, as well as certain key bioreactor characteristics in a visual 3D, parallel computing fashion. Despite being at small scale, the simulation gives excellent visual cues on the dynamics of such a reactor, and we further investigate the model in a variety of ways. Our parallel implementation on graphical processing units of the simulation provides key advantages, which we also briefly discuss. We also provide some performance data, along with particular effort in visualisation, using volumetric and isosurface rendering.
Energy Technology Data Exchange (ETDEWEB)
Brunner, S., E-mail: stephan.brunner@epfl.ch; Hausammann, L. [Centre de Recherches en Physique des Plasmas, Association Euratom-Confédération Suisse, Ecole Polytechnique Fédérale de Lausanne, CRPP-PPB, CH-1015 Lausanne (Switzerland); Berger, R. L., E-mail: berger5@llnl.gov; Cohen, B. I. [Lawrence Livermore National Laboratory, University of California, P.O. Box 808, Livermore, California 94551 (United States); Valeo, E. J. [Princeton Plasma Physics Laboratory, P.O. Box 451, Princeton, New Jersey 08543-0451 (United States)
2014-10-15
Kinetic Vlasov simulations of one-dimensional finite amplitude Electron Plasma Waves are performed in a multi-wavelength long system. A systematic study of the most unstable linear sideband mode, in particular its growth rate γ and quasi- wavenumber δk, is carried out by scanning the amplitude and wavenumber of the initial wave. Simulation results are successfully compared against numerical and analytical solutions to the reduced model by Kruer et al. [Phys. Rev. Lett. 23, 838 (1969)] for the Trapped Particle Instability (TPI). A model recently suggested by Dodin et al. [Phys. Rev. Lett. 110, 215006 (2013)], which in addition to the TPI accounts for the so-called Negative Mass Instability because of a more detailed representation of the trapped particle dynamics, is also studied and compared with simulations.
Energy Technology Data Exchange (ETDEWEB)
Montoya, M.; Rojas, J. [Instituto Peruano de Energia Nuclear, Av. Canada 1470, Lima 41 (Peru); Saettone, E. [Facultad de Ciencias, Universidad Nacional de lngenieria, Av. Tupac Amaru 210, Apartado 31-139, Lima (Peru)
2007-07-01
The mass and kinetic energy distribution of nuclear fragments from the thermal neutron-induced fission of {sup 235}U have been studied using a Monte Carlo simulation. Besides reproducing the pronounced broadening on the standard deviation of the final fragment kinetic energy distribution ({sigma}{sub e}(m)) around the mass number m = 109, our simulation also produces a second broadening around m = 125 that is in agreement with the experimental data obtained by Belhafaf et al. These results are a consequence of the characteristics of the neutron emission, the variation in the primary fragment mean kinetic energy, and the yield as a function of the mass. (Author)
Energy Technology Data Exchange (ETDEWEB)
Rosa, Faena Machado Leite [Instituto de Pesquisas Energeticas e Nucleares (IPEN/CNEN-SP), Sao Paulo, SP (Brazil); Felix, Juliana; Araujo, Henrique Peres; Monteiro, Magali [UNESP, Araraquara, SP (Brazil). Faculdade de Ciencias Farmaceuticas. Dept. de Alimentos e Nutricao; Padula, Marisa [Instituto de Tecnologia de Alimentos (ITAL), Campinas, SP (Brazil). Centro de Tecnologia de Embalagem; Manzoli, Jose Eduardo [Instituto de Pesquisas Energeticas e Nucleares (IPEN/CNEN-SP), Sao Paulo, SP (Brazil); Universidade Sao Judas Tadeu (USJT), Sao Paulo, SP (Brazil)], E-mail: jmanzoli@ipen.br
2007-07-01
Migration of low molecular mass compounds (LMMC), such as monomers and additives, from plastic packaging into food simulants is a very important issue, concerning public health and chemical contamination of foods. Sterilization of food packaging materials with ionizing radiation is considered an alternative to other sterilization methods, but when polymers are irradiated, LMMC may be formed, as radiolysis products. According to the Brazilian legislation, specific migration tests, such as those of LMMC from packaging into simulants, should be carried out at certain temperature and time, depending on the real conditions of contact. In this work, multilayer flexible films with polyamide 6 (PA-6), used for meat foodstuffs, were studied. The {epsilon}-caprolactam (PA-6 monomer) specific migration into acetic acid 3% simulant at 40 deg C during 10 days and at 100 deg C during 30 minutes was performed. The initial monomer level in the irradiated and non irradiated PA-6 films was quantified by high resolution gas chromatography (HRGC). Radiation doses were 3 and 7 kGy. {epsilon}-caprolactam specific migration was carried out only with non irradiated films. The results showed that radiation causes a significant change in the monomer level, up or down, depending on the multilayer film type. The kinetic of the {epsilon}-caprolactam migration at both temperatures, 40 and 100 deg C was clearly explained by the numerical simulation, combining an Arrhenius equation with the Fick's second law, although this kinetic was not experimentally studied. This simulation allowed to predict diffusion parameters estimates, like diffusion coefficients and activation energies of {epsilon}-caprolactam in the films or simulant. (author)
ε-Caprolactam migration from irradiated PA-6 food packaging: kinetic simulation and measurement
International Nuclear Information System (INIS)
Rosa, Faena Machado Leite; Felix, Juliana; Araujo, Henrique Peres; Monteiro, Magali
2007-01-01
Migration of low molecular mass compounds (LMMC), such as monomers and additives, from plastic packaging into food simulants is a very important issue, concerning public health and chemical contamination of foods. Sterilization of food packaging materials with ionizing radiation is considered an alternative to other sterilization methods, but when polymers are irradiated, LMMC may be formed, as radiolysis products. According to the Brazilian legislation, specific migration tests, such as those of LMMC from packaging into simulants, should be carried out at certain temperature and time, depending on the real conditions of contact. In this work, multilayer flexible films with polyamide 6 (PA-6), used for meat foodstuffs, were studied. The ε-caprolactam (PA-6 monomer) specific migration into acetic acid 3% simulant at 40 deg C during 10 days and at 100 deg C during 30 minutes was performed. The initial monomer level in the irradiated and non irradiated PA-6 films was quantified by high resolution gas chromatography (HRGC). Radiation doses were 3 and 7 kGy. ε-caprolactam specific migration was carried out only with non irradiated films. The results showed that radiation causes a significant change in the monomer level, up or down, depending on the multilayer film type. The kinetic of the ε-caprolactam migration at both temperatures, 40 and 100 deg C was clearly explained by the numerical simulation, combining an Arrhenius equation with the Fick's second law, although this kinetic was not experimentally studied. This simulation allowed to predict diffusion parameters estimates, like diffusion coefficients and activation energies of ε-caprolactam in the films or simulant. (author)
Elbow helical axes of motion are not the same in physiologic and kinetic joint simulators.
Muriuki, Muturi G; Mohagheh-Motlagh, Amin; Smolinski, Patrick J; Miller, Mark Carl
2012-08-31
Physiologic and kinetic joint simulators have been widely used for investigations of joint mechanics. The two types of simulator differ in the way joint motion is achieved; through prescribed motions and/or forces in kinetic joint simulators and by tendon loads in physiologic joint simulators. These two testing modalities have produced important insights, as in elucidating the importance of soft tissue structures to joint stability. However, the equivalence of the modalities has not been tested. This study sequentially tested five cadaveric elbows using both a physiologic simulator and a robot/6DOF system. Using position data from markers on the humerus and ulna, we calculated and compared the helical axes of motion of the specimens as the elbows were flexed from full extension. Six step size increments were used in the helical axis calculation. Marker position data at each test's full extension and full flexion point were also used to calculate a datum (overall) helical axis. The angles between the datum axis and step-wise movements were computed and stored. Increasing step size monotonically decreased the variability and the average conical angle encompassing the helical axes; a repeated measures ANOVA using test type (robot or physiologic simulator) and step size found that both type and step caused statistically significant differences (p<0.001). The large changes in helical axis angle observed for small changes in elbow flexion angle, especially in the robot tests, are a caveat for investigators using similar control algorithms. Controllers may need to include increased joint compliance and/or C(1) continuity to reduce variability. Copyright © 2012 Elsevier Ltd. All rights reserved.
Lipatov, A. S.; Cooper, J F.; Paterson, W. R.; Sittler, E. C., Jr.; Hartle, R. E.; Simpson, David G.
2013-01-01
The hybrid kinetic model supports comprehensive simulation of the interaction between different spatial and energetic elements of the Europa moon-magnetosphere system with respect to a variable upstream magnetic field and flux or density distributions of plasma and energetic ions, electrons, and neutral atoms. This capability is critical for improving the interpretation of the existing Europa flyby measurements from the Galileo Orbiter mission, and for planning flyby and orbital measurements (including the surface and atmospheric compositions) for future missions. The simulations are based on recent models of the atmosphere of Europa (Cassidy et al., 2007; Shematovich et al., 2005). In contrast to previous approaches with MHD simulations, the hybrid model allows us to fully take into account the finite gyroradius effect and electron pressure, and to correctly estimate the ion velocity distribution and the fluxes along the magnetic field (assuming an initial Maxwellian velocity distribution for upstream background ions). Photoionization, electron-impact ionization, charge exchange and collisions between the ions and neutrals are also included in our model. We consider the models with Oþ þ and Sþ þ background plasma, and various betas for background ions and electrons, and pickup electrons. The majority of O2 atmosphere is thermal with an extended non-thermal population (Cassidy et al., 2007). In this paper, we discuss two tasks: (1) the plasma wake structure dependence on the parameters of the upstream plasma and Europa's atmosphere (model I, cases (a) and (b) with a homogeneous Jovian magnetosphere field, an inductive magnetic dipole and high oceanic shell conductivity); and (2) estimation of the possible effect of an induced magnetic field arising from oceanic shell conductivity. This effect was estimated based on the difference between the observed and modeled magnetic fields (model II, case (c) with an inhomogeneous Jovian magnetosphere field, an inductive
International Nuclear Information System (INIS)
Ruopp, A; Ruprecht, A; Riedelbauch, S; Arnaud, G; Hamad, I
2014-01-01
The development of a hydro-kinetic prototype was shown including the compound structure, guide vanes, runner blades and a draft tube section with a steeply sloping, short spoiler. The design process of the hydrodynamic layout was split into three major steps. First the compound and the draft tube section was designed and the best operating point was identified using porous media as replacement for the guide vane and runner section (step one). The best operating point and the volume flux as well as the pressure drop was identified and used for the design of the guide vane section and the runner section. Both were designed and simulated independently (step two). In step three, all parts were merged in stationary simulation runs detecting peak power and operational bandwidth. In addition, the full scale demonstrator was installed in August 2010 and measured in the St. Lawrence River in Quebec supporting the average inflow velocity using ADCP (Acoustic Doppler Current Profiler) and the generator power output over the variable rotational speed. Simulation data and measurements are in good agreement. Thus, the presented approach is a suitable way in designing a hydro kinetic turbine
International Nuclear Information System (INIS)
Wolf, S.F.; Bates, J.K.
1995-01-01
We have measured the transuranic content of two transuranic=doped, simulated waste glasses, using inductively coupled plasma-mass spectrometry (ICP-MS), γ-spectrometry, and α-spectrometry. Average concentrations measured by each technique were within ± 10% of the as-doped concentrations. We also report the transuranic content of three fully radioactive SRL waste glasses that were determined using γ- and α-spectrometry measurements to deconvolute isobaric interferences present in the ICP-MS analyses
Construction of a kinetics model for liquid-solid transitions built from atomistic simulations
Benedict, Lorin; Zepeda-Ruiz, Luis; Haxhimali, Tomorr; Hamel, Sebastien; Sadigh, Babak; Chernov, Alexander; Belof, Jonathan
We discuss work in progress towards a kinetics model for dynamically-driven liquid-solid transitions built from MD simulations. The growth of solid particles within a liquid is studied for a range of conditions, and careful attention is paid to the construction of an accurate multi-phase (equilibrium) equation of state for the system under consideration, in order to provide a framework upon which the non-equilibrium physics is based. His work was performed under the auspices of the U.S. Department of Energy by Lawrence Livermore National Laboratory under Contract DE-AC52-07NA27344. Lawrence Livermore National Security, LLC.
2011-09-01
region is the locus of large turbulent kinetic energy production and Reynolds stresses. Günther and Rohr [2] studied streamwise structures and...Reynolds stress occur due to the calculation of this term in a Cartesian frame rather than in a boundary fitted frame. Günther and Rohr [2...production in flow over a wavy wall, Experiments in Fluids, 20, (1996), 257-265. [2] A. Günther and P.R. von Rohr , Large-scale structures in a developed
Lepeshkevich, Sergei V; Biziuk, Sergey A; Lemeza, Alexander M; Dzhagarov, Boris M
2011-10-01
Bimolecular and germinate molecular oxygen (O(2)) rebinding to isolated α chains of human adult hemoglobin in solutions is analyzed. Multiple extended molecular dynamics (MD) simulations of the O(2) migration within the protein after dissociation are described. Computational modeling is exploited to identify hydrophobic pockets within the αchains and internal O(2) migration pathways associated with the experimentally observed ligand rebinding kinetics. To initiate dissociation, trajectories of the liganded protein are interrupted, the iron-dioxygen bond is broken, and the parameters of the iron-nitrogen bonds are simultaneously altered to produce a deoxyheme conformation. MD simulations provide 140 essentially independent trajectories (up to 25-ns long) of the O(2) migration in the protein. The time dependence of cavities occupancy, obtained by the MD simulations, and the kinetics of O(2) rebinding, measured by flash-photolysis techniques, allow us to obtain the kinetics of the entire O(2) migration process within the nanosecond time range and construct an explicit kinetic model of the O(2) migration and rebinding process. The amino acids that have the most pronounced effect on the ligand migration within the α chain matrix are predicted. Copyright © 2011 Elsevier B.V. All rights reserved.
Using simulations and kinetic network models to reveal the dynamics and functions of riboswitches.
Lin, Jong-Chin; Yoon, Jeseong; Hyeon, Changbong; Thirumalai, D
2015-01-01
Riboswitches, RNA elements found in the untranslated region, regulate gene expression by binding to target metaboloites with exquisite specificity. Binding of metabolites to the conserved aptamer domain allosterically alters the conformation in the downstream expression platform. The fate of gene expression is determined by the changes in the downstream RNA sequence. As the metabolite-dependent cotranscriptional folding and unfolding dynamics of riboswitches are the key determinant of gene expression, it is important to investigate both the thermodynamics and kinetics of riboswitches both in the presence and absence of metabolite. Single molecule force experiments that decipher the free energy landscape of riboswitches from their mechanical responses, theoretical and computational studies have recently shed light on the distinct mechanism of folding dynamics in different classes of riboswitches. Here, we first discuss the dynamics of water around riboswitch, highlighting that water dynamics can enhance the fluctuation of nucleic acid structure. To go beyond native state fluctuations, we used the Self-Organized Polymer model to predict the dynamics of add adenine riboswitch under mechanical forces. In addition to quantitatively predicting the folding landscape of add-riboswitch, our simulations also explain the difference in the dynamics between pbuE adenine- and add adenine-riboswitches. In order to probe the function in vivo, we use the folding landscape to propose a system level kinetic network model to quantitatively predict how gene expression is regulated for riboswitches that are under kinetic control. © 2015 Elsevier Inc. All rights reserved.
Numerical simulations of subcritical reactor kinetics in thermal hydraulic transient phases
Energy Technology Data Exchange (ETDEWEB)
Yoo, J.; Park, W. S. [Korea Atomic Energy Research Institute, Taejon (Korea, Republic of)
1998-12-31
A subcritical reactor driven by a linear proton accelerator has been considered as a nuclear waste incinerator at Korea Atomic Energy Research Institute (KAERI). Since the multiplication factor of a subcritical reactor is less than unity, to compensate exponentially decreasing fission neutrons, external neutrons form spallation reactions are essentially required for operating the reactor in its steady state. Furthermore, the profile of accelerator beam currents is very important in controlling a subcritical reactor, because the reactor power varies in accordance to the profile of external neutrons. We have developed a code system to find numerical solutions of reactor kinetics equations, which are the simplest dynamic model for controlling reactors. In a due course of our previous numerical study of point kinetics equations for critical reactors, however, we learned that the same code system can be used in studying dynamic behavior of the subcritical reactor. Our major motivation of this paper is to investigate responses of subcritical reactors for small changes in thermal hydraulic parameters. Building a thermal hydraulic model for the subcritical reactor dynamics, we performed numerical simulations for dynamic responses of the reactor based on point kinetics equations with a source term. Linearizing a set of coupled differential equations for reactor responses, we focus our research interest on dynamic responses of the reactor to variations of the thermal hydraulic parameters in transient phases. 5 refs., 8 figs. (Author)
International Nuclear Information System (INIS)
Silaev, M.M.; Bugaenko, L.T.
1992-01-01
The paper reports on the development of the kinetics of radiation hydroxymethylation and hydroxypropylation chain processes relating to aliphatic saturated alcohols in the γ-radiolysis of the alcohol-unsaturated compound systems to give 1,2- and 1,4-diols respectively. These processes were simulated mathematically. The kinetic curves computed are in good agreement with the experimental dependences. The kinetic parameters of the processes, including the rate constants for the addition of α-hydroxyalkyl radicals from the saturated alcohols to the double bond of the unsaturated component, viz formaldehyde or 2-propene-1-ol in the systems, were estimated. The constants (in dm 3 /mol.s) for the saturated alcohol-formaldehyde systems incorporating ethanol as the saturated alcohol were found to be (1.5±0.3).10 4 at 413 K and (2.1±0.5).10 4 at 443K; incorporating 1-propanol- (6.0±1.3).10 3 at 413 K; for the saturated alcohol-2-propene-1-ol systems incorporating methanol, ethanol, 1- and 2-propanol-(2.5±0.3).10 4 , (6.5±0.9).10 4 , (2.7±0.4).10 4 and (1.0±0.1).10 5 , respectively, at 433 K. (author)
Directory of Open Access Journals (Sweden)
Norbert Mücke
Full Text Available Intermediate filament (IF elongation proceeds via full-width "mini-filaments", referred to as "unit-length" filaments (ULFs, which instantaneously form by lateral association of extended coiled-coil complexes after assembly is initiated. In a comparatively much slower process, ULFs longitudinally interact end-to-end with other ULFs to form short filaments, which further anneal with ULFs and with each other to increasingly longer filaments. This assembly concept was derived from time-lapse electron and atomic force microscopy data. We previously have quantitatively verified this concept through the generation of time-dependent filament length-profiles and an analytical model that describes assembly kinetics well for about the first ten minutes. In this time frame, filaments are shorter than one persistence length, i.e. ~1 μm, and thus filaments were treated as stiff rods associating via their ends. However, when filaments grow several μm in length over hours, their flexibility becomes a significant factor for the kinetics of the longitudinal annealing process. Incorporating now additional filament length distributions that we have recorded after extended assembly times by total internal reflection fluorescence microscopy (TIRFM, we developed a Monte Carlo simulation procedure that accurately describes the underlying assembly kinetics for large time scales.
Self-learning kinetic Monte Carlo simulations of Al diffusion in Mg
International Nuclear Information System (INIS)
Nandipati, Giridhar; Govind, Niranjan; Andersen, Amity; Rohatgi, Aashish
2016-01-01
Vacancy-mediated diffusion of an Al atom in the pure Mg matrix is studied using the atomistic, on-lattice self-learning kinetic Monte Carlo (SLKMC) method. Activation barriers for vacancy-Mg and vacancy-Al atom exchange processes are calculated on the fly using the climbing image nudged-elastic-band method and binary Mg–Al modified embedded-atom method interatomic potential. Diffusivities of an Al atom obtained from SLKMC simulations show the same behavior as observed in experimental and theoretical studies available in the literature; that is, an Al atom diffuses faster within the basal plane than along the c-axis. Although the effective activation barriers for an Al atom diffusion from SLKMC simulations are close to experimental and theoretical values, the effective prefactors are lower than those obtained from experiments. We present all the possible vacancy-Mg and vacancy-Al atom exchange processes and their activation barriers identified in SLKMC simulations. A simple mapping scheme to map an HCP lattice onto a simple cubic lattice is described, which enables simulation of the HCP lattice using the on-lattice framework. We also present the pattern recognition scheme which is used in SLKMC simulations to identify the local Al atom configuration around a vacancy. (paper)
A conservative scheme for electromagnetic simulation of magnetized plasmas with kinetic electrons
Bao, J.; Lin, Z.; Lu, Z. X.
2018-02-01
A conservative scheme has been formulated and verified for gyrokinetic particle simulations of electromagnetic waves and instabilities in magnetized plasmas. An electron continuity equation derived from the drift kinetic equation is used to time advance the electron density perturbation by using the perturbed mechanical flow calculated from the parallel vector potential, and the parallel vector potential is solved by using the perturbed canonical flow from the perturbed distribution function. In gyrokinetic particle simulations using this new scheme, the shear Alfvén wave dispersion relation in the shearless slab and continuum damping in the sheared cylinder have been recovered. The new scheme overcomes the stringent requirement in the conventional perturbative simulation method that perpendicular grid size needs to be as small as electron collisionless skin depth even for the long wavelength Alfvén waves. The new scheme also avoids the problem in the conventional method that an unphysically large parallel electric field arises due to the inconsistency between electrostatic potential calculated from the perturbed density and vector potential calculated from the perturbed canonical flow. Finally, the gyrokinetic particle simulations of the Alfvén waves in sheared cylinder have superior numerical properties compared with the fluid simulations, which suffer from numerical difficulties associated with singular mode structures.
Atomistic computer simulations of FePt nanoparticles. Thermodynamic and kinetic properties
Energy Technology Data Exchange (ETDEWEB)
Mueller, M.
2007-12-20
In the present dissertation, a hierarchical multiscale approach for modeling FePt nanoparticles by atomistic computer simulations is developed. By describing the interatomic interactions on different levels of sophistication, various time and length scales can be accessed. Methods range from static quantum-mechanic total-energy calculations of small periodic systems to simulations of whole particles over an extended time by using simple lattice Hamiltonians. By employing these methods, the energetic and thermodynamic stability of non-crystalline multiply twinned FePt nanoparticles is investigated. Subsequently, the thermodynamics of the order-disorder transition in FePt nanoparticles is analyzed, including the influence of particle size, composition and modified surface energies by different chemical surroundings. In order to identify processes that reduce or enhance the rate of transformation from the disordered to the ordered state, the kinetics of the ordering transition in FePt nanoparticles is finally investigated by assessing the contributions of surface and volume diffusion. (orig.)
Quantifying the Sources of Kinetic Frustration in Folding Simulations of Small Proteins
2015-01-01
Experiments and atomistic simulations of polypeptides have revealed structural intermediates that promote or inhibit conformational transitions to the native state during folding. We invoke a concept of “kinetic frustration” to quantify the prevalence and impact of these behaviors on folding rates within a large set of atomistic simulation data for 10 fast-folding proteins, where each protein’s conformational space is represented as a Markov state model of conformational transitions. Our graph theoretic approach addresses what conformational features correlate with folding inhibition and therefore permits comparison among features within a single protein network and also more generally between proteins. Nonnative contacts and nonnative secondary structure formation can thus be quantitatively implicated in inhibiting folding for several of the tested peptides. PMID:25136267
Photoelectric Franck-Hertz experiment and its kinetic analysis by Monte Carlo simulation.
Magyar, Péter; Korolov, Ihor; Donkó, Zoltán
2012-05-01
The electrical characteristics of a photoelectric Franck-Hertz cell are measured in argon gas over a wide range of pressure, covering conditions where elastic collisions play an important role, as well as conditions where ionization becomes significant. Photoelectron pulses are induced by the fourth harmonic UV light of a diode-pumped Nd:YAG laser. The electron kinetics, which is far more complex compared to the naive picture of the Franck-Hertz experiment, is analyzed via Monte Carlo simulation. The computations provide the electrical characteristics of the cell, the energy and velocity distribution functions, and the transport parameters of the electrons, as well as the rate coefficients of different elementary processes. A good agreement is obtained between the cell's measured and calculated electrical characteristics, the peculiarities of which are understood by the simulation studies.
Spandan, Vamsi; Meschini, Valentina; Ostilla-Mónico, Rodolfo; Lohse, Detlef; Querzoli, Giorgio; de Tullio, Marco D.; Verzicco, Roberto
2017-11-01
In this paper we show and discuss how the deformation dynamics of closed liquid-liquid interfaces (for example drops and bubbles) can be replicated with use of a phenomenological interaction potential model. This new approach to simulate liquid-liquid interfaces is based on the fundamental principle of minimum potential energy where the total potential energy depends on the extent of deformation of a spring network distributed on the surface of the immersed drop or bubble. Simulating liquid-liquid interfaces using this model require computing ad-hoc elastic constants which is done through a reverse-engineered approach. The results from our simulations agree very well with previous studies on the deformation of drops in standard flow configurations such as a deforming drop in a shear flow or cross flow. The interaction potential model is highly versatile, computationally efficient and can be easily incorporated into generic single phase fluid solvers to also simulate complex fluid-structure interaction problems. This is shown by simulating flow in the left ventricle of the heart with mechanical and natural mitral valves where the imposed flow, motion of ventricle and valves dynamically govern the behaviour of each other. Results from these simulations are compared with ad-hoc in-house experimental measurements. Finally, we present a simple and easy to implement parallelisation scheme, as high performance computing is unavoidable when studying large scale problems involving several thousands of simultaneously deforming bodies in highly turbulent flows.
Modeling Taylor series approximations for prompt neutron kinetics with lab view simulations
International Nuclear Information System (INIS)
Adzri, E. P.
2012-09-01
The reactor point kinetics equations have been subjected to intense research in an effort to find simple yet accurate numerical solutions methods. The equations are very stiff numerically, meaning that there is a wide variation in the decay constants, so that using a particular time step in the numerical solution may provide sufficient accuracy for the group, but not for another. Several solutions techniques have been presented on the point kinetics equations with varying degrees of complexity. These include Power Series Solutions, CORE, PCA, Genapol and Taylor series methods. In this research, algorithms were developed based on the first and second order Taylor series expansion and simulated in LabVIEW to solve the Reactor Point Kinetics equations using block diagram nodes implemented within stacked sequences. The algorithms developed were fast,accurate and simple to code. Several reactivity insertions were used to simulate the change in neutron population with time. The LabVIEW- Taylor series solutions were compared with other solution techniques such as Power Series Solutions, CORE, PCA, Genapol and McMahon and Pierson's Taylor series approximation. The results of LabVIEW-Taylor series technique used by McMahon and Pearson The LabVIEW-implemented techniques were found to agree very well with these other methods. At 1x10 -8 s the neutron population was 1.000220 neutrons / cm 3 , at 1 x 10 -2 s it was 2.007681 neutrons / cm 3 and at 1x10 -1 s it was 2.075317 neutrons / cm 3 ; same results reported by Genapol for a fast reactor, it produced good and accurate results and compared very favorably with other methods found in the literature. Using much smaller time steps to the order or 10 -8 s commensurate with fast reactor parameters also produced very satisfactory results, indicating that the LabVIEW-based Taylor series technique is suitable for simulating the kinetics of fast reactors as well as thermal reactors. Algorithms developed that included second order terms
Gou, Lin; Lee, Jinhyuk; Yang, Jun-Mo; Park, Yong-Doo; Zhou, Hai-Meng; Zhan, Yi; Lü, Zhi-Rong
2017-12-01
Fumaric acid (FA), which is naturally found in organisms, is a well known intermediate of the citric acid cycle. We evaluated the effects of FA on tyrosinase activity and structure via enzyme kinetics and computational simulations. FA was found to be a reversible inhibitor of tyrosinase and its induced mechanism was the parabolic non-competitive inhibition type with IC 50 =13.7±0.25mM and K i slope =12.64±0.75mM. We newly established the equation for the dissociation constant (K islope ) for the parabolic inhibition type in this study. Kinetic measurements and spectrofluorimetry studies showed that FA induced regional changes in the active site of tyrosinase. One possible binding site for FA was identified under the condition without L-DOPA. The computational docking simulations further revealed that FA can interact with HIS263 and HIS85 at the active site. Furthermore, four important hydrogen bonds were found to be involved with the docking of FA on tyrosinase. Our study provides insight into the mechanism by which dicarboxylic acids such as FA inhibit tyrosinase. By inhibiting tyrosinase and its central role in pigment production, FA is a potential natural antipigmentation agent. Copyright © 2016 Elsevier B.V. All rights reserved.
Kinetic Monte Carlo Simulation of Oxygen and Cation Diffusion in Yttria-Stabilized Zirconia
Good, Brian
2011-01-01
Yttria-stabilized zirconia (YSZ) is of interest to the aerospace community, notably for its application as a thermal barrier coating for turbine engine components. In such an application, diffusion of both oxygen ions and cations is of concern. Oxygen diffusion can lead to deterioration of a coated part, and often necessitates an environmental barrier coating. Cation diffusion in YSZ is much slower than oxygen diffusion. However, such diffusion is a mechanism by which creep takes place, potentially affecting the mechanical integrity and phase stability of the coating. In other applications, the high oxygen diffusivity of YSZ is useful, and makes the material of interest for use as a solid-state electrolyte in fuel cells. The kinetic Monte Carlo (kMC) method offers a number of advantages compared with the more widely known molecular dynamics simulation method. In particular, kMC is much more efficient for the study of processes, such as diffusion, that involve infrequent events. We describe the results of kinetic Monte Carlo computer simulations of oxygen and cation diffusion in YSZ. Using diffusive energy barriers from ab initio calculations and from the literature, we present results on the temperature dependence of oxygen and cation diffusivity, and on the dependence of the diffusivities on yttria concentration and oxygen sublattice vacancy concentration. We also present results of the effect on diffusivity of oxygen vacancies in the vicinity of the barrier cations that determine the oxygen diffusion energy barriers.
Xiong, Shang-Ling; Yue, Li-Mei; Lim, Gyu Tae; Yang, Jun-Mo; Lee, Jinhyuk; Park, Yong-Doo
2018-02-26
Inhibition of α-glucosidase is directly associated with treatment of type 2 diabetes. In this regard, we conducted enzyme kinetics integrated with computational docking simulation to assess the inhibitory effect of raspberry ketone (RK) on α-glucosidase. RK bound to the active site of α-glucosidase and interacted with several key residues such as ASP68, TYR71, HIS111, PHE157, PHE158, PHE177, GLN181, ASP214, THR215, ASP349, ASP408, and ARG439, as detected by protein-ligand docking simulation. Subsequently, we confirmed the action of RK on α-glucosidase as the non-competitive type of inhibition in a reversible and rapidly binding manner. The relevant kinetic parameters were IC 50 =6.17±0.46mM and K i =7.939±0.211mM. Regarding the structure-activity relationship, the higher concentration of RK induced slight modulation of the shape of the active site as monitored by hydrophobic exposure. The tertiary conformational change was linked to RK inhibition, and mostly involved regional changes of the active site. Our study provides insight into the functional role of RK due to its structural property of a hydroxyphenyl ring that interacts with the active site of α-glucosidase. We suggest that similar hydroxyphenyl ring compounds targeting the key residues of the active site might be potential α-glucosidase inhibitors. Copyright © 2018. Published by Elsevier B.V.
Energy Technology Data Exchange (ETDEWEB)
Maxwell, R M; Chow, F K; Kollet, S J
2007-02-02
This study combines a variably-saturated groundwater flow model and a mesoscale atmospheric model to examine the effects of soil moisture heterogeneity on atmospheric boundary layer processes. This parallel, integrated model can represent spatial variations in land-surface forcing driven by three-dimensional (3D) atmospheric and subsurface components. The development of atmospheric flow is studied in a series of idealized test cases with different initial soil moisture distributions generated by an offline spin-up procedure or interpolated from a coarse-resolution dataset. These test cases are performed with both the fully-coupled model (which includes 3D groundwater flow and surface water routing) and the uncoupled atmospheric model. The effects of the different soil moisture initializations and lateral subsurface and surface water flow are seen in the differences in atmospheric evolution over a 36-hour period. The fully-coupled model maintains a realistic topographically-driven soil moisture distribution, while the uncoupled atmospheric model does not. Furthermore, the coupled model shows spatial and temporal correlations between surface and lower atmospheric variables and water table depth. These correlations are particularly strong during times when the land surface temperatures trigger shifts in wind behavior, such as during early morning surface heating.
Energy Technology Data Exchange (ETDEWEB)
Landi, S.; Matteini, L. [Dipartimento di Fisica e Astronomia, Universita degli Studi di Firenze Largo E. Fermi 2, I-50125 Firenze (Italy); Pantellini, F. [LESIA, Observatoire de Paris 5, Place J. Janssen, F-92195 Meudon Cedex (France)
2012-12-01
We present numerical simulations of the solar wind using a fully kinetic model which takes into account the effects of particle's binary collisions in a quasi-neutral plasma in spherical expansion. Starting from an isotropic Maxwellian velocity distribution function for the electrons, we show that the combined effect of expansion and Coulomb collisions leads to the formation of two populations: a collision-dominated cold and dense population almost isotropic in velocity space and a weakly collisional, tenuous field-aligned and antisunward drifting population generated by mirror force focusing in the radially decreasing magnetic field. The relative weights and drift velocities for the two populations observed in our simulations are in excellent agreement with the relative weights and drift velocities for both core and strahl populations observed in the real solar wind. The radial evolution of the main moments of the electron velocity distribution function is in the range observed in the solar wind. The electron temperature anisotropy with respect to the magnetic field direction is found to be related to the ratio between the collisional time and the solar wind expansion time. Even though collisions are found to shape the electron velocity distributions and regulate the properties of the strahl, it is found that the heat flux is conveniently described by a collisionless model where a fraction of the electron thermal energy is advected at the solar wind speed. This reinforces the currently largely admitted fact that collisions in the solar wind are clearly insufficient to force the electron heat flux obey the classical Spitzer-Haerm expression where heat flux and temperature gradient are proportional to each other. The presented results show that the electron dynamics in the solar wind cannot be understood without considering the role of collisions.
Huang, Chen-Hsi; Gharaee, Leili; Zhao, Yue; Erhart, Paul; Marian, Jaime
2017-09-01
High-temperature, high-dose, neutron irradiation of W results in the formation of Re-rich clusters at concentrations one order of magnitude lower than the thermodynamic solubility limit. These clusters may eventually transform into brittle W-Re intermetallic phases, which can lead to high levels of hardening and thermal conductivity losses. Standard theories of radiation-enhanced diffusion and precipitation cannot explain the formation of these precipitates and so understanding the mechanism by which nonequilibrium clusters form under irradiation is crucial to predict material degradation and devise mitigation strategies. Here we carry out a thermodynamic study of W-Re alloys and conduct kinetic Monte Carlo simulations of Re cluster formation in irradiated W-2Re alloys. We use a generalized Hamiltonian for crystals containing point defects parametrized entirely with electronic structure calculations. Our model incorporates recently gained mechanistic information of mixed-interstitial solute transport, which is seen to control cluster nucleation and growth by forming quasispherical nuclei after an average incubation time of 13.5(±8.5 ) s at 1800 K. These nuclei are seen to grow by attracting more mixed interstitials bringing solute atoms, which in turn attracts vacancies leading to recombination and solute agglomeration. Owing to the arrival of both Re and W atoms from the mixed dumbbells, the clusters are not fully dense in Re, which amounts to no more than 50% of the atomic concentration of the cluster near the center. Our simulations are in qualitative agreement with recent atom probe examinations of ion-irradiated W-2Re systems at 773 K.
Directory of Open Access Journals (Sweden)
Hatim O. Sharif
2017-02-01
Full Text Available A physically-based, distributed-parameter hydrologic model was used to simulate a recent flood event in the city of Hafr Al Batin, Saudi Arabia to gain a better understanding of the runoff generation and spatial distribution of flooding. The city is located in a very arid catchment. Flooding of the city is influenced by the presence of three major tributaries that join the main channel in and around the heavily urbanized area. The Integrated Multi-satellite Retrievals for Global Precipitation Measurement Mission (IMERG rainfall product was used due to lack of detailed ground observations. To overcome the heavy computational demand, the catchment was divided into three sub-catchments with a variable model grid resolution. The model was run on three subcatchments separately, without losing hydrologic connectivity among the sub-catchments. Uncalibrated and calibrated satellite products were used producing different estimates of the predicted runoff. The runoff simulations demonstrated that 85% of the flooding was generated in the urbanized portion of the catchments for the simulated flood. Additional model simulations were performed to understand the roles of the unique channel network in the city flooding. The simulations provided insights into the best options for flood mitigation efforts. The variable model grid size approach allowed using physically-based, distributed models—such as the Gridded Surface Subsurface Hydrologic Analysis (GSSHA model used in this study—on large basins that include urban centers that need to be modeled at very high resolutions.
Smeal, Steven W; Schmitt, Margaret A; Pereira, Ronnie Rodrigues; Prasad, Ashok; Fisk, John D
2017-01-01
To expand the quantitative, systems level understanding and foster the expansion of the biotechnological applications of the filamentous bacteriophage M13, we have unified the accumulated quantitative information on M13 biology into a genetically-structured, experimentally-based computational simulation of the entire phage life cycle. The deterministic chemical kinetic simulation explicitly includes the molecular details of DNA replication, mRNA transcription, protein translation and particle assembly, as well as the competing protein-protein and protein-nucleic acid interactions that control the timing and extent of phage production. The simulation reproduces the holistic behavior of M13, closely matching experimentally reported values of the intracellular levels of phage species and the timing of events in the M13 life cycle. The computational model provides a quantitative description of phage biology, highlights gaps in the present understanding of M13, and offers a framework for exploring alternative mechanisms of regulation in the context of the complete M13 life cycle. Copyright Â© 2016 Elsevier Inc. All rights reserved.
Simulation on roof activities of gob-side entry retaining in fully-mechanized top-coal caving faces
Energy Technology Data Exchange (ETDEWEB)
Zhang, D.; Miao, X.; Mao, X. [China University of Mining and Technology, Xuzhou (China). College of Energy Science and Engineering
2001-05-01
Through similar material simulation and computer numerical simulation, the breakage situation and the shape of main roof, the influence of different supports on roof activity and the relevant technical parameters for roadside packing were analysed preliminarily. The results show that bolting with wire mesh and manmade roadside packing body with high strength are beneficial to the stability of gob-side entry, and the minimum width of packing zone and the minimum compressive strength of packing material were also provided. 6 refs., 4 figs., 3 tabs.
Jackson, Thomas; Jost, A. M.; Zhang, Ju; Sridharan, P.; Amadio, G.
2017-06-01
In this work we present three-dimensional mesoscale simulations of detonation initiation in energetic materials. We solve the reactive Euler equations, with the energy equation augmented by a power deposition term. The reaction rate at the mesoscale is modelled using a density-based kinetics scheme, adapted from standard Ignition and Growth models. The deposition term is based on previous results of simulations of pore collapse at the microscale, modelled at the mesoscale as hot-spots. We carry out three-dimensional mesoscale simulations of random packs of HMX crystals in a binder, and show that the transition between no-detonation and detonation depends on the number density of the hot-spots, the initial radius of the hot-spot, the post-shock pressure of an imposed shock, and the amplitude of the power deposition term. The trends of transition at lower pressure of the imposed shock for larger number density of pore observed in experiments is reproduced. Initial attempts to improve the agreement between the simulation and experiments through calibration of various parameters will also be made.
Simulations of an Argon Z-pinch Implosion with time-dependent non-LTE kinetics
Ouart, N.; Dasgupta, A.; Giuliani, J.; Jones, B.; Ampleford, D.; Harvey-Thompson, A.; Jennings, C.; Tangri, V.; Clark, R.
2017-10-01
Three argon gas-puff implosions were performed on the Z-machine at SNL. These three loads had the same density profile from an 8cm dia. nozzle, a 1mg/cm mass, and a 2.5cm length. The experiments produced similar radiative powers and yields. Simulations with the 2D MHD code Mach2-TCRE reproduced the experimental K-shell powers, yields, and emission region. It was also shown that the ratio of the Ly α to He α + IC lines from the simulation had good agreement to measurements after peak K-power; however, the simulation's line ratio was higher prior to the peak power. The authors attribute the difference to 3D effects or on the implicit assumption of steady-state population kinetics. This presentation will illustrate the effect of time-dependent level populations on the radiation from simulations using the NRL DZAPP code. DZAPP is a coupled 1D MHD, detailed non-LTE atomic physics with radiation transport, incorporating a transmission line circuit. The line ratios and K-powers from the steady-state and time-dependent populations will be presented and compared with experiment. This work supported by DOE/NNSA. SNL is a multimission laboratory managed and operated by National Technology and Engineering Solutions of Sandia, LLC, a wholly owned subsidiary of Honeywell International, Inc., for the US DOE/NNSA under contract DE-NA-0003525.
Energy Technology Data Exchange (ETDEWEB)
Martin-Bragado, Ignacio [Synopsys Inc, 700 East Middlefield Road, Mountain View, 94043 CA (United States)]. E-mail: Ignacio.martin-bragado@synopsys.com; Tian, S. [Synopsys Inc, 700 East Middlefield Road, Mountain View, 94043 CA (United States); Johnson, M. [Synopsys Inc, 700 East Middlefield Road, Mountain View, 94043 CA (United States); Castrillo, P. [Department of Electronics, University of Valladolid Campus Miguel Delibes, Camino del Cementerio S/N, 47011 Valladolid (Spain); Pinacho, R. [Department of Electronics, University of Valladolid Campus Miguel Delibes, Camino del Cementerio S/N, 47011 Valladolid (Spain); Rubio, J. [Department of Electronics, University of Valladolid Campus Miguel Delibes, Camino del Cementerio S/N, 47011 Valladolid (Spain); Jaraiz, M. [Department of Electronics, University of Valladolid Campus Miguel Delibes, Camino del Cementerio S/N, 47011 Valladolid (Spain)
2006-12-15
This work will show how the kinetic Monte Carlo (KMC) technique is able to successfully model the defects and diffusion of dopants in Si-based materials for advanced microelectronic devices, especially for non-equilibrium conditions. Charge states of point defects and paired dopants are also simulated, including the dependency of the diffusivities on the Fermi level and charged particle drift coming from the electric field. The KMC method is used to simulate the diffusion of the point defects, and formation and dissolution of extended defects, whereas a quasi-atomistic approach is used to take into account the carrier densities. The simulated mechanisms include the kick-out diffusion mechanism, extended defect formation and the activation/deactivation of dopants through the formation of impurity clusters. Damage accumulation and amorphization are also taken into account. Solid phase epitaxy regrowth is included, and also the dopants redistribution during recrystallization of the amorphized regions. Regarding the charged defects, the model considers the dependencies of charge reactions, electric bias, pairing and break-up reactions according to the local Fermi level. Some aspects of the basic physical mechanisms have also been taken into consideration: how to smooth out the atomistic dopant point charge distribution, avoiding very abrupt and unphysical charge profiles and how to implement the drift of charged particles into the existing electric field. The work will also discuss the efficiency, accuracy and relevance of the method, together with its implementation in a technology computer aided design process simulator.
Arza, Vamsi Spandan; Meschini, Valentina; Ostilla-Mónico, Rodolfo; Lohse, Detlef; Querzoli, Giorgio; de Tullio, Marco D.; Verzicco, Roberto
2017-01-01
In this paper we show and discuss how the deformation dynamics of closed liquid–liquid interfaces (for example drops and bubbles) can be replicated with use of a phenomenological interaction potential model. This new approach to simulate liquid–liquid interfaces is based on the fundamental principle
Vionnet, V.; Martin, E.; Masson, V.; Guyomarc'h, G.; Naaim-Bouvet, F.; Prokop, A.; Durand, Y.; Lac, C.
2013-06-01
In alpine regions, wind-induced snow transport strongly influences the spatio-temporal evolution of the snow cover throughout the winter season. To gain understanding on the complex processes that drive the redistribution of snow, a new numerical model is developed. It couples directly the detailed snowpack model Crocus with the atmospheric model Meso-NH. Meso-NH/Crocus simulates snow transport in saltation and in turbulent suspension and includes the sublimation of suspended snow particles. A detailed representation of the first meters of the atmosphere allows a fine reproduction of the erosion and deposition process. The coupled model is evaluated against data collected around the experimental site of Col du Lac Blanc (2720 m a.s.l., French Alps). For this purpose, a blowing snow event without concurrent snowfall has been selected and simulated. Results show that the model captures the main structures of atmospheric flow in alpine terrain, the vertical profile of wind speed and the snow particles fluxes near the surface. However, the horizontal resolution of 50 m is found to be insufficient to simulate the location of areas of snow erosion and deposition observed by terrestrial laser scanning. When activated, the sublimation of suspended snow particles causes a reduction in deposition of 5.3%. Total sublimation (surface + blowing snow) is three times higher than surface sublimation in a simulation neglecting blowing snow sublimation.
Vionnet, V.; Martin, E.; Masson, V.; Guyomarc'h, G.; Naaim-Bouvet, F.; Prokop, A.; Durand, Y.; Lac, C.
2014-03-01
In alpine regions, wind-induced snow transport strongly influences the spatio-temporal evolution of the snow cover throughout the winter season. To gain understanding on the complex processes that drive the redistribution of snow, a new numerical model is developed. It directly couples the detailed snowpack model Crocus with the atmospheric model Meso-NH. Meso-NH/Crocus simulates snow transport in saltation and in turbulent suspension and includes the sublimation of suspended snow particles. The coupled model is evaluated against data collected around the experimental site of Col du Lac Blanc (2720 m a.s.l., French Alps). First, 1-D simulations show that a detailed representation of the first metres of the atmosphere is required to reproduce strong gradients of blowing snow concentration and compute mass exchange between the snowpack and the atmosphere. Secondly, 3-D simulations of a blowing snow event without concurrent snowfall have been carried out. Results show that the model captures the main structures of atmospheric flow in alpine terrain. However, at 50 m grid spacing, the model reproduces only the patterns of snow erosion and deposition at the ridge scale and misses smaller scale patterns observed by terrestrial laser scanning. When activated, the sublimation of suspended snow particles causes a reduction of deposited snow mass of 5.3% over the calculation domain. Total sublimation (surface + blowing snow) is three times higher than surface sublimation in a simulation neglecting blowing snow sublimation.
Maldonado, E; Roth, M W; Gray, Paul A
2009-06-01
We present and discuss the results of molecular dynamics computer simulations of crude oil confined between graphene planes. The crude oil is represented as a mixture of alkanes having 6 method of separating alkane mixtures at temperatures significantly different from those of conventional refining processes.
Moradi Tafreshi, Zahra
1999-10-01
Fluidized bed reactor is widely used in the chemical, petroleum and biological processing industries for a variety of operations. Due to the complex fluidodynamics, conventional designs are often based on the assumption of constant reaction volume and first order kinetics. Most industrial catalytic reactions, however, occur in a variable-density environment and undergo nonmonotone kinetics. This thesis deals with those complexities. Two complex models, namely 2-phase and 3-phase models, were employed for the prediction of reactor performance. Four general types of reversible reactions with nonlinear power rate law kinetics were considered and the influence of density parameter, ɛ, and reaction orders on reactor behaviour were explored for each type. Computer programs, written in Matlab, were provided for each type of reaction. The simulation results of both models showed that the reaction density parameter has a significant effect on both fluidodynamic characteristics and reaction conversion. Generally, in all types higher values of fluidodynamic variables were obtained when ɛ >= 0. Reaction conversion, however, dropped as the expansion factor increased. This trend, which was more pronounced for reaction orders higher than unity, has been attributed to the ``membranous effect'' of the bubble-emulsion interface that permits a continuous supply of fresh reactants from bubble phase into the emulsion phase in contracting gas systems. In expanding reaction systems, however, the extra moles caused an increase in the bubble size and velocity which reduced the chances of good contact between the two phases. This suggests that fluidized operations are probably not optimal and applicable for certain types of reactions. Moreover, the results showed that simple first order reactions exhibit higher conversions than complex reactions with nonlinear kinetics. 3-phase model, on the other hand, predicted the possibility of multiple steady states for reactions with a decrease in
Messina, Luca; Castin, Nicolas; Domain, Christophe; Olsson, Pär
2017-02-01
The quality of kinetic Monte Carlo (KMC) simulations of microstructure evolution in alloys relies on the parametrization of point-defect migration rates, which are complex functions of the local chemical composition and can be calculated accurately with ab initio methods. However, constructing reliable models that ensure the best possible transfer of physical information from ab initio to KMC is a challenging task. This work presents an innovative approach, where the transition rates are predicted by artificial neural networks trained on a database of 2000 migration barriers, obtained with density functional theory (DFT) in place of interatomic potentials. The method is tested on copper precipitation in thermally aged iron alloys, by means of a hybrid atomistic-object KMC model. For the object part of the model, the stability and mobility properties of copper-vacancy clusters are analyzed by means of independent atomistic KMC simulations, driven by the same neural networks. The cluster diffusion coefficients and mean free paths are found to increase with size, confirming the dominant role of coarsening of medium- and large-sized clusters in the precipitation kinetics. The evolution under thermal aging is in better agreement with experiments with respect to a previous interatomic-potential model, especially concerning the experiment time scales. However, the model underestimates the solubility of copper in iron due to the excessively high solution energy predicted by the chosen DFT method. Nevertheless, this work proves the capability of neural networks to transfer complex ab initio physical properties to higher-scale models, and facilitates the extension to systems with increasing chemical complexity, setting the ground for reliable microstructure evolution simulations in a wide range of alloys and applications.
International Nuclear Information System (INIS)
Gelman, David; Schwartz, Steven D.
2010-01-01
The recently developed quantum-classical method has been applied to the study of dissipative dynamics in multidimensional systems. The method is designed to treat many-body systems consisting of a low dimensional quantum part coupled to a classical bath. Assuming the approximate zeroth order evolution rule, the corrections to the quantum propagator are defined in terms of the total Hamiltonian and the zeroth order propagator. Then the corrections are taken to the classical limit by introducing the frozen Gaussian approximation for the bath degrees of freedom. The evolution of the primary part is governed by the corrected propagator yielding the exact quantum dynamics. The method has been tested on two model systems coupled to a harmonic bath: (i) an anharmonic (Morse) oscillator and (ii) a double-well potential. The simulations have been performed at zero temperature. The results have been compared to the exact quantum simulations using the surrogate Hamiltonian approach.
Corre , Samuel; Belmiloudi , Aziz
2016-01-01
International audience; In this work, a modified coupling Lattice Boltzmann Model (LBM) in simulation of cardiac electrophysiology is developed in order to capture the detailed activities of macro- to micro-scale transport processes. The propagation of electrical activity in the human heart through torso is mathematically modeled by bidomain type systems. As transmembrane potential evolves, we take into account domain anisotropical properties using intracellular and extracellular conductivity...
Fediai, Artem; Ryndyk, Dmitry A; Cuniberti, Gianaurelio
2016-10-05
Up to now, the electrical properties of the contacts between 3D metals and 2D materials have never been computed at a fully ab initio level due to the huge number of atomic orbitals involved in a current path from an electrode to a pristine 2D material. As a result, there are still numerous open questions and controversial theories on the electrical properties of systems with 3D/2D interfaces-for example, the current path and the contact length scalability. Our work provides a first-principles solution to this long-standing problem with the use of the modular approach, a method which rigorously combines a Green function formalism with the density functional theory (DFT) for this particular contact type. The modular approach is a general approach valid for any 3D/2D contact. As an example, we apply it to the most investigated among 3D/2D contacts-metal/graphene contacts-and show its abilities and consistency by comparison with existing experimental data. As it is applicable to any 3D/2D interface, the modular approach allows the engineering of 3D/2D contacts with the pre-defined electrical properties.
Illangasekare, T. H.; Trautz, A. C.; Howington, S. E.; Cihan, A.
2017-12-01
It is a well-established fact that the land and atmosphere form a continuum in which the individual domains are coupled by heat and mass transfer processes such as bare-soil evaporation. Soil moisture dynamics can be simulated at the representative elementary volume (REV) scale using decoupled and fully coupled Darcy/Navier-Stokes models. Decoupled modeling is an asynchronous approach in which flow and transport in the soil and atmosphere is simulated independently; the two domains are coupled out of time-step via prescribed flux parameterizations. Fully coupled modeling in contrast, solves the governing equations for flow and transport in both domains simultaneously with the use of coupling interface boundary conditions. This latter approach, while being able to provide real-time two-dimensional feedbacks, is considerably more complex and computationally intensive. In this study, we investigate whether fully coupled models are necessary, or if the simpler decoupled models can sufficiently capture soil moisture dynamics under varying land preparations. A series of intermediate-scale physical and numerical experiments were conducted in which soil moisture distributions and evaporation estimates were monitored at high spatiotemporal resolutions for different heterogeneous packing and soil roughness scenarios. All experimentation was conducted at the newly developed Center for Experimental Study of Subsurface Environmental Processes (CESEP) wind tunnel-porous media user test-facility at the Colorado School of. Near-surface atmospheric measurements made during the experiments demonstrate that the land-atmosphere coupling was relatively weak and insensitive to the applied edaphic and surface conditions. Simulations with a decoupled multiphase heat and mass transfer model similarly show little sensitivity to local variations in atmospheric forcing; a single, simple flux parameterization can sufficiently capture the soil moisture dynamics (evaporation and redistribution
Artificial intelligence applied to atomistic kinetic Monte Carlo simulations in Fe-Cu alloys
Energy Technology Data Exchange (ETDEWEB)
Djurabekova, F.G. [Reactor Materials Research Unit, SCK-CEN, Boeretang 200, B-2400 Mol (Belgium); Domingos, R. [Reactor Materials Research Unit, SCK-CEN, Boeretang 200, B-2400 Mol (Belgium); Cerchiara, G. [Department of Nuclear and Production Engineering, University of Pisa (Italy); Castin, N. [Catholic University of Louvain-la-Neuve (Belgium); Vincent, E. [LMPGM UMR-8517, University of Lille I, Villeneuve d' Ascq (France); Malerba, L. [Reactor Materials Research Unit, SCK-CEN, Boeretang 200, B-2400 Mol (Belgium)]. E-mail: lmalerba@sckcen.be
2007-02-15
Vacancy migration energies as functions of the local atomic configuration (LAC) in Fe-Cu alloys have been systematically tabulated using an appropriate interatomic potential for the alloy of interest. Subsets of these tabulations have been used to train an artificial neural network (ANN) to predict all vacancy migration energies depending on the LAC. The error in the prediction of the ANN has been evaluated by a fuzzy logic system (FLS), allowing a feedback to be introduced for further training, to improve the ANN prediction. This artificial intelligence (AI) system is used to develop a novel approach to atomistic kinetic Monte Carlo (AKMC) simulations, aimed at providing a better description of the kinetic path followed by the system through diffusion of solute atoms in the alloy via vacancy mechanism. Fe-Cu has been chosen because of the importance of Cu precipitation in Fe in connection with the embrittlement of reactor pressure vessels of existing nuclear power plants. In this paper the method is described in some detail and the first results of its application are presented and briefly discussed.
Zhao, Lei; Cheng, Jiangtao
2017-09-07
In this paper, we report molecular kinetic analyses of water spreading on hydrophobic surfaces via molecular dynamics simulation. The hydrophobic surfaces are composed of amorphous polytetrafluoroethylene (PTFE) with a static contact angle of ~112.4° for water. On the basis of the molecular kinetic theory (MKT), the influences of both viscous damping and solid-liquid retarding were analyzed in evaluating contact line friction, which characterizes the frictional force on the contact line. The unit displacement length on PTFE was estimated to be ~0.621 nm and is ~4 times as long as the bond length of C-C backbone. The static friction coefficient was found to be ~[Formula: see text] Pa·s, which is on the same order of magnitude as the dynamic viscosity of water, and increases with the droplet size. A nondimensional number defined by the ratio of the standard deviation of wetting velocity to the characteristic wetting velocity was put forward to signify the strength of the inherent contact line fluctuation and unveil the mechanism of enhanced energy dissipation in nanoscale, whereas such effect would become insignificant in macroscale. Moreover, regarding a liquid droplet on hydrophobic or superhydrophobic surfaces, an approximate solution to the base radius development was derived by an asymptotic expansion approach.
Perez-Benito, Joaquin F; Mulero-Raichs, Mar
2016-10-06
Many kinetic studies concerning homologous reaction series report the existence of an activation enthalpy-entropy linear correlation (compensation plot), its slope being the temperature at which all the members of the series have the same rate constant (isokinetic temperature). Unfortunately, it has been demonstrated by statistical methods that the experimental errors associated with the activation enthalpy and entropy are mutually interdependent. Therefore, the possibility that some of those correlations might be caused by accidental errors has been explored by numerical simulations. As a result of this study, a computer program has been developed to evaluate the probability that experimental errors might lead to a linear compensation plot parting from an initial randomly scattered set of activation parameters (p-test). Application of this program to kinetic data for 100 homologous reaction series extracted from bibliographic sources has allowed concluding that most of the reported compensation plots can hardly be explained by the accumulation of experimental errors, thus requiring the existence of a previously existing, physically meaningful correlation.
Unbinding Kinetics of a p38 MAP Kinase Type II Inhibitor from Metadynamics Simulations.
Casasnovas, Rodrigo; Limongelli, Vittorio; Tiwary, Pratyush; Carloni, Paolo; Parrinello, Michele
2017-04-05
Understanding the structural and energetic requisites of ligand binding toward its molecular target is of paramount relevance in drug design. In recent years, atomistic free energy calculations have proven to be a valid tool to complement experiments in characterizing the thermodynamic and kinetic properties of protein/ligand interaction. Here, we investigate, through a recently developed metadynamics-based protocol, the unbinding mechanism of an inhibitor of the pharmacologically relevant target p38 MAP kinase. We provide a thorough description of the ligand unbinding pathway identifying the most stable binding mode and other thermodynamically relevant poses. From our simulations, we estimated the unbinding rate as k off = 0.020 ± 0.011 s -1 . This is in good agreement with the experimental value (k off = 0.14 s -1 ). Next, we developed a Markov state model that allowed identifying the rate-limiting step of the ligand unbinding process. Our calculations further show that the solvation of the ligand and that of the active site play crucial roles in the unbinding process. This study paves the way to investigations on the unbinding dynamics of more complex p38 inhibitors and other pharmacologically relevant inhibitors in general, demonstrating that metadynamics can be a powerful tool in designing new drugs with engineered binding/unbinding kinetics.
Thermodynamic modeling and kinetics simulation of precipitate phases in AISI 316 stainless steels
International Nuclear Information System (INIS)
Yang, Y.; Busby, J.T.
2014-01-01
This work aims at utilizing modern computational microstructural modeling tools to accelerate the understanding of phase stability in austenitic steels under extended thermal aging. Using the CALPHAD approach, a thermodynamic database OCTANT (ORNL Computational Thermodynamics for Applied Nuclear Technology), including elements of Fe, C, Cr, Ni, Mn, Mo, Si, and Ti, has been developed with a focus on reliable thermodynamic modeling of precipitate phases in AISI 316 austenitic stainless steels. The thermodynamic database was validated by comparing the calculated results with experimental data from commercial 316 austenitic steels. The developed computational thermodynamics was then coupled with precipitation kinetics simulation to understand the temporal evolution of precipitates in austenitic steels under long-term thermal aging (up to 600,000 h) at a temperature regime from 300 to 900 °C. This study discusses the effect of dislocation density and difusion coefficients on the precipitation kinetics at low temperatures, which shed a light on investigating the phase stability and transformation in austenitic steels used in light water reactors
Monte Carlo simulation of kinetic electron emission from metal due to impact of heavy ions
International Nuclear Information System (INIS)
Kawata, J.; Ohya, K.
1999-01-01
A Monte Carlo simulation is performed for study of the dependence of kinetic electron emission on nuclear charge of projectile Z 1 , using the nonlinear response theory with the density-functional (DF) formalism to calculate electron excitation cross section. The kinetic yield, energy distribution, excitation depth distribution and emission statistics of emitted electrons showed clear Z 1 oscillations, however, the Z 1 oscillations of them are different from that of the inelastic stopping power, in particular for high Z 1 , due to large elastic energy loss of the ions and secondary cascade process of primary excited electrons within the solid. For high Z 1 , the linear relationship does not exist between them and the inelastic stopping power, although they are closely related to it. The emission of high-energy primary electrons excited by the ion within shallow depth without experiencing the secondary cascade process, results in the Z 1 dependence in the energy distribution, excitation depth distribution and emission statistics of emitted electrons
Kinetic turbulence simulations at extreme scale on leadership-class systems
Energy Technology Data Exchange (ETDEWEB)
Wang, Bei [Princeton Univ., Princeton, NJ (United States); Ethier, Stephane [Princeton Plasma Physics Lab. (PPPL), Princeton, NJ (United States); Tang, William [Princeton Univ., Princeton, NJ (United States); Princeton Plasma Physics Lab. (PPPL), Princeton, NJ (United States); Williams, Timothy [Argonne National Lab. (ANL), Argonne, IL (United States); Ibrahim, Khaled Z. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Madduri, Kamesh [The Pennsylvania State Univ., University Park, PA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Williams, Samuel [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Oliker, Leonid [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
2013-01-01
Reliable predictive simulation capability addressing confinement properties in magnetically confined fusion plasmas is critically-important for ITER, a 20 billion dollar international burning plasma device under construction in France. The complex study of kinetic turbulence, which can severely limit the energy confinement and impact the economic viability of fusion systems, requires simulations at extreme scale for such an unprecedented device size. Our newly optimized, global, ab initio particle-in-cell code solving the nonlinear equations underlying gyrokinetic theory achieves excellent performance with respect to "time to solution" at the full capacity of the IBM Blue Gene/Q on 786,432 cores of Mira at ALCF and recently of the 1,572,864 cores of Sequoia at LLNL. Recent multithreading and domain decomposition optimizations in the new GTC-P code represent critically important software advances for modern, low memory per core systems by enabling routine simulations at unprecedented size (130 million grid points ITER-scale) and resolution (65 billion particles).
Numazawa, Satoshi; Smith, Roger
2011-10-01
Classical harmonic transition state theory is considered and applied in discrete lattice cells with hierarchical transition levels. The scheme is then used to determine transitions that can be applied in a lattice-based kinetic Monte Carlo (KMC) atomistic simulation model. The model results in an effective reduction of KMC simulation steps by utilizing a classification scheme of transition levels for thermally activated atomistic diffusion processes. Thermally activated atomistic movements are considered as local transition events constrained in potential energy wells over certain local time periods. These processes are represented by Markov chains of multidimensional Boolean valued functions in three-dimensional lattice space. The events inhibited by the barriers under a certain level are regarded as thermal fluctuations of the canonical ensemble and accepted freely. Consequently, the fluctuating system evolution process is implemented as a Markov chain of equivalence class objects. It is shown that the process can be characterized by the acceptance of metastable local transitions. The method is applied to a problem of Au and Ag cluster growth on a rippled surface. The simulation predicts the existence of a morphology-dependent transition time limit from a local metastable to stable state for subsequent cluster growth by accretion. Excellent agreement with observed experimental results is obtained.
A simulation of low-frequency electromagnetic phenomena in kinetic plasmas of three dimensions
International Nuclear Information System (INIS)
Tanaka, Motohiko
1993-01-01
An advanced kinetic simulation method has been developed and implemented in the HIDENEK code to study large space-scale, low-frequency electromagnetic phenomena occurring in inhomogeneous plasmas. The present method is specially designed for high magnetic field (ω ce ≥ω pe ), inhomogeneous plasma simulations. The guiding-center approximation with magnetic drifts is adopted to the perpendicular motion of the electrons, whereas the inertia effect is retained in their parallel motion. Also, a slightly backward time-decentered scheme is introduced to the equations of motion and the Maxwell equations. These equations are combined to yield the full-implicit, coupled field-particle equations which allow us to determine the future electromagnetic field in a large time step compared to the electron time scales with the diamagnetic drift and magnetization currents being included. As a demonstration of the present simulation method, three physics applications are shown for the electromagnetic beam-plasma instability, the temperature anisotropy-driven Alfven-ion-cyclotron instability, and the external kind instability of the peaked-density current beam. A remarkable pitch-angle scattering of the ions is observed in the first two applications in association with the plasma instabilities. In the third application to an inhomogeneous, finite-beta plasma of the three dimensions, a helical deformation is shown to take place to the initially straight beam and magnetic axis in an ideal magnetohydrodynamic time scale. 36 refs., 12 figs., 1 tab
Nonlinear simulation of magnetic reconnection with a drift kinetic electron model
International Nuclear Information System (INIS)
Zwingmann, W.; Ottaviani, M.
2004-01-01
The process of reconnection allows for a change of magnetic topology inside a plasma. It is an important process for eruptive phenomena in astrophysical plasma, and the sawtooth relaxation in laboratory plasma close to thermonuclear conditions. The sawtooth relaxation is associated with the collisionless electron tearing instability, caused by the electron inertia. A thorough treatment therefore requires a kinetic model for the electron dynamics. In this contribution, we report on the numerical simulation of the electron tearing instability by solving the Vlasov equation directly. The results confirm results of an early paper on the same subject, and extends them to smaller values of the collision skin depth d e = 0.25. Our results suggest a faster than exponential growth in the early nonlinear phase of the instability. We observe as well an asymmetry of the resulting fields. It seems, however, that the field structure becomes closer to the fluid case for small values of d e
Increase of ion kinetic temperature across a collisionless shock. II - A simulation study
Lee, L. C.; Mandt, M. E.; Wu, C. S.
1987-01-01
The present paper is a continuation of the preceding article by Lee et al., (1986) in which it is suggested that the nonadiabatic motion of the directly transmitted ions in a quasi-perpendicular shock wave can result in an increase of the ion kinetic temperature transverse to the ambient magnetic field in the downstream. A series of computer simulations based on a hybrid code have been carried out to examine the dynamics of the transmitted ions in both the subcritical and supercritical shock waves. It is found that, in both cases, the directly transmitted ions can contribute to the heating process. In the case of a resistiveless supercritical shock, the reflected and transmitted ions can be equally important; whereas for a subcritical shock, the transmitted ions are primarily responsible for the ion heating.
Angelidis, Dionysios; Sotiropoulos, Fotis
2015-11-01
The geometrical details of wind turbines determine the structure of the turbulence in the near and far wake and should be taken in account when performing high fidelity calculations. Multi-resolution simulations coupled with an immersed boundary method constitutes a powerful framework for high-fidelity calculations past wind farms located over complex terrains. We develop a 3D Immersed-Boundary Adaptive Mesh Refinement flow solver (IB-AMR) which enables turbine-resolving LES of wind turbines. The idea of using a hybrid staggered/non-staggered grid layout adopted in the Curvilinear Immersed Boundary Method (CURVIB) has been successfully incorporated on unstructured meshes and the fractional step method has been employed. The overall performance and robustness of the second order accurate, parallel, unstructured solver is evaluated by comparing the numerical simulations against conforming grid calculations and experimental measurements of laminar and turbulent flows over complex geometries. We also present turbine-resolving multi-scale LES considering all the details affecting the induced flow field; including the geometry of the tower, the nacelle and especially the rotor blades of a wind tunnel scale turbine. This material is based upon work supported by the Department of Energy under Award Number DE-EE0005482 and the Sandia National Laboratories.
Kinetics programs for simulation of tropospheric photochemistry on the global scale
Energy Technology Data Exchange (ETDEWEB)
Elliott, S.; Kao, C.Y.J. [Los Alamos National Lab., NM (US); Turco, R.P.; Zhao, X.P. [California Univ., Los Angeles, CA (US). Dept. of Atmospheric Sciences
1993-08-01
The study of tropospheric kinetics underlies global change because key greenhouse gases are photochemically active. Modeling of tropospheric chemistry on a global scale is essential because some indirect greenhouse gases are short-lived and interact in a non-linear fashion. It is also extremely challenging, however; the global change grid is extensive in both the physical and temporal domains, and critical lower atmospheric species include the organics and their oxidized derivatives, which are numerous. Several types of optimization may be incorporated into kinetics modules to enhance their ability to simulate the complete lower atmospheric gas phase chemical system. (1) The photochemical integrator can be accelerated by avoiding matrix and iterative solutions and by establishing families. Accuracy and mass conservation are sacrificed in the absence of iteration, but atom balancing is restorable post hoc. (2) Chemistry can be arranged upon the massive grid to exploit parallel processing, and solutions to its continuity equations can be automated to permit experimentation with species and reaction lists or family definitions. Costs in programming effort will be incurred in these cases. (3) Complex hydrocarbon decay sequences can be streamlined either through structural lumping methods descended from smog investigations, which require considerable calibration, or by defining surrogates for classes of compounds, with a loss in constituent detail. From among the available options, the most advantageous permutations will vary with the specific nature of any eventual global scale study, and there is likely to be demand for many approaches. Tracer transport codes serve as a foundation upon which tropospheric chemistry packages will be tested. Encroachment of the NO{sub x} sphere of influence upon tropical rain forests and the upper free troposphere are two examples of specific problems to which full three-dimensional chemical simulations might be applied.
Kinetics programs for simulation of tropospheric photochemistry on the global scale
International Nuclear Information System (INIS)
Elliott, S.; Kao, C.Y.J.; Turco, R.P.; Zhao, X.P.
1993-08-01
The study of tropospheric kinetics underlies global change because key greenhouse gases are photochemically active. Modeling of tropospheric chemistry on a global scale is essential because some indirect greenhouse gases are short-lived and interact in a non-linear fashion. It is also extremely challenging, however; the global change grid is extensive in both the physical and temporal domains, and critical lower atmospheric species include the organics and their oxidized derivatives, which are numerous. Several types of optimization may be incorporated into kinetics modules to enhance their ability to simulate the complete lower atmospheric gas phase chemical system. (1) The photochemical integrator can be accelerated by avoiding matrix and iterative solutions and by establishing families. Accuracy and mass conservation are sacrificed in the absence of iteration, but atom balancing is restorable post hoc. (2) Chemistry can be arranged upon the massive grid to exploit parallel processing, and solutions to its continuity equations can be automated to permit experimentation with species and reaction lists or family definitions. Costs in programming effort will be incurred in these cases. (3) Complex hydrocarbon decay sequences can be streamlined either through structural lumping methods descended from smog investigations, which require considerable calibration, or by defining surrogates for classes of compounds, with a loss in constituent detail. From among the available options, the most advantageous permutations will vary with the specific nature of any eventual global scale study, and there is likely to be demand for many approaches. Tracer transport codes serve as a foundation upon which tropospheric chemistry packages will be tested. Encroachment of the NO x sphere of influence upon tropical rain forests and the upper free troposphere are two examples of specific problems to which full three-dimensional chemical simulations might be applied
Schwinger, Jörg; Tjiputra, Jerry; Goris, Nadine; Six, Katharina D.; Kirkevåg, Alf; Seland, Øyvind; Heinze, Christoph; Ilyina, Tatiana
2017-08-01
We estimate the additional transient surface warming ΔTs caused by a potential reduction of marine dimethyl sulfide (DMS) production due to ocean acidification under the high-emission scenario RCP8.5 until the year 2200. Since we use a fully coupled Earth system model, our results include a range of feedbacks, such as the response of marine DMS production to the additional changes in temperature and sea ice cover. Our results are broadly consistent with the findings of a previous study that employed an offline model set-up. Assuming a medium (strong) sensitivity of DMS production to pH, we find an additional transient global warming of 0.30 K (0.47 K) towards the end of the 22nd century when DMS emissions are reduced by 7.3 Tg S yr-1 or 31 % (11.5 Tg S yr-1 or 48 %). The main mechanism behind the additional warming is a reduction of cloud albedo, but a change in shortwave radiative fluxes under clear-sky conditions due to reduced sulfate aerosol load also contributes significantly. We find an approximately linear relationship between reduction of DMS emissions and changes in top of the atmosphere radiative fluxes as well as changes in surface temperature for the range of DMS emissions considered here. For example, global average Ts changes by -0. 041 K per 1 Tg S yr-1 change in sea-air DMS fluxes. The additional warming in our model has a pronounced asymmetry between northern and southern high latitudes. It is largest over the Antarctic continent, where the additional temperature increase of 0.56 K (0.89 K) is almost twice the global average. We find that feedbacks are small on the global scale due to opposing regional contributions. The most pronounced feedback is found for the Southern Ocean, where we estimate that the additional climate change enhances sea-air DMS fluxes by about 9 % (15 %), which counteracts the reduction due to ocean acidification.
Directory of Open Access Journals (Sweden)
J. Schwinger
2017-08-01
Full Text Available We estimate the additional transient surface warming ΔTs caused by a potential reduction of marine dimethyl sulfide (DMS production due to ocean acidification under the high-emission scenario RCP8.5 until the year 2200. Since we use a fully coupled Earth system model, our results include a range of feedbacks, such as the response of marine DMS production to the additional changes in temperature and sea ice cover. Our results are broadly consistent with the findings of a previous study that employed an offline model set-up. Assuming a medium (strong sensitivity of DMS production to pH, we find an additional transient global warming of 0.30 K (0.47 K towards the end of the 22nd century when DMS emissions are reduced by 7.3 Tg S yr−1 or 31 % (11.5 Tg S yr−1 or 48 %. The main mechanism behind the additional warming is a reduction of cloud albedo, but a change in shortwave radiative fluxes under clear-sky conditions due to reduced sulfate aerosol load also contributes significantly. We find an approximately linear relationship between reduction of DMS emissions and changes in top of the atmosphere radiative fluxes as well as changes in surface temperature for the range of DMS emissions considered here. For example, global average Ts changes by −0. 041 K per 1 Tg S yr−1 change in sea–air DMS fluxes. The additional warming in our model has a pronounced asymmetry between northern and southern high latitudes. It is largest over the Antarctic continent, where the additional temperature increase of 0.56 K (0.89 K is almost twice the global average. We find that feedbacks are small on the global scale due to opposing regional contributions. The most pronounced feedback is found for the Southern Ocean, where we estimate that the additional climate change enhances sea–air DMS fluxes by about 9 % (15 %, which counteracts the reduction due to ocean acidification.
International Nuclear Information System (INIS)
Barros, R.C. de.
1992-05-01
Presented here is a new numerical nodal method for the simulation of the axial power distribution within nuclear reactors using the one-dimensional one speed kinetics diffusion model with one group of delayed neutron precursors. Our method is based on a spectral analysis of the nodal kinetics equations. These equations are obtained by integrating the original kinetics equations separately over a time step and over a spatial node, and then considering flat approximations for the forward difference terms. These flat approximations are the only approximations that are considered in the method. As a result, the spectral nodal method for space - time reactor kinetics generates numerical solutions for space independent problems or for time independent problems that are completely free from truncation errors. We show numerical results to illustrate the method's accuracy for coarse mesh calculations. (author)
Veneziani, C.; Kurtakoti, P. K.; Weijer, W.; Stoessel, A.
2016-12-01
In contrast to their better known coastal counterpart, open ocean polynyas (OOPs) form through complex driving mechanisms, involving pre-conditioning of the water column, external forcing and internal ocean dynamics, and are therefore much more elusive and less predictable than coastal polynyas. Yet, their impact on bottom water formation and the Meridional Overturning Circulation could prove substantial. Here, we characterize the formation of Southern Ocean OOPs by analyzing the full satellite NASA microwave imager and radiometer (SSMI/SMMR) data record from 1972 to present day. We repeat the same analysis within the low-resolution (LR) and high-resolution (HR) fully-coupled Earth System Model simulations that are part of the Accelerated Climate Model for Energy (ACME) v0 baseline experiments. The focus is on two OOPs that are more consistently seen in observations: the Maud Rise and the Weddell Sea polynyas. Results show that the LR simulation is unable to reproduce any OOP over the 195 years of its duration, while both Maud Rise and Weddell Sea polynyas are seen in the HR simulation, with extents similar to observations'. We explore possible mechanisms that would explain the asymmetric behavior, including topographic processes, eddy shedding events, and different water column stratification between the two simulations.
Model to simulate high temperature oxidation kinetics of zircaloy-4. Parabolic and linear behaviour
Energy Technology Data Exchange (ETDEWEB)
Denis, A.; Moyano, E.; Gracia, A. (Comision Nacional de Energia Atomica, Buenos Aires (Argentina). Departamento de Materiales)
1982-09-01
A calculation code to simulate parabolic and linear behaviour of Zircaloy-4 oxidation between 600 and 862/sup 0/C in water vapour was developed. This code consists of solving the diffusion equations by the finite-difference method. This method in its explicit version was employed previously, but this type of calculation becomes impracticable with present-day computers when attempts are made to simulate long-term experiments (24 h). This is why the implicit finite-difference method is proposed here: this method has the advantage of drastically reducing the calculation time. The code allowed us to calculate the relationship between the oxygen mass in the ..cap alpha..-phase to the total oxygen mass, the oxide thickness and the diffusion profile of oxygen in the ..cap alpha..-phase. The results obtained with the model are compared with experimental data existing in the literature for Zircaloy-4, although it could be applied to pure zirconium or other zirconium alloys if more experimental data were available. The singular behaviour of the diffusion profiles in the ..cap alpha..-phase during linear kinetics is particularly analyzed. This work is part of a programme to study the oxide-metal interface movement during vapour oxidation of Zircaloy-4 subjected to temperature transients. Knowledge of this is of vital importance for evaluating mechanical properties of fuel claddings during possible loss of coolant accidents in nuclear power reactors.
Effect of Cd2+on tyrosinase: Integration of inhibition kinetics with computational simulation.
Yue, Li-Mei; Lee, Jinhyuk; Lü, Zhi-Rong; Yang, Jun-Mo; Ye, Zhuo-Ming; Park, Yong-Doo
2017-01-01
Cadmium ions (Cd 2+ ) are a widespread and easily absorbed toxin to both humans and animals that can be spread via food, water, and air pollution. Tyrosinase (EC 1.14.18.1) is a multifunctional copper-containing enzyme that is ubiquitously expressed in animals and plays a critical role in melanin production. We evaluated the toxic effects of Cd 2+ on tyrosinase activity and conformation by measuring kinetics and computationally simulating the interactions. We found Cd 2+ to be a slope-hyperbolic noncompetitive-inhibition reversible inhibitor of tyrosinase, with an IC 50 of 2.92±0.16mM and K i of 0.23±0.02mM. Spectrofluorimetric measurements of intrinsic and ANS-binding fluorescence showed that Cd 2+ did not induce significant changes to tyrosinase overall or to its regional active site conformations. Cd 2+ showed its inactivation effect not by modulating apparent structural changes to tyrosinase, but by occupying binding sites. To gain further insight into the Cd 2+ /tyrosinase interaction, we performed computational docking and molecular dynamics simulations. The results consistently indicated that Cd 2+ can interact with several residues near the tyrosinase active site, primarily HIS85 and ASN260. Our study provides insight into the mechanism of the toxic effects Cd 2+ has on tyrosinase, which could affect the normal pigmentation pathway in animals. Copyright © 2016 Elsevier B.V. All rights reserved.
Kinetic Monte Carlo Potts Model for Simulating a High Burnup Structure in UO2
International Nuclear Information System (INIS)
Oh, Jae-Yong; Koo, Yang-Hyun; Lee, Byung-Ho
2008-01-01
A Potts model, based on the kinetic Monte Carlo method, was originally developed for magnetic domain evolutions, but it was also proposed as a model for a grain growth in polycrystals due to similarities between Potts domain structures and grain structures. It has modeled various microstructural phenomena such as grain growths, a recrystallization, a sintering, and so on. A high burnup structure (HBS) is observed in the periphery of a high burnup UO 2 fuel. Although its formation mechanism is not clearly understood yet, its characteristics are well recognized: The HBS microstructure consists of very small grains and large bubbles instead of original as-sintered grains. A threshold burnup for the HBS is observed at a local burnup 60-80 Gwd/tM, and the threshold temperature is 1000-1200 .deg. C. Concerning a energy stability, the HBS can be created if the system energy of the HBS is lower than that of the original structure in an irradiated UO 2 . In this paper, a Potts model was implemented for simulating the HBS by calculating system energies, and the simulation results were compared with the HBS characteristics mentioned above
Kinetic Monte Carlo Simulations of Diffusion in Environmental Barrier Coating Materials
Good, Brian
2017-01-01
Ceramic Matrix Components (CMC) components for use in turbine engines offer a number of advantages compared with current practice. However, such components are subject to degradation through a variety of mechanisms. In particular, in the hot environment inside a turbine in operation a considerable amount of water vapor is present, and this can lead to corrosion and recession. Environmental Barrier Coating (EBC) systems that limit the amount of oxygen and water reaching the component are required to reduce this degradation and extend component life. A number of silicate-based materials are under consideration for use in such coating systems, including Yttterbium and Yttrium di- and monosilicates. In this work, we present results of kinetic Monte Carlo computer simulations of oxygen diffusion in Yttrium disilicate, and compare with previous work on Yttterbium disilicate. Coatings may also exhibit cracking, and the cracks can provide a direct path for oxygen to reach the component. There is typically a bond coat between the coating and component surface, but the bond coat material is generally chosen for properties other than low oxygen diffusivity. Nevertheless, the degree to which the bond coat can inhibit oxygen diffusion is of interest, as it may form the final defense against oxygen impingement on the component. We have therefore performed similar simulations of oxygen diffusion through HfSiO4, a proposed bond coat material.
Vescovi, Dalila; Berzi, Diego; Richard, Patrick; Brodu, Nicolas
2014-01-01
International audience; We use existing 3D Discrete Element simulations of simple shear flows of spheres to evaluate the radial distribution function at contact that enables kinetic theory to correctly predict the pressure and the shear stress, for different values of the collisional coefficient of restitution. Then, we perform 3D Discrete Element simulations of plane flows of frictionless, inelastic spheres, sheared between walls made bumpy by gluing particles in a regular array, at fixed av...
DEFF Research Database (Denmark)
Rolsted, Kamilla; Rapin, Nicolas; Steffansen, Bente
2011-01-01
Substances that compete for the same saturable intestinal transporters may when dosed together lead to altered permeability and hence influence bioavailability. The aim was to simulate kinetic parameters, i.e. K(m) and J(max), for transporter mediated E(1)S permeability across Caco-2 cells...
DENSE MULTIPHASE FLOW SIMULATION: CONTINUUM MODEL FOR POLY-DISPERSED SYSTEMS USING KINETIC THEORY
Energy Technology Data Exchange (ETDEWEB)
Moses Bogere
2011-08-31
The overall objective of the project was to verify the applicability of the FCMOM approach to the kinetic equations describing the particle flow dynamics. For monodispersed systems the fundamental equation governing the particle flow dynamics is the Boltzmann equation. During the project, the FCMOM was successfully applied to several homogeneous and in-homogeneous problems in different flow regimes, demonstrating that the FCMOM has the potential to be used to solve efficiently the Boltzmann equation. However, some relevant issues still need to be resolved, i.e. the homogeneous cooling problem (inelastic particles cases) and the transition between different regimes. In this report, the results obtained in homogeneous conditions are discussed first. Then a discussion of the validation results for in-homogeneous conditions is provided. And finally, a discussion will be provided about the transition between different regimes. Alongside the work on development of FCMOM approach studies were undertaken in order to provide insights into anisotropy or particles kinetics in riser hydrodynamics. This report includes results of studies of multiphase flow with unequal granular temperatures and analysis of momentum re-distribution in risers due to particle-particle and fluid-particle interactions. The study of multiphase flow with unequal granular temperatures entailed both simulation and experimental studies of two particles sizes in a riser and, a brief discussion of what was accomplished will be provided. And finally, a discussion of the analysis done on momentum re-distribution of gas-particles flow in risers will be provided. In particular a discussion of the remaining work needed in order to improve accuracy and predictability of riser hydrodynamics based on two-fluid models and how they can be used to model segregation in risers.
Kunz, Sebastian N; Arborelius, Ulf P; Gryth, Dan; Sonden, Anders; Gustavsson, Jenny; Wangyal, Tashi; Svensson, Leif; Rocksén, David
2011-11-01
Cardiac-related injuries caused by blunt chest trauma remain a severe problem. The aim of this study was to investigate pathophysiological changes in the heart that might arise after behind armor blunt trauma or impacts of nonlethal projectiles. Sixteen pigs were shot directly at the sternum with "Sponge Round eXact I Mpact" (nonlethal ammunition; diameter 40 mm and weight 28 g) or hard-plastic ammunition (diameter 65 mm and weight 58 g) to simulate behind armor blunt trauma. To evaluate the influence of the shot location, seven additional pigs where exposed to an oblique heart shot. Physiologic parameters, electrocardiography, echocardiogram, the biochemical marker troponin I (TnI), and myocardial injuries were analyzed. Nonlethal kinetic projectiles (101-108 m/s; 143-163 J) did not cause significant pathophysiological changes. Five of 18 pigs shot with 65-mm plastic projectiles (99-133 m/s; 284-513 J) to the front or side of the thorax died directly after the shot. No major physiologic changes could be observed in surviving animals. Animals shot with an oblique heart shot (99-106 m/s; 284-326 J) demonstrated a small, but significant decrease in saturation. Energy levels over 300 J caused increased TnI and myocardial damages in most of the pigs. This study indicates that nonlethal kinetic projectiles "eXact iMpact" does not cause heart-related damage under the examined conditions. On impact, sudden heart arrest may occur independently from the cardiac's electrical cycle. The cardiac enzyme, TnI, can be used as a reliable diagnostic marker to detect heart tissue damages after blunt chest trauma.
Treatment of simulated odor from RDF plant using ashumale kinetic modelling
International Nuclear Information System (INIS)
Mohd Nahar Othman; Muhd Noor Muhd Yunus; Ku Halim Ku Hamid
2010-01-01
The impact of ambient odour in the vicinity of the Semenyih MSW processing plant, commonly known as RDF plant, can be very negative to the nearby population, causing public restlessness and consequently affecting the business operation and sustain ability of the plant. The precise source of the odour, types, emission level and the meteorological conditions are needed to predict and established the ambient odour level at the perimeter fence of the plant and address it with respect to the ambient standards. To develop the odour gas model for the purpose of treatment is very compulsory because in MSW odour it contain many component of chemical that contribute the smell. Upon modelling using an established package as well as site measurements, the odour level at the perimeter fence of the plant was deduced and found to be marginally high, above the normal ambient level. Based on this issue, a study was made to evaluate the possibility of treating odour using Electron Beam Process. This paper will address and discuss the measurement of ambient concentration of three chemical components of the odour, namely benzene, dimethyl sulfide and trimethyl amine, the dispersion modeling to establish the critical ambient emission level, as well as and kinetic modeling of the treatment process and its experimental validation using a simulated odour. The focus will be made on exploring the use of Ashmuli kinetic modeling to develop correlations between the odour concentrations, odour chemical compositions and electron beam dose with the treatment efficiency, as well as adapting the model for MSW odour controls. (author)
Simulation of uranium oxides reduction kinetics by hydrogen. Reactivities of germination and growth
International Nuclear Information System (INIS)
Brun, C.
1997-01-01
The aim of this work is to simulate the reduction by hydrogen of the tri-uranium octo-oxide U 3 O 8 (obtained by uranium trioxide calcination) into uranium dioxide. The kinetics curves have been obtained by thermal gravimetric analysis, the hydrogen and steam pressures being defined. The geometrical modeling which has allowed to explain the trend of the kinetics curves and of the velocity curves is an anisotropic germination-growth modeling. The powder is supposed to be formed of spherical grains with the same radius. The germs of the new UO 2 phase appear at the surface of the U 3 O 8 grains with a specific germination frequency. The growth reactivity is anisotropic and is very large in the tangential direction to the grains surface. Then, the uranium dioxide growths inside the grain and the limiting step is the grain surface. The variations of the growth reactivity and of the germination specific frequency in terms of the gases partial pressures and of the temperature have been explained by two different mechanisms. The limiting step of the growth mechanism is the desorption of water in the uranium dioxide surface. Concerning the germination mechanism the limiting step is a water desorption too but in the tri-uranium octo-oxide surface. The same geometrical modeling and the same germination and growth mechanisms have been applied to the reduction of a tri-uranium octo-oxide obtained by calcination of hydrated uranium trioxide. The values of the germination specific frequency of this solid are nevertheless weaker than those of the solid obtained by direct calcination of the uranium trioxide. (O.M.)
Zobnin, A. V.; Usachev, A. D.; Petrov, O. F.; Fortov, V. E.; Thoma, M. H.; Fink, M. A.
2018-03-01
The influence of a dust cloud on the structure of the positive column of a direct current gas discharge in a cylindrical glass tube under milligravity conditions has been studied both experimentally and numerically. The discharge was produced in neon at 60 Pa in a glass tube with a diameter of 30 mm at a discharge current 1 mA. Spherical monodisperse melamine formaldehyde dust particles with a diameter of 6.86 μm were injected into the positive column and formed there a uniform dust cloud with a maximum diameter of 14.4 mm. The shape of the cloud and the dust particle number density were measured. The cloud was stationary in the radial direction and slowly drifted in the axial direction. It was found that in the presence of the dust cloud, the intensity of the neon spectral line with a wavelength by 585.25 nm emitted by the discharge plasma increased by 2.3 times and 2 striations appeared on the anode side of the cloud. A numerical simulation of the discharge was performed using the 2D (quasi-3D) nonlocal self-consistent kinetic model of a longitudinally inhomogeneous axially symmetric positive column [Zobnin et al., Phys. Plasmas 21, 113503 (2014)], which was supplemented by a program module performing a self-consistent calculation of dust particle charges, the plasma recombination rate on dust particles, and ion scattering on dust particles. A new approach to the calculation of particle charges and the screening radius in dense dust clouds is proposed. The results of the simulation are presented, compared with experimental data and discussed. It is demonstrated that for the best agreement between simulated and experimental data, it is necessary to take into account the reflection of electrons from the dust particle surface in order to correctly describe the recombination rate in the cloud, its radial stability, and the dust particle charges.
Energy Technology Data Exchange (ETDEWEB)
Yong, Li [State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023 (China); Zhanqi, Gao [State Environmental Protection Key Laboratory of Monitoring and Analysis for Organic Pollutants in Surface Water, Jiangsu Provincial Environmental Monitoring Center, Nanjing 210036 (China); Yuefei, Ji [State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023 (China); Xiaobin, Hu [School of Life Science, Huzhou University, Huzhou 313000 (China); Cheng, Sun, E-mail: envidean@nju.edu.cn [State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023 (China); Shaogui, Yang; Lianhong, Wang; Qingeng, Wang; Die, Fang [State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023 (China)
2015-03-21
Highlights: • Photofate of malachite green was studied under simulated and natural irradiation. • Favorable conditions for degradation were optimized by the orthogonal array design. • Main ROS for the decomposition were determined by free radical quenchers. • Fifty-three products were determined by LC–MS and GC–MS. • Pathways were proposed with the aid of theoretical calculation. - Abstract: In this work photodegradation rates and pathways of malachite green were studied under simulated and solar irradiation with the goal of assessing the potential of photolysis as a removal mechanism in real aquatic environment. Factors influencing the photodegradation process were investigated, including pH, humic acid, Fe{sup 2+}, Ca{sup 2+}, HCO{sub 3}{sup −}, and NO{sub 3}{sup −}, of which favorable conditions were optimized by the orthogonal array design under simulated sunlight irradiation in the presence of dissolved oxygen. The degradation processes of malachite green conformed to pseudo first-order kinetics and their degradation rate constants were between 0.0062 and 0.4012 h{sup −1}. Under solar irradiation, the decolorization efficiency of most tests can reach almost 100%, and relatively thorough mineralization could be observed. Forty degradation products were detected by liquid chromatography–mass spectrometry, and thirteen small molecular products were identified by gas chromatography–mass spectrometry. Based on the analyses of the degradation products and calculation of the frontier electron density, the pathways were proposed: decomposition of conjugated structure, N-demethylation reactions, hydroxyl addition reactions, the removal of benzene ring, and the ring-opening reaction. This study has provided a reference, both for photodegradation of malachite green and future safety applications and predictions of decontamination of related triphenylmethane dyes under real conditions.
Three-dimensional kinetic Monte Carlo simulations of diamond chemical vapor deposition.
Rodgers, W J; May, P W; Allan, N L; Harvey, J N
2015-06-07
A three-dimensional kinetic Monte Carlo model has been developed to simulate the chemical vapor deposition of a diamond (100) surface under conditions used to grow single-crystal diamond (SCD), microcrystalline diamond (MCD), nanocrystalline diamond (NCD), and ultrananocrystalline diamond (UNCD) films. The model includes adsorption of CHx (x = 0, 3) species, insertion of CHy (y = 0-2) into surface dimer bonds, etching/desorption of both transient adsorbed species and lattice sidewalls, lattice incorporation, and surface migration but not defect formation or renucleation processes. A value of ∼200 kJ mol(-1) for the activation Gibbs energy, ΔG(‡) etch, for etching an adsorbed CHx species reproduces the experimental growth rate accurately. SCD and MCD growths are dominated by migration and step-edge growth, whereas in NCD and UNCD growths, migration is less and species nucleate where they land. Etching of species from the lattice sidewalls has been modelled as a function of geometry and the number of bonded neighbors of each species. Choice of appropriate parameters for the relative decrease in etch rate as a function of number of neighbors allows flat-bottomed etch pits and/or sharp-pointed etch pits to be simulated, which resemble those seen when etching diamond in H2 or O2 atmospheres. Simulation of surface defects using unetchable, immobile species reproduces other observed growth phenomena, such as needles and hillocks. The critical nucleus for new layer growth is 2 adjacent surface carbons, irrespective of the growth regime. We conclude that twinning and formation of multiple grains rather than pristine single-crystals may be a result of misoriented growth islands merging, with each island forming a grain, rather than renucleation caused by an adsorbing defect species.
Morris, Graham P.
2013-12-17
Fully automated and computer assisted heuristic data analysis approaches have been applied to a series of AC voltammetric experiments undertaken on the [Fe(CN)6]3-/4- process at a glassy carbon electrode in 3 M KCl aqueous electrolyte. The recovered parameters in all forms of data analysis encompass E0 (reversible potential), k0 (heterogeneous charge transfer rate constant at E0), α (charge transfer coefficient), Ru (uncompensated resistance), and Cdl (double layer capacitance). The automated method of analysis employed time domain optimization and Bayesian statistics. This and all other methods assumed the Butler-Volmer model applies for electron transfer kinetics, planar diffusion for mass transport, Ohm\\'s Law for Ru, and a potential-independent Cdl model. Heuristic approaches utilize combinations of Fourier Transform filtering, sensitivity analysis, and simplex-based forms of optimization applied to resolved AC harmonics and rely on experimenter experience to assist in experiment-theory comparisons. Remarkable consistency of parameter evaluation was achieved, although the fully automated time domain method provided consistently higher α values than those based on frequency domain data analysis. The origin of this difference is that the implemented fully automated method requires a perfect model for the double layer capacitance. In contrast, the importance of imperfections in the double layer model is minimized when analysis is performed in the frequency domain. Substantial variation in k0 values was found by analysis of the 10 data sets for this highly surface-sensitive pathologically variable [Fe(CN) 6]3-/4- process, but remarkably, all fit the quasi-reversible model satisfactorily. © 2013 American Chemical Society.
International Nuclear Information System (INIS)
Mallet, J.
2012-01-01
This research thesis stands at the crossroad of plasma physics, numerical analysis and applied mathematics. After an introduction presenting the problematic and previous works, the author recalls some basis of classical kinetic models for plasma physics (collisionless kinetic theory and Vlasov equation, collisional kinetic theory with the non-relativistic Maxwell-Fokker-Plansk system) and describes the fundamental properties of the collision operators such as conservation laws, entropy dissipation, and so on. He reports the improvement of a deterministic numerical method to solve the non-relativistic Vlasov-Maxwell system coupled with Fokker-Planck-Landau type operators. The efficiency of each high order scheme is compared. The evolution of the hot spot is studied in the case of thermonuclear reactions in the centre of the pellet in a weakly collisional regime. The author focuses on the simulation of the kinetic electron collisional transport in inertial confinement fusion (ICF) between the laser absorption zone and the ablation front. A new approach is then introduced to reduce the huge computation time obtained with kinetic models. In a last chapter, the kinetic continuous equation in spherical domain is described and a new model is chosen for collisions in order to preserve collision properties
Energy Technology Data Exchange (ETDEWEB)
Braunschweig, B.
1998-04-22
Numerous scientific and technical domains make constant use of dynamical simulations. Such simulators are put in the hands of a growing number of users. This phenomenon is due both to the extraordinary increase in computing performance, and to better graphical user interfaces which make simulation models easy to operate. But simulators are still computer programs which produce series of numbers from other series of numbers, even if they are displayed graphically. This thesis presents new interaction paradigms between a dynamical simulator and its user. The simulator produces a self-made interpretation of its results, thanks to a dedicated representation of its domain with objects. It shows dominant cyclic mechanisms identified by their instantaneous loop gain estimates, it uses a notion of episodes for splitting the simulation into homogeneous time intervals, and completes this by animations which rely on the graphical structure of the system. These new approaches are demonstrated with examples from chemical kinetics, because of the energic and exemplary characteristics of the encountered behaviors. They are implemented in the Spike software, Software Platform for Interactive Chemical Kinetics Experiments. Similar concepts are also shown in two other domains: interpretation of seismic wave propagation, and simulation of large projects. (author) 95 refs.
Dybeck, Eric C; Plaisance, Craig P; Neurock, Matthew
2017-04-11
A novel algorithm is presented that achieves temporal acceleration during kinetic Monte Carlo (KMC) simulations of surface catalytic processes. This algorithm allows for the direct simulation of reaction networks containing kinetic processes occurring on vastly disparate time scales which computationally overburden standard KMC methods. Previously developed methods for temporal acceleration in KMC were designed for specific systems and often require a priori information from the user such as identifying the fast and slow processes. In the approach presented herein, quasi-equilibrated processes are identified automatically based on previous executions of the forward and reverse reactions. Temporal acceleration is achieved by automatically scaling the intrinsic rate constants of the quasi-equilibrated processes, bringing their rates closer to the time scales of the slow kinetically relevant nonequilibrated processes. All reactions are still simulated directly, although with modified rate constants. Abrupt changes in the underlying dynamics of the reaction network are identified during the simulation, and the reaction rate constants are rescaled accordingly. The algorithm was utilized here to model the Fischer-Tropsch synthesis reaction over ruthenium nanoparticles. This reaction network has multiple time-scale-disparate processes which would be intractable to simulate without the aid of temporal acceleration. The accelerated simulations are found to give reaction rates and selectivities indistinguishable from those calculated by an equivalent mean-field kinetic model. The computational savings of the algorithm can span many orders of magnitude in realistic systems, and the computational cost is not limited by the magnitude of the time scale disparity in the system processes. Furthermore, the algorithm has been designed in a generic fashion and can easily be applied to other surface catalytic processes of interest.
Schalge, Bernd; Rihani, Jehan; Haese, Barbara; Baroni, Gabriele; Erdal, Daniel; Haefliger, Vincent; Lange, Natascha; Neuweiler, Insa; Hendricks-Franssen, Harrie-Jan; Geppert, Gernot; Ament, Felix; Kollet, Stefan; Cirpka, Olaf; Saavedra, Pablo; Han, Xujun; Attinger, Sabine; Kunstmann, Harald; Vereecken, Harry; Simmer, Clemens
2017-04-01
Currently, an integrated approach to simulating the earth system is evolving where several compartment models are coupled to achieve the best possible physically consistent representation. We used the model TerrSysMP, which fully couples subsurface, land surface and atmosphere, in a synthetic study that mimicked the Neckar catchment in Southern Germany. A virtual reality run at a high resolution of 400m for the land surface and subsurface and 1.1km for the atmosphere was made. Ensemble runs at a lower resolution (800m for the land surface and subsurface) were also made. The ensemble was generated by varying soil and vegetation parameters and lateral atmospheric forcing among the different ensemble members in a systematic way. It was found that the ensemble runs deviated for some variables and some time periods largely from the virtual reality reference run (the reference run was not covered by the ensemble), which could be related to the different model resolutions. This was for example the case for river discharge in the summer. We also analyzed the spread of model states as function of time and found clear relations between the spread and the time of the year and weather conditions. For example, the ensemble spread of latent heat flux related to uncertain soil parameters was larger under dry soil conditions than under wet soil conditions. Another example is that the ensemble spread of atmospheric states was more influenced by uncertain soil and vegetation parameters under conditions of low air pressure gradients (in summer) than under conditions with larger air pressure gradients in winter. The analysis of the ensemble of fully coupled model simulations provided valuable insights in the dynamics of land-atmosphere feedbacks which we will further highlight in the presentation.
Wolthers, M.; Di Tommaso, D.; Du, Zhimei; de Leeuw, Nora H.
2013-01-01
It is generally accepted that cation dehydration is the rate-limiting step to crystal growth from aqueous solution. Here we employ classical molecular dynamics simulations to show that the water exchange frequency at structurally distinct calcium sites in the calcite surface varies by about two
An Ab Initio and Kinetic Monte Carlo Simulation Study of Lithium Ion Diffusion on Graphene
Zhong, Kehua; Yang, Yanmin; Xu, Guigui; Zhang, Jian-Min; Huang, Zhigao
2017-01-01
The Li+ diffusion coefficients in Li+-adsorbed graphene systems were determined by combining first-principle calculations based on density functional theory with Kinetic Monte Carlo simulations. The calculated results indicate that the interactions between Li ions have a very important influence on lithium diffusion. Based on energy barriers directly obtained from first-principle calculations for single-Li+ and two-Li+ adsorbed systems, a new equation predicting energy barriers with more than two Li ions was deduced. Furthermore, it is found that the temperature dependence of Li+ diffusion coefficients fits well to the Arrhenius equation, rather than meeting the equation from electrochemical impedance spectroscopy applied to estimate experimental diffusion coefficients. Moreover, the calculated results also reveal that Li+ concentration dependence of diffusion coefficients roughly fits to the equation from electrochemical impedance spectroscopy in a low concentration region; however, it seriously deviates from the equation in a high concentration region. So, the equation from electrochemical impedance spectroscopy technique could not be simply used to estimate the Li+ diffusion coefficient for all Li+-adsorbed graphene systems with various Li+ concentrations. Our work suggests that interactions between Li ions, and among Li ion and host atoms will influence the Li+ diffusion, which determines that the Li+ intercalation dependence of Li+ diffusion coefficient should be changed and complex. PMID:28773122
Kinetic Monte Carlo simulation of single-electron multiple-trapping transport in disordered media
Javadi, Mohammad; Abdi, Yaser
2017-12-01
The conventional single-particle Monte Carlo simulation of charge transport in disordered media is based on the truncated density of localized states (DOLS) which benefits from very short time execution. Although this model successfully clarifies the properties of electron transport in moderately disordered media, it overestimates the electron diffusion coefficient for strongly disordered media. The origin of this deviation is discussed in terms of zero-temperature approximation in the truncated DOLS and the ignorance of spatial occupation of localized states. Here, based on the multiple-trapping regime we introduce a modified single-particle kinetic Monte Carlo model that can be used to investigate the electron transport in any disordered media independent from the value of disorder parameter. In the proposed model, instead of using a truncated DOLS we imply the raw DOLS. In addition, we have introduced an occupation index for localized states to consider the effect of spatial occupation of trap sites. The proposed model is justified in a simple cubic lattice of trap sites for broad interval of disorder parameters, Fermi levels, and temperatures.
Steady state likelihood ratio sensitivity analysis for stiff kinetic Monte Carlo simulations.
Núñez, M; Vlachos, D G
2015-01-28
Kinetic Monte Carlo simulation is an integral tool in the study of complex physical phenomena present in applications ranging from heterogeneous catalysis to biological systems to crystal growth and atmospheric sciences. Sensitivity analysis is useful for identifying important parameters and rate-determining steps, but the finite-difference application of sensitivity analysis is computationally demanding. Techniques based on the likelihood ratio method reduce the computational cost of sensitivity analysis by obtaining all gradient information in a single run. However, we show that disparity in time scales of microscopic events, which is ubiquitous in real systems, introduces drastic statistical noise into derivative estimates for parameters affecting the fast events. In this work, the steady-state likelihood ratio sensitivity analysis is extended to singularly perturbed systems by invoking partial equilibration for fast reactions, that is, by working on the fast and slow manifolds of the chemistry. Derivatives on each time scale are computed independently and combined to the desired sensitivity coefficients to considerably reduce the noise in derivative estimates for stiff systems. The approach is demonstrated in an analytically solvable linear system.
An Ab Initio and Kinetic Monte Carlo Simulation Study of Lithium Ion Diffusion on Graphene
Directory of Open Access Journals (Sweden)
Kehua Zhong
2017-07-01
Full Text Available The Li+ diffusion coefficients in Li+-adsorbed graphene systems were determined by combining first-principle calculations based on density functional theory with Kinetic Monte Carlo simulations. The calculated results indicate that the interactions between Li ions have a very important influence on lithium diffusion. Based on energy barriers directly obtained from first-principle calculations for single-Li+ and two-Li+ adsorbed systems, a new equation predicting energy barriers with more than two Li ions was deduced. Furthermore, it is found that the temperature dependence of Li+ diffusion coefficients fits well to the Arrhenius equation, rather than meeting the equation from electrochemical impedance spectroscopy applied to estimate experimental diffusion coefficients. Moreover, the calculated results also reveal that Li+ concentration dependence of diffusion coefficients roughly fits to the equation from electrochemical impedance spectroscopy in a low concentration region; however, it seriously deviates from the equation in a high concentration region. So, the equation from electrochemical impedance spectroscopy technique could not be simply used to estimate the Li+ diffusion coefficient for all Li+-adsorbed graphene systems with various Li+ concentrations. Our work suggests that interactions between Li ions, and among Li ion and host atoms will influence the Li+ diffusion, which determines that the Li+ intercalation dependence of Li+ diffusion coefficient should be changed and complex.
Carbajal Gomez, Leopoldo; Del-Castillo-Negrete, Diego
2017-10-01
Developing avoidance or mitigation strategies of runaway electrons (RE) for the safe operation of ITER is imperative. Synchrotron radiation (SR) of RE is routinely used in current tokamak experiments to diagnose RE. We present the results of a newly developed camera diagnostic of SR for full-orbit kinetic simulations of RE in DIII-D-like plasmas that simultaneously includes: full-orbit effects, information of the spectral and angular distribution of SR of each electron, and basic geometric optics of a camera. We observe a strong dependence of the SR measured by the camera on the pitch angle distribution of RE, namely we find that crescent shapes of the SR on the camera pictures relate to RE distributions with small pitch angles, while ellipse shapes relate to distributions of RE with larger pitch angles. A weak dependence of the SR measured by the camera with the RE energy, value of the q-profile at the edge, and the chosen range of wavelengths is found. Furthermore, we observe that oversimplifying the angular distribution of the SR changes the synchrotron spectra and overestimates its amplitude. Research sponsored by the LDRD Program of ORNL, managed by UT-Battelle, LLC, for the U. S. DoE.
Vescovi, D.; Berzi, D.; Richard, P.; Brodu, N.
2014-05-01
We use existing 3D Discrete Element simulations of simple shear flows of spheres to evaluate the radial distribution function at contact that enables kinetic theory to correctly predict the pressure and the shear stress, for different values of the collisional coefficient of restitution. Then, we perform 3D Discrete Element simulations of plane flows of frictionless, inelastic spheres, sheared between walls made bumpy by gluing particles in a regular array, at fixed average volume fraction and distance between the walls. The results of the numerical simulations are used to derive boundary conditions appropriated in the cases of large and small bumpiness. Those boundary conditions are, then, employed to numerically integrate the differential equations of Extended Kinetic Theory, where the breaking of the molecular chaos assumption at volume fraction larger than 0.49 is taken into account in the expression of the dissipation rate. We show that the Extended Kinetic Theory is in very good agreement with the numerical simulations, even for coefficients of restitution as low as 0.50. When the bumpiness is increased, we observe that some of the flowing particles are stuck in the gaps between the wall spheres. As a consequence, the walls are more dissipative than expected, and the flows resemble simple shear flows, i.e., flows of rather constant volume fraction and granular temperature.
International Nuclear Information System (INIS)
Vescovi, D.; Berzi, D.; Richard, P.; Brodu, N.
2014-01-01
We use existing 3D Discrete Element simulations of simple shear flows of spheres to evaluate the radial distribution function at contact that enables kinetic theory to correctly predict the pressure and the shear stress, for different values of the collisional coefficient of restitution. Then, we perform 3D Discrete Element simulations of plane flows of frictionless, inelastic spheres, sheared between walls made bumpy by gluing particles in a regular array, at fixed average volume fraction and distance between the walls. The results of the numerical simulations are used to derive boundary conditions appropriated in the cases of large and small bumpiness. Those boundary conditions are, then, employed to numerically integrate the differential equations of Extended Kinetic Theory, where the breaking of the molecular chaos assumption at volume fraction larger than 0.49 is taken into account in the expression of the dissipation rate. We show that the Extended Kinetic Theory is in very good agreement with the numerical simulations, even for coefficients of restitution as low as 0.50. When the bumpiness is increased, we observe that some of the flowing particles are stuck in the gaps between the wall spheres. As a consequence, the walls are more dissipative than expected, and the flows resemble simple shear flows, i.e., flows of rather constant volume fraction and granular temperature
Ghostine, Rabih
2014-12-01
In open channel networks, flow is usually approximated by the one-dimensional (1D) Saint-Venant equations coupled with an empirical junction model. In this work, a comparison in terms of accuracy and computational cost between a coupled 1D-2D shallow water model and a fully two-dimensional (2D) model is presented. The paper explores the ability of a coupled model to simulate the flow processes during supercritical flows in crossroads. This combination leads to a significant reduction in the computational time, as a 1D approach is used in branches and a 2D approach is employed in selected areas only where detailed flow information is essential. Overall, the numerical results suggest that the coupled model is able to accurately simulate the main flow processes. In particular, hydraulic jumps, recirculation zones, and discharge distribution are reasonably well reproduced and clearly identified. Overall, the proposed model leads to a 30% reduction in run times. © 2014 International Association for Hydro-Environment Engineering and Research.
Steen, Kim Arild; Green, Ole; Karstoft, Henrik
2017-01-01
Optimal fertilization of clover-grass fields relies on knowledge of the clover and grass fractions. This study shows how knowledge can be obtained by analyzing images collected in fields automatically. A fully convolutional neural network was trained to create a pixel-wise classification of clover, grass, and weeds in red, green, and blue (RGB) images of clover-grass mixtures. The estimated clover fractions of the dry matter from the images were found to be highly correlated with the real clover fractions of the dry matter, making this a cheap and non-destructive way of monitoring clover-grass fields. The network was trained solely on simulated top-down images of clover-grass fields. This enables the network to distinguish clover, grass, and weed pixels in real images. The use of simulated images for training reduces the manual labor to a few hours, as compared to more than 3000 h when all the real images are annotated for training. The network was tested on images with varied clover/grass ratios and achieved an overall pixel classification accuracy of 83.4%, while estimating the dry matter clover fraction with a standard deviation of 7.8%. PMID:29258215
Directory of Open Access Journals (Sweden)
Søren Skovsen
2017-12-01
Full Text Available Optimal fertilization of clover-grass fields relies on knowledge of the clover and grass fractions. This study shows how knowledge can be obtained by analyzing images collected in fields automatically. A fully convolutional neural network was trained to create a pixel-wise classification of clover, grass, and weeds in red, green, and blue (RGB images of clover-grass mixtures. The estimated clover fractions of the dry matter from the images were found to be highly correlated with the real clover fractions of the dry matter, making this a cheap and non-destructive way of monitoring clover-grass fields. The network was trained solely on simulated top-down images of clover-grass fields. This enables the network to distinguish clover, grass, and weed pixels in real images. The use of simulated images for training reduces the manual labor to a few hours, as compared to more than 3000 h when all the real images are annotated for training. The network was tested on images with varied clover/grass ratios and achieved an overall pixel classification accuracy of 83.4%, while estimating the dry matter clover fraction with a standard deviation of 7.8%.
Energy Technology Data Exchange (ETDEWEB)
Colvin, J D; Minich, R W; Kalantar, D H
2007-03-29
The recent diagnostic capability of the Omega laser to study solid-solid phase transitions at pressures greater than 10 GPa and at strain rates exceeding 10{sup 7} s{sup -1} has also provided valuable information on the dynamic elastic-plastic behavior of materials. We have found, for example, that plasticity kinetics modifies the effective loading and thermodynamic paths of the material. In this paper we derive a kinetics equation for the time-dependent plastic response of the material to dynamic loading, and describe the model's implementation in a radiation-hydrodynamics computer code. This model for plasticity kinetics incorporates the Gilman model for dislocation multiplication and saturation. We discuss the application of this model to the simulation of experimental velocity interferometry data for experiments on Omega in which Fe was shock compressed to pressures beyond the {alpha}-to-{var_epsilon} phase transition pressure. The kinetics model is shown to fit the data reasonably well in this high strain rate regime and further allows quantification of the relative contributions of dislocation multiplication and drag. The sensitivity of the observed signatures to the kinetics model parameters is presented.
Energy Technology Data Exchange (ETDEWEB)
Al-Subeihi, Ala' A.A., E-mail: subeihi@yahoo.com [Division of Toxicology, Wageningen University, Tuinlaan 5, 6703 HE Wageningen (Netherlands); BEN-HAYYAN-Aqaba International Laboratories, Aqaba Special Economic Zone Authority (ASEZA), P. O. Box 2565, Aqaba 77110 (Jordan); Alhusainy, Wasma; Kiwamoto, Reiko; Spenkelink, Bert [Division of Toxicology, Wageningen University, Tuinlaan 5, 6703 HE Wageningen (Netherlands); Bladeren, Peter J. van [Division of Toxicology, Wageningen University, Tuinlaan 5, 6703 HE Wageningen (Netherlands); Nestec S.A., Avenue Nestlé 55, 1800 Vevey (Switzerland); Rietjens, Ivonne M.C.M.; Punt, Ans [Division of Toxicology, Wageningen University, Tuinlaan 5, 6703 HE Wageningen (Netherlands)
2015-03-01
The present study aims at predicting the level of formation of the ultimate carcinogenic metabolite of methyleugenol, 1′-sulfooxymethyleugenol, in the human population by taking variability in key bioactivation and detoxification reactions into account using Monte Carlo simulations. Depending on the metabolic route, variation was simulated based on kinetic constants obtained from incubations with a range of individual human liver fractions or by combining kinetic constants obtained for specific isoenzymes with literature reported human variation in the activity of these enzymes. The results of the study indicate that formation of 1′-sulfooxymethyleugenol is predominantly affected by variation in i) P450 1A2-catalyzed bioactivation of methyleugenol to 1′-hydroxymethyleugenol, ii) P450 2B6-catalyzed epoxidation of methyleugenol, iii) the apparent kinetic constants for oxidation of 1′-hydroxymethyleugenol, and iv) the apparent kinetic constants for sulfation of 1′-hydroxymethyleugenol. Based on the Monte Carlo simulations a so-called chemical-specific adjustment factor (CSAF) for intraspecies variation could be derived by dividing different percentiles by the 50th percentile of the predicted population distribution for 1′-sulfooxymethyleugenol formation. The obtained CSAF value at the 90th percentile was 3.2, indicating that the default uncertainty factor of 3.16 for human variability in kinetics may adequately cover the variation within 90% of the population. Covering 99% of the population requires a larger uncertainty factor of 6.4. In conclusion, the results showed that adequate predictions on interindividual human variation can be made with Monte Carlo-based PBK modeling. For methyleugenol this variation was observed to be in line with the default variation generally assumed in risk assessment. - Highlights: • Interindividual human differences in methyleugenol bioactivation were simulated. • This was done using in vitro incubations, PBK modeling
Numerical Simulations of Kinetic Alfvén Waves to Study Spectral ...
Indian Academy of Sciences (India)
Schrödinger equation satisfied by kinetic Alfvén waves (KAWs) leading ... the large scale to small scale is the transverse collapse leading to the formation of .... resonance or Laundau damping to act, leading to the heating of the plasma. Self- consistent models can be developed based on the kinetic theory to estimate the ...
A kinetic model to simulate the effect of cooking time-temperature on the gastric digestion of meat
Kondjoyan, Alain; Daudin, Jean-Dominique; Portanguen, Stéphane; Aubry, Laurent; Sante-Lhoutellier, Veronique
2014-01-01
A kinetic model was developed to predict the effect of cooking time and temperature on the digestibility of myofibrillar proteins. The predictions were confronted to the measurement of the in vitro digestibility of myofibrillar proteins coming from either slices of beef meat heated in water bath or from a piece of meat roasted in a domestic oven. The model was able to simulate the in vitro measurements for the meat pieces of different sizes cooked under different condi...
Bao, Yueping; Niu, Junfeng
2015-09-01
A systematic study on photolysis of tetrabromobisphenol A (2,2',6,6'-tetrabromo-4,4'-isopropylidendiphenol, TBBPA) in water was investigated under simulated sunlight irradiation. The results showed that the photolysis of TBBPA followed apparent pseudo-first-order kinetics. The photolysis rate constants (k) changed from 2.80 × 10(-2) to 0.70 × 10(-2)min(-1) with the concentrations of TBBPA varying from 0.1 to 10 mg L(-1). Increasing humic acid (HA) concentration from 0-100 mg L(-1) led to the decrease of k from 2.53 × 10(-2) to 0.39 × 10(-2)min(-1), which was due to the competitive adsorption for photons between HA and TBBPA molecules. The photolysis rate was faster at near-neutral conditions (pH=6 and 7) than that in either acidic or basic conditions. Electron spin resonance (ESR) and reactive oxygen species (ROS) scavenging experiments indicated that TBBPA underwent self-sensitized photooxidation via ROS (i.e., OH, (1)O2 and O2(-)), and the process was mainly controlled by O2(-). After irradiation of 180 min, about 35.0% reduction of TOC occurred accompanied with approximate 99.1% of TBBPA removed. The detection of products (i.e., Br(-), bisphenol A, 2,6-dibromophenol, 2-bromophenol and phenol) revealed that the main photolytic pathways of TBBPA were debromination and breakage of C-C bond. Copyright © 2014 Elsevier Ltd. All rights reserved.
In-silico analysis on biofabricating vascular networks using kinetic Monte Carlo simulations
International Nuclear Information System (INIS)
Sun, Yi; Yang, Xiaofeng; Wang, Qi
2014-01-01
We present a computational modeling approach to study the fusion of multicellular aggregate systems in a novel scaffold-less biofabrication process, known as ‘bioprinting’. In this novel technology, live multicellular aggregates are used as fundamental building blocks to make tissues or organs (collectively known as the bio-constructs,) via the layer-by-layer deposition technique or other methods; the printed bio-constructs embedded in maturogens, consisting of nutrient-rich bio-compatible hydrogels, are then placed in bioreactors to undergo the cellular aggregate fusion process to form the desired functional bio-structures. Our approach reported here is an agent-based modeling method, which uses the kinetic Monte Carlo (KMC) algorithm to evolve the cellular system on a lattice. In this method, the cells and the hydrogel media, in which cells are embedded, are coarse-grained to material’s points on a three-dimensional (3D) lattice, where the cell–cell and cell–medium interactions are quantified by adhesion and cohesion energies. In a multicellular aggregate system with a fixed number of cells and fixed amount of hydrogel media, where the effect of cell differentiation, proliferation and death are tactically neglected, the interaction energy is primarily dictated by the interfacial energy between cell and cell as well as between cell and medium particles on the lattice, respectively, based on the differential adhesion hypothesis. By using the transition state theory to track the time evolution of the multicellular system while minimizing the interfacial energy, KMC is shown to be an efficient time-dependent simulation tool to study the evolution of the multicellular aggregate system. In this study, numerical experiments are presented to simulate fusion and cell sorting during the biofabrication process of vascular networks, in which the bio-constructs are fabricated via engineering designs. The results predict the feasibility of fabricating the vascular
Self-learning kinetic Monte Carlo simulations of diffusion in ferromagnetic α-Fe-Si alloys
Nandipati, Giridhar; Jiang, Xiujuan; Vemuri, Rama S.; Mathaudhu, Suveen; Rohatgi, Aashish
2018-01-01
Diffusion of Si atom and vacancy in the A2-phase of α-Fe-Si alloys in the ferromagnetic state, with and without magnetic order and in various temperature ranges, are studied using AKSOME, an on-lattice self-learning KMC code. Diffusion of the Si atom and the vacancy are studied in the dilute limit and up to 12 at.% Si, respectively, in the temperature range 350-700 K. Local Si neighborhood dependent activation energies for vacancy hops were calculated on-the-fly using a broken-bond model based on pairwise interaction. The migration barrier and prefactor for the Si diffusion in the dilute limit were obtained and found to agree with published data within the limits of uncertainty. Simulations results show that the prefactor and the migration barrier for the Si diffusion are approximately an order of magnitude higher, and a tenth of an electron-volt higher, respectively, in the magnetic disordered state than in the fully ordered state. However, the net result is that magnetic disorder does not have a significant effect on Si diffusivity within the range of parameters studied in this work. Nevertheless, with increasing temperature, the magnetic disorder increases and its effect on the Si diffusivity also increases. In the case of vacancy diffusion, with increasing Si concentration, its diffusion prefactor decreases while the migration barrier more or less remained constant and the effect of magnetic disorder increases with Si concentration. Important vacancy-Si/Fe atom exchange processes and their activation barriers were identified, and the effect of energetics on ordered phase formation in Fe-Si alloys are discussed.
Directory of Open Access Journals (Sweden)
Kyoung-Rok Lee
2013-12-01
Full Text Available A floating Oscillating Water Column (OWC wave energy converter, a Backward Bent Duct Buoy (BBDB, was simulated using a state-of-the-art, two-dimensional, fully-nonlinear Numerical Wave Tank (NWT technique. The hydrodynamic performance of the floating OWC device was evaluated in the time domain. The acceleration potential method, with a full-updated kernel matrix calculation associated with a mode decomposition scheme, was implemented to obtain accurate estimates of the hydrodynamic force and displacement of a freely floating BBDB. The developed NWT was based on the potential theory and the boundary element method with constant panels on the boundaries. The mixed Eulerian-Lagrangian (MEL approach was employed to capture the nonlinear free surfaces inside the chamber that interacted with a pneumatic pressure, induced by the time-varying airflow velocity at the air duct. A special viscous damping was applied to the chamber free surface to represent the viscous energy loss due to the BBDB's shape and motions. The viscous damping coefficient was properly selected using a comparison of the experimental data. The calculated surface elevation, inside and outside the chamber, with a tuned viscous damping correlated reasonably well with the experimental data for various incident wave conditions. The conservation of the total wave energy in the computational domain was confirmed over the entire range of wave frequencies.
Leutwyler, David; Fuhrer, Oliver; Cumming, Benjamin; Lapillonne, Xavier; Gysi, Tobias; Lüthi, Daniel; Osuna, Carlos; Schär, Christoph
2014-05-01
The representation of moist convection is a major shortcoming of current global and regional climate models. State-of-the-art global models usually operate at grid spacings of 10-300 km, and therefore cannot fully resolve the relevant upscale and downscale energy cascades. Therefore parametrization of the relevant sub-grid scale processes is required. Several studies have shown that this approach entails major uncertainties for precipitation processes, which raises concerns about the model's ability to represent precipitation statistics and associated feedback processes, as well as their sensitivities to large-scale conditions. Further refining the model resolution to the kilometer scale allows representing these processes much closer to first principles and thus should yield an improved representation of the water cycle including the drivers of extreme events. Although cloud-resolving simulations are very useful tools for climate simulations and numerical weather prediction, their high horizontal resolution and consequently the small time steps needed, challenge current supercomputers to model large domains and long time scales. The recent innovations in the domain of hybrid supercomputers have led to mixed node designs with a conventional CPU and an accelerator such as a graphics processing unit (GPU). GPUs relax the necessity for cache coherency and complex memory hierarchies, but have a larger system memory-bandwidth. This is highly beneficial for low compute intensity codes such as atmospheric stencil-based models. However, to efficiently exploit these hybrid architectures, climate models need to be ported and/or redesigned. Within the framework of the Swiss High Performance High Productivity Computing initiative (HP2C) a project to port the COSMO model to hybrid architectures has recently come to and end. The product of these efforts is a version of COSMO with an improved performance on traditional x86-based clusters as well as hybrid architectures with GPUs
Directory of Open Access Journals (Sweden)
Steven M. Lund
2009-11-01
Full Text Available Self-consistent Vlasov-Poisson simulations of beams with high space-charge intensity often require specification of initial phase-space distributions that reflect properties of a beam that is well adapted to the transport channel—both in terms of low-order rms (envelope properties as well as the higher-order phase-space structure. Here, we first review broad classes of kinetic distributions commonly in use as initial Vlasov distributions in simulations of unbunched or weakly bunched beams with intense space-charge fields including the following: the Kapchinskij-Vladimirskij (KV equilibrium, continuous-focusing equilibria with specific detailed examples, and various nonequilibrium distributions, such as the semi-Gaussian distribution and distributions formed from specified functions of linear-field Courant-Snyder invariants. Important practical details necessary to specify these distributions in terms of standard accelerator inputs are presented in a unified format. Building on this presentation, a new class of approximate initial kinetic distributions are constructed using transformations that preserve linear focusing, single-particle Courant-Snyder invariants to map initial continuous-focusing equilibrium distributions to a form more appropriate for noncontinuous focusing channels. Self-consistent particle-in-cell simulations are employed to show that the approximate initial distributions generated in this manner are better adapted to the focusing channels for beams with high space-charge intensity. This improved capability enables simulations that more precisely probe intrinsic stability properties and machine performance.
International Nuclear Information System (INIS)
Chason, E; Chan, W L
2009-01-01
Kinetic Monte Carlo simulations model the evolution of surfaces during low energy ion bombardment using atomic level mechanisms of defect formation, recombination and surface diffusion. Because the individual kinetic processes are completely determined, the resulting morphological evolution can be directly compared with continuum models based on the same mechanisms. We present results of simulations based on a curvature-dependent sputtering mechanism and diffusion of mobile surface defects. The results are compared with a continuum linear instability model based on the same physical processes. The model predictions are found to be in good agreement with the simulations for predicting the early-stage morphological evolution and the dependence on processing parameters such as the flux and temperature. This confirms that the continuum model provides a reasonable approximation of the surface evolution from multiple interacting surface defects using this model of sputtering. However, comparison with experiments indicates that there are many features of the surface evolution that do not agree with the continuum model or simulations, suggesting that additional mechanisms are required to explain the observed behavior.
Energy Technology Data Exchange (ETDEWEB)
Lund, Steven M.; Kikuchi, Takashi; Davidson, Ronald C.
2007-04-03
Self-consistent Vlasov-Poisson simulations of beams with high space-charge intensity often require specification of initial phase-space distributions that reflect properties of a beam that is well adapted to the transport channel--both in terms of low-order rms (envelope) properties as well as the higher-order phase-space structure. Here, we first review broad classes of kinetic distributions commonly in use as initial Vlasov distributions in simulations of unbunched or weakly bunched beams with intense space-charge fields including: the Kapchinskij-Vladimirskij (KV) equilibrium, continuous-focusing equilibria with specific detailed examples, and various non-equilibrium distributions, such as the semi-Gaussian distribution and distributions formed from specified functions of linear-field Courant-Snyder invariants. Important practical details necessary to specify these distributions in terms of usual accelerator inputs are presented in a unified format. Building on this presentation, a new class of approximate initial kinetic distributions are constructed using transformations that preserve linear-focusing single-particle Courant-Snyder invariants to map initial continuous-focusing equilibrium distributions to a form more appropriate for non-continuous focusing channels. Self-consistent particle-in-cell simulations are employed to show that the approximate initial distributions generated in this manner are better adapted to the focusing channels for beams with high space-charge intensity. This improved capability enables simulation applications that more precisely probe intrinsic stability properties and machine performance.
International Nuclear Information System (INIS)
Meyer, Carsten; Peligrad, Dragos-Nicolae; Weibrecht, Martin
2007-01-01
Cardiac 82 rubidium dynamic PET studies allow quantifying absolute myocardial perfusion by using tracer kinetic modeling. Here, the accurate measurement of the input function, i.e. the tracer concentration in blood plasma, is a major challenge. This measurement is deteriorated by inappropriate temporal sampling, spillover, etc. Such effects may influence the measured input peak value and the measured blood pool clearance. The aim of our study is to evaluate the effect of input function distortions on the myocardial perfusion as estimated by the model. To this end, we simulate noise-free myocardium time activity curves (TACs) with a two-compartment kinetic model. The input function to the model is a generic analytical function. Distortions of this function have been introduced by varying its parameters. Using the distorted input function, the compartment model has been fitted to the simulated myocardium TAC. This analysis has been performed for various sets of model parameters covering a physiologically relevant range. The evaluation shows that ±10% error in the input peak value can easily lead to ±10-25% error in the model parameter K 1 , which relates to myocardial perfusion. Variations in the input function tail are generally less relevant. We conclude that an accurate estimation especially of the plasma input peak is crucial for a reliable kinetic analysis and blood flow estimation
Denton, R.; Sonnerup, B. U. O.; Swisdak, M.; Birn, J.; Drake, J. F.; Heese, M.
2012-01-01
When analyzing data from an array of spacecraft (such as Cluster or MMS) crossing a site of magnetic reconnection, it is desirable to be able to accurately determine the orientation of the reconnection site. If the reconnection is quasi-two dimensional, there are three key directions, the direction of maximum inhomogeneity (the direction across the reconnection site), the direction of the reconnecting component of the magnetic field, and the direction of rough invariance (the "out of plane" direction). Using simulated spacecraft observations of magnetic reconnection in the geomagnetic tail, we extend our previous tests of the direction-finding method developed by Shi et al. (2005) and the method to determine the structure velocity relative to the spacecraft Vstr. These methods require data from four proximate spacecraft. We add artificial noise and calibration errors to the simulation fields, and then use the perturbed gradient of the magnetic field B and perturbed time derivative dB/dt, as described by Denton et al. (2010). Three new simulations are examined: a weakly three-dimensional, i.e., quasi-two-dimensional, MHD simulation without a guide field, a quasi-two-dimensional MHD simulation with a guide field, and a two-dimensional full dynamics kinetic simulation with inherent noise so that the apparent minimum gradient was not exactly zero, even without added artificial errors. We also examined variations of the spacecraft trajectory for the kinetic simulation. The accuracy of the directions found varied depending on the simulation and spacecraft trajectory, but all the directions could be found within about 10 for all cases. Various aspects of the method were examined, including how to choose averaging intervals and the best intervals for determining the directions and velocity. For the kinetic simulation, we also investigated in detail how the errors in the inferred gradient directions from the unmodified Shi et al. method (using the unperturbed gradient
2015-09-01
196–201. 44. Kratzer P. Monte Carlo and kinetic Monte Carlo methods–a tutorial. In: Grotendorst J, Attig N, Blügel S, Marx D, editors. Multiscale...Monte Carlo (kMC) Simulations of Thin Film Growth by James J Ramsey Approved for public release; distribution is...Research Laboratory KMCThinFilm: A C++ Framework for the Rapid Development of Lattice Kinetic Monte Carlo (kMC) Simulations of Thin Film Growth by
On the use of kinetic energy preserving DG-schemes for large eddy simulation
Flad, David; Gassner, Gregor
2017-12-01
Recently, element based high order methods such as Discontinuous Galerkin (DG) methods and the closely related flux reconstruction (FR) schemes have become popular for compressible large eddy simulation (LES). Element based high order methods with Riemann solver based interface numerical flux functions offer an interesting dispersion dissipation behavior for multi-scale problems: dispersion errors are very low for a broad range of scales, while dissipation errors are very low for well resolved scales and are very high for scales close to the Nyquist cutoff. In some sense, the inherent numerical dissipation caused by the interface Riemann solver acts as a filter of high frequency solution components. This observation motivates the trend that element based high order methods with Riemann solvers are used without an explicit LES model added. Only the high frequency type inherent dissipation caused by the Riemann solver at the element interfaces is used to account for the missing sub-grid scale dissipation. Due to under-resolution of vortical dominated structures typical for LES type setups, element based high order methods suffer from stability issues caused by aliasing errors of the non-linear flux terms. A very common strategy to fight these aliasing issues (and instabilities) is so-called polynomial de-aliasing, where interpolation is exchanged with projection based on an increased number of quadrature points. In this paper, we start with this common no-model or implicit LES (iLES) DG approach with polynomial de-aliasing and Riemann solver dissipation and review its capabilities and limitations. We find that the strategy gives excellent results, but only when the resolution is such, that about 40% of the dissipation is resolved. For more realistic, coarser resolutions used in classical LES e.g. of industrial applications, the iLES DG strategy becomes quite inaccurate. We show that there is no obvious fix to this strategy, as adding for instance a sub
Espinosa, G.; Rodríguez, R.; Gil, J. M.; Suzuki-Vidal, F.; Lebedev, S. V.; Ciardi, A.; Rubiano, J. G.; Martel, P.
2017-03-01
Numerical simulations of laboratory astrophysics experiments on plasma flows require plasma microscopic properties that are obtained by means of an atomic kinetic model. This fact implies a careful choice of the most suitable model for the experiment under analysis. Otherwise, the calculations could lead to inaccurate results and inappropriate conclusions. First, a study of the validity of the local thermodynamic equilibrium in the calculation of the average ionization, mean radiative properties, and cooling times of argon plasmas in a range of plasma conditions of interest in laboratory astrophysics experiments on radiative shocks is performed in this work. In the second part, we have made an analysis of the influence of the atomic kinetic model used to calculate plasma microscopic properties of experiments carried out on magpie on radiative bow shocks propagating in argon. The models considered were developed assuming both local and nonlocal thermodynamic equilibrium and, for the latter situation, we have considered in the kinetic model different effects such as external radiation field and plasma mixture. The microscopic properties studied were the average ionization, the charge state distributions, the monochromatic opacities and emissivities, the Planck mean opacity, and the radiative power loss. The microscopic study was made as a postprocess of a radiative-hydrodynamic simulation of the experiment. We have also performed a theoretical analysis of the influence of these atomic kinetic models in the criteria for the onset possibility of thermal instabilities due to radiative cooling in those experiments in which small structures were experimentally observed in the bow shock that could be due to this kind of instability.
Oanca, Gabriel; Stare, Jernej; Mavri, Janez
2017-12-01
This work scrutinizes kinetics of decomposition of adrenaline catalyzed by monoamine oxidase (MAO) A and B enzymes, a process controlling the levels of adrenaline in the central nervous system and other tissues. Experimental kinetic data for MAO A and B catalyzed decomposition of adrenaline are reported only in the form of the maximum reaction rate. Therefore, we estimated the experimental free energy barriers form the kinetic data of closely related systems using regression method, as was done in our previous study. By using multiscale simulation on the Empirical Valence Bond (EVB) level, we studied the chemical reactivity of the MAO A catalyzed decomposition of adrenaline and we obtained a value of activation free energy of 17.3 ± 0.4 kcal/mol. The corresponding value for MAO B is 15.7 ± 0.7 kcal/mol. Both values are in good agreement with the estimated experimental barriers of 16.6 and 16.0 kcal/mol for MAO A and MAO B, respectively. The fact that we reproduced the kinetic data and preferential catalytic effect of MAO B over MAO A gives additional support to the validity of the proposed hydride transfer mechanism. Furthermore, we demonstrate that adrenaline is preferably involved in the reaction in a neutral rather than in a protonated form due to considerably higher barriers computed for the protonated adrenaline substrate. The results are discussed in the context of chemical mechanism of MAO enzymes and possible applications of multiscale simulation to rationalize the effects of MAO activity on adrenaline level. © 2017 Wiley Periodicals, Inc.
Liu, Baoshun; Zhao, Xiujian
2014-10-28
The continuous time random walk (CTRW) simulation was used to study the photocatalytic kinetics of nanocrystalline (nc)-TiO2 assemblies in this research. nc-TiO2 assemblies, such as nc-TiO2 porous films and nc-TiO2 hierarchical structures, are now widely used in photocatalysis. The nc-TiO2 assemblies have quasi-disordered networks consisting of many tiny nanoparticles, so the charge transport within them can be studied by CTRW simulation. We considered the experimental facts that the holes can be quickly trapped and transferred to organic species just after photogeneration, and the electrons transfer to O2 slowly and accumulate in the conduction band of TiO2, which is believed to be the rate-limiting process of the photocatalysis under low light intensity and low organic concentration. Due to the existence of numerous traps, the electron transport within the nc-TiO2 assemblies follows a multi-trapping (MT) mechanism, which significantly limits the electron diffusion speed. The electrons need to undergo several steps of MT transport before transferring to oxygen, so it is highly important that the electron transport in nc-TiO2 networks is determined for standard photocatalytic reactions. Based on the MT transport model, the transient decays of photocurrents during the photocatalytic oxidation of formic acid were studied by CTRW simulation, and are in good accordance with experiments. The steady state photocatalysis was also simulated. The effects of organic concentration, light intensity, temperature, and nc-TiO2 crystallinity on the photocatalytic kinetics were investigated, and were also consistent with the experimental results. Due to the agreement between the simulation and the experiments for both the transient and the steady state photocatalysis, the MT charge transport should be an important mechanism that controls the kinetics of recombination and photocatalysis in nc-TiO2 assemblies. Also, our research provides a new methodology to study the photocatalytic
Differential equation methods for simulation of GFP kinetics in non-steady state experiments.
Phair, Robert D
2018-03-15
Genetically encoded fluorescent proteins, combined with fluorescence microscopy, are widely used in cell biology to collect kinetic data on intracellular trafficking. Methods for extraction of quantitative information from these data are based on the mathematics of diffusion and tracer kinetics. Current methods, although useful and powerful, depend on the assumption that the cellular system being studied is in a steady state, that is, the assumption that all the molecular concentrations and fluxes are constant for the duration of the experiment. Here, we derive new tracer kinetic analytical methods for non-steady state biological systems by constructing mechanistic nonlinear differential equation models of the underlying cell biological processes and linking them to a separate set of differential equations governing the kinetics of the fluorescent tracer. Linking the two sets of equations is based on a new application of the fundamental tracer principle of indistinguishability and, unlike current methods, supports correct dependence of tracer kinetics on cellular dynamics. This approach thus provides a general mathematical framework for applications of GFP fluorescence microscopy (including photobleaching [FRAP, FLIP] and photoactivation to frequently encountered experimental protocols involving physiological or pharmacological perturbations (e.g., growth factors, neurotransmitters, acute knockouts, inhibitors, hormones, cytokines, and metabolites) that initiate mechanistically informative intracellular transients. When a new steady state is achieved, these methods automatically reduce to classical steady state tracer kinetic analysis. © 2018 Phair. This article is distributed by The American Society for Cell Biology under license from the author(s). Two months after publication it is available to the public under an Attribution–Noncommercial–Share Alike 3.0 Unported Creative Commons License (http://creativecommons.org/licenses/by-nc-sa/3.0).
Liquid phase electro epitaxy growth kinetics of GaAs-A three-dimensional numerical simulation study
International Nuclear Information System (INIS)
Mouleeswaran, D.; Dhanasekaran, R.
2006-01-01
A three-dimensional numerical simulation study for the liquid phase electro epitaxial growth kinetic of GaAs is presented. The kinetic model is constructed considering (i) the diffusive and convective mass transport, (ii) the heat transfer due to thermoelectric effects such as Peltier effect, Joule effect and Thomson effect, (iii) the electric current distribution with electromigration and (iv) the fluid flow coupled with concentration and temperature fields. The simulations are performed for two configurations namely (i) epitaxial growth from the arsenic saturated gallium rich growth solution, i.e., limited solution model and (ii) epitaxial growth from the arsenic saturated gallium rich growth solution with polycrystalline GaAs feed. The governing equations of liquid phase electro epitaxy are solved numerically with appropriate initial and boundary conditions using the central difference method. Simulations are performed to determine the following, a concentration profiles of solute atoms (As) in the Ga-rich growth solution, shape of the substrate evolution, the growth rate of the GaAs epitaxial film, the contributions of Peltier effect and electromigration of solute atoms to the growth with various experimental growth conditions. The growth rate is found to increase with increasing growth temperature and applied current density. The results are discussed in detail
Directory of Open Access Journals (Sweden)
Beata Urych
2014-01-01
Originality/value: The devolatilization of a homogenous lump of coal is a complex issue. Currently, the CFD technique (Computational Fluid Dynamics is commonly used for the multi-dimensional and multiphase phenomena modelling. The mathematical models, describing the kinetics of the decomposition of coal, proposed in the article can, therefore, be an integral part of models based on numerical fluid mechanics.
Numerical simulation of stochastic point kinetic equation in the dynamical system of nuclear reactor
International Nuclear Information System (INIS)
Saha Ray, S.
2012-01-01
Highlights: ► In this paper stochastic neutron point kinetic equations have been analyzed. ► Euler–Maruyama method and Strong Taylor 1.5 order method have been discussed. ► These methods are applied for the solution of stochastic point kinetic equations. ► Comparison between the results of these methods and others are presented in tables. ► Graphs for neutron and precursor sample paths are also presented. -- Abstract: In the present paper, the numerical approximation methods, applied to efficiently calculate the solution for stochastic point kinetic equations () in nuclear reactor dynamics, are investigated. A system of Itô stochastic differential equations has been analyzed to model the neutron density and the delayed neutron precursors in a point nuclear reactor. The resulting system of Itô stochastic differential equations are solved over each time-step size. The methods are verified by considering different initial conditions, experimental data and over constant reactivities. The computational results indicate that the methods are simple and suitable for solving stochastic point kinetic equations. In this article, a numerical investigation is made in order to observe the random oscillations in neutron and precursor population dynamics in subcritical and critical reactors.
Directory of Open Access Journals (Sweden)
Sayer C.
2002-01-01
Full Text Available A new reactor, the pulsed sieve plate column (PSPC, was developed to perform continuous emulsion polymerization reactions. This reactor combines the enhanced flexibility of tubular reactors with the mixing behavior provided by sieved plates and by the introduction of pulses that is important to prevent emulsion destabilization. The main objective of this work is to study the kinetics of vinyl acetate (VA emulsion polymerization reactions performed in this PSPC. Therefore, both experimental studies and reaction simulations were performed. Results showed that it is possible to obtain high conversions with rather low residence times in the PSPC.
Numerical Simulations of Two-Phase Flow in a Self-Aerated Flotation Machine and Kinetics Modeling
Fayed, Hassan E.
2015-03-30
A new boundary condition treatment has been devised for two-phase flow numerical simulations in a self-aerated minerals flotation machine and applied to a Wemco 0.8 m3 pilot cell. Airflow rate is not specified a priori but is predicted by the simulations as well as power consumption. Time-dependent simulations of two-phase flow in flotation machines are essential to understanding flow behavior and physics in self-aerated machines such as the Wemco machines. In this paper, simulations have been conducted for three different uniform bubble sizes (db = 0.5, 0.7 and 1.0 mm) to study the effects of bubble size on air holdup and hydrodynamics in Wemco pilot cells. Moreover, a computational fluid dynamics (CFD)-based flotation model has been developed to predict the pulp recovery rate of minerals from a flotation cell for different bubble sizes, different particle sizes and particle size distribution. The model uses a first-order rate equation, where models for probabilities of collision, adhesion and stabilization and collisions frequency estimated by Zaitchik-2010 model are used for the calculation of rate constant. Spatial distributions of dissipation rate and air volume fraction (also called void fraction) determined by the two-phase simulations are the input for the flotation kinetics model. The average pulp recovery rate has been calculated locally for different uniform bubble and particle diameters. The CFD-based flotation kinetics model is also used to predict pulp recovery rate in the presence of particle size distribution. Particle number density pdf and the data generated for single particle size are used to compute the recovery rate for a specific mean particle diameter. Our computational model gives a figure of merit for the recovery rate of a flotation machine, and as such can be used to assess incremental design improvements as well as design of new machines.
Zhakhovsky, Vasily V; Kryukov, Alexei P; Levashov, Vladimir Yu; Shishkova, Irina N; Anisimov, Sergey I
2018-04-16
Boundary conditions required for numerical solution of the Boltzmann kinetic equation (BKE) for mass/heat transfer between evaporation and condensation surfaces are analyzed by comparison of BKE results with molecular dynamics (MD) simulations. Lennard-Jones potential with parameters corresponding to solid argon is used to simulate evaporation from the hot side, nonequilibrium vapor flow with a Knudsen number of about 0.02, and condensation on the cold side of the condensed phase. The equilibrium density of vapor obtained in MD simulation of phase coexistence is used in BKE calculations for consistency of BKE results with MD data. The collision cross-section is also adjusted to provide a thermal flux in vapor identical to that in MD. Our MD simulations of evaporation toward a nonreflective absorbing boundary show that the velocity distribution function (VDF) of evaporated atoms has the nearly semi-Maxwellian shape because the binding energy of atoms evaporated from the interphase layer between bulk phase and vapor is much smaller than the cohesive energy in the condensed phase. Indeed, the calculated temperature and density profiles within the interphase layer indicate that the averaged kinetic energy of atoms remains near-constant with decreasing density almost until the interphase edge. Using consistent BKE and MD methods, the profiles of gas density, mass velocity, and temperatures together with VDFs in a gap of many mean free paths between the evaporation and condensation surfaces are obtained and compared. We demonstrate that the best fit of BKE results with MD simulations can be achieved with the evaporation and condensation coefficients both close to unity.
Directory of Open Access Journals (Sweden)
N.B. Huang
Full Text Available Stainless steel with chromium carbide coating is an ideal candidate for bipolar plates. However, the coating still cannot resist the corrosion of a proton exchange membrane fuel cell (PEMFC environment. In this work, the corrosion kinetics of 316L stainless steel with chromium carbide is investigated in simulated PEMFC cathodic environment by combining electrochemical tests with morphology and microstructure analysis. SEM results reveal that the steel’s surface is completely coated by Cr and chromium carbide but there are pinholes in the coating. After the coated 316L stainless steel is polarized, the diffraction peak of Fe oxide is found. EIS results indicate that the capacitive resistance and the reaction resistance first slowly decrease (2–32 h and then increase. The potentiostatic transient curve declines sharply within 2000 s and then decreases slightly. The pinholes, which exist in the coating, result in pitting corrosion. The corrosion kinetics of the coated 316L stainless steel are modeled and accords the following equation: i0 = 7.6341t−0.5, with the corrosion rate controlled by ion migration in the pinholes. Keywords: PEMFC, Metal bipolar plate, Chromium carbide coating, Corrosion kinetics, Pitting corrosion
Anisuzzaman, S M; Joseph, Collin G; Krishnaiah, D; Bono, A; Ooi, L C
2015-01-01
In this study, durian (Durio zibethinus Murray) skin was examined for its ability to remove methylene blue (MB) dye from simulated textile wastewater. Adsorption equilibrium and kinetics of MB removal from aqueous solutions at different parametric conditions such as different initial concentrations (2-10 mg/L), biosorbent dosages (0.3-0.7 g) and pH solution (4-9) onto durian skin were studied using batch adsorption. The amount of MB adsorbed increased from 3.45 to 17.31 mg/g with the increase in initial concentration of MB dye; whereas biosorbent dosage increased from 1.08 to 2.47 mg/g. Maximum dye adsorption capacity of the durian skin was found to increase from 3.78 to 6.40 mg/g, with increasing solution pH. Equilibrium isotherm data were analyzed according to Langmuir and Freundlich isotherm models. The sorption equilibrium was best described by the Freundlich isotherm model with maximum adsorption capacity of 7.23 mg/g and this was due to the heterogeneous nature of the durian skin surface. Kinetic studies indicated that the sorption of MB dye tended to follow the pseudo second-order kinetic model with promising correlation of 0.9836 < R(2) < 0.9918.
Directory of Open Access Journals (Sweden)
R. Sorgente
2011-08-01
Full Text Available The spatial and temporal variability of eddy and mean kinetic energy of the Central Mediterranean region has been investigated, from January 2008 to December 2010, by mean of a numerical simulation mainly to quantify the mesoscale dynamics and their relationships with physical forcing. In order to understand the energy redistribution processes, the baroclinic energy conversion has been analysed, suggesting hypotheses about the drivers of the mesoscale activity in this area. The ocean model used is based on the Princeton Ocean Model implemented at 1/32° horizontal resolution. Surface momentum and buoyancy fluxes are interactively computed by mean of standard bulk formulae using predicted model Sea Surface Temperature and atmospheric variables provided by the European Centre for Medium Range Weather Forecast operational analyses. At its lateral boundaries the model is one-way nested within the Mediterranean Forecasting System operational products.
The model domain has been subdivided in four sub-regions: Sardinia channel and southern Tyrrhenian Sea, Sicily channel, eastern Tunisian shelf and Libyan Sea. Temporal evolution of eddy and mean kinetic energy has been analysed, on each of the four sub-regions, showing different behaviours. On annual scales and within the first 5 m depth, the eddy kinetic energy represents approximately the 60 % of the total kinetic energy over the whole domain, confirming the strong mesoscale nature of the surface current flows in this area. The analyses show that the model well reproduces the path and the temporal behaviour of the main known sub-basin circulation features. New mesoscale structures have been also identified, from numerical results and direct observations, for the first time as the Pantelleria Vortex and the Medina Gyre.
The classical kinetic energy decomposition (eddy and mean allowed to depict and to quantify the permanent and fluctuating parts of the circulation in the region, and
Messerle, V. E.; Ustimenko, A. B.
2017-07-01
Kinetic calculations of the plasma processing/utilization process of organic waste in air and steam ambient were carried out. It is shown that, during the time of waste residence in the plasma reactor, 0.7 and 1.2 s, at the exit from the reactor there forms a high-calorific fuel gas with a combustion heat of 3540 and 5070 kcal/kg, respectively. In this process, 1 kg of waste yields 1.16 kg of fuel gas at air gasification of waste and 0.87 kg of pure synthesis gas at steam gasification. The energy efficiency of the waste gasification process, defined by the ratio between the calorific value of the resultant fuel gas and the initial calorific value of the waste amounts to 91 % in air plasma and 98 % in steam plasma. A comparison between the results of kinetic and thermodynamic calculations has revealed their good agreement.
International Nuclear Information System (INIS)
Zhen, Xudong; Wang, Yang; Liu, Daming
2016-01-01
Highlights: • A new optimized chemical kinetic mechanism for PRF is developed. • New mechanism optimization is performed based on the CHEMKIN simulations. • More reactions of C 0 –C 1 oxidation are added in the present mechanism. • Good performance is achieved of mechanism by validating various reactors and operating conditions. - Abstract: In the present study, for the multi-dimensional CFD (computational fluid dynamics) combustion simulations of internal combustion engines, a new optimized chemical kinetic reaction mechanism for the oxidation of PRF (primary reference fuel) instead of gasoline has been developed. In order to carry out the in-depth research for combustion phenomenon of internal combustion engines, an optimized reduced PRF mechanism including more intermediate species and radicals was developed. The developed mechanism contains of iso-octane (C 8 H 18 ) and n-heptane (C 7 H 16 ) surrogates, which contains of 51-species and 193 reactions. Compared with many other mechanisms of PRF, more reactions of C 0 –C 1 oxidation (100 reactions) are added in the present mechanism. In order to improve the performances of the model, the developed mechanism focused on the improvement through the prediction of the ignition delay time. The developed mechanism has been validated against various experimental and simulation data including shock tube data, laminar flame speed data and HCCI (homogeneous charge compression ignition) engine data. The results showed that the developed PRF mechanism was agreements with the experimental data and other approved reduced mechanisms, and it could be applied to the multi-dimensional CFD simulations for internal combustion engines.
Gou, Lin; Lee, Jinhyuk; Hao, Hao; Park, Yong-Doo; Zhan, Yi; Lü, Zhi-Rong
2017-08-01
Oxaloacetic acid (OA) is naturally found in organisms and well known as an intermediate of citric acid cycle producing ATP. We evaluated the effects of OA on tyrosinase activity and structure via integrating methods of enzyme kinetics and computational simulations. OA was found to be a reversible inhibitor of tyrosinase and its induced mechanism was the parabolic non-competitive inhibition type (IC 50 =17.5±0.5mM and K i =6.03±1.36mM). Kinetic measurements by real-time interval assay showed that OA induced multi-phasic inactivation process composing with fast (k 1 ) and slow (k 2 ) phases. Spectrofluorimetry studies showed that OA mainly induced regional changes in the active site of tyrosinase accompanying with hydrophobic disruption at high dose. The computational docking simulations further revealed that OA could interact with several residues near the tyrosinase active site pocket such as HIS61, HIS259, HIS263, and VAL283. Our study provides insight into the mechanism by which energy producing intermediate such as OA inhibit tyrosinase and OA is a potential natural anti-pigmentation agent. Copyright © 2017 Elsevier B.V. All rights reserved.
Zou, Zongxing; Tang, Huiming; Xiong, Chengren; Su, Aijun; Criss, Robert E.
2017-10-01
The Jiweishan rockslide of June 5, 2009 in China provides an important opportunity to elucidate the kinetic characteristics of high-speed, long-runout debris flows. A 2D discrete element model whose mechanical parameters were calibrated using basic field data was used to simulate the kinetic behavior of this catastrophic landslide. The model output shows that the Jiweishan debris flow lasted about 3 min, released a gravitational potential energy of about 6 × 10^13 J with collisions and friction dissipating approximately equal amounts of energy, and had a maximum fragment velocity of 60-70 m/s, almost twice the highest velocity of the overall slide mass (35 m/s). Notable simulated characteristics include the high velocity and energy of the slide material, the preservation of the original positional order of the slide blocks, the inverse vertical grading of blocks, and the downslope sorting of the slide deposits. Field observations that verify these features include uprooted trees in the frontal collision area of the air-blast wave, downslope reduction of average clast size, and undamaged plants atop huge blocks that prove their lack of downslope tumbling. The secondary acceleration effect and force chains derived from the numerical model help explain these deposit features and the long-distance transport. Our back-analyzed frictions of the motion path in the PFC model provide a reference for analyzing and predicting the motion of similar geological hazards.
Simulation of the growth kinetics of the (FeB/Fe 2B) bilayer obtained on a borided stainless steel
Keddam, M.
2011-01-01
The present work is an attempt to simulate the growth kinetics of the (FeB/Fe 2B) bilayer grown on a substrate made of AISI 316 stainless steel by the application of the powder-pack boriding process, and using four different temperatures (1123, 1173, 1223 and 1273 K) and five exposure times (2, 4, 6, 8 and 10 h). The adopted diffusion model solves the mass balance equation at each growth front: (FeB/Fe 2B or FeB/substrate) under certain assumptions and without considering the diffusion zone. To consider the effect of the incubation times for the borides formation, the temperature-dependent function ϕ( T) was incorporated in the model. To validate this model, a computer code written in Matlab (version 6.5), was developed with the purpose of simulating the kinetics of the boride layers. This computer code uses the following parameters as input data: (the boriding temperature, the treatment time, the upper and lower limits of boron concentration in each iron boride, the diffusion coefficients of boron in the FeB and Fe 2B phases as well as the ϕ( T) parameter). The outputs of the computer code are the parabolic growth constant at each growth front and the thicknesses of the FeB and Fe 2B layers. A good agreement was obtained between the experimental parabolic growth constants taken from a reference work [I. Campos-Silva et al., Formation and kinetics of FeB/Fe 2B layers and diffusion zone at the surface of AISI 316 borided steels, Surf. Coat Technol., 205 (2010) 403-412] and the simulated values of the parabolic growth constants ( kFeB and k1). The present model was also able to predict the thicknesses of the FeB and Fe 2B layers at a temperature of 1243 K during 3 and 5 h. In addition, the mass gain at the material surface was also estimated as a function of the time and the upper boron content in each iron boride phase. It was shown that the simulated values of the generated mass gain are very sensitive to the increase of both temperature and the upper boron
A Kinetic Monte Carlo method for the simulation of heteroepitaxial growth
Much, F.; Ahr, M.; Biehl, M.; Kinzel, W.
2002-01-01
We introduce a simulation algorithm which allows the off-lattice simulation of various phenomena observed in heteroepitaxial growth like a critical layer thickness for the appearance of misfit dislocations, or self-assembled island formation in 1 + 1 dimensions. The only parameters of the model are
Byun, Hye Suk; El-Naggar, Mohamed Y.; Kalia, Rajiv K.; Nakano, Aiichiro; Vashishta, Priya
2017-10-01
Kinetic Monte Carlo (KMC) simulations are used to study long-time dynamics of a wide variety of systems. Unfortunately, the conventional KMC algorithm is not scalable to larger systems, since its time scale is inversely proportional to the simulated system size. A promising approach to resolving this issue is the synchronous parallel KMC (SPKMC) algorithm, which makes the time scale size-independent. This paper introduces a formal derivation of the SPKMC algorithm based on local transition-state and time-dependent Hartree approximations, as well as its scalable parallel implementation based on a dual linked-list cell method. The resulting algorithm has achieved a weak-scaling parallel efficiency of 0.935 on 1024 Intel Xeon processors for simulating biological electron transfer dynamics in a 4.2 billion-heme system, as well as decent strong-scaling parallel efficiency. The parallel code has been used to simulate a lattice of cytochrome complexes on a bacterial-membrane nanowire, and it is broadly applicable to other problems such as computational synthesis of new materials.
Kinetic theory and simulation of multi-species plasmas in tokamaks excited with ICRF microwaves
Energy Technology Data Exchange (ETDEWEB)
Kerbel, G.D.; McCoy, M.G.
1984-12-21
This paper presents a description of a bounce-averaged Fokker-Planck quasilinear model for the kinetic description of tokamak plasmas. The non-linear collision and quasilinear resonant diffusion operators are represented in a form conducive to numerical solution with specific attention to the treatment of the boundary layer separating trapped and passing orbit regions of velocity space. The numerical techniques employed are detailed in so far as they constitute significant departure from those used in the conventional uniform magnetic field case. Examples are given to illustrate the combined effects of collisional and resonant diffusion.
Energy Technology Data Exchange (ETDEWEB)
Shtykov, N. M., E-mail: nshtykov@mail.ru; Palto, S. P.; Umanskii, B. A. [Russian Academy of Sciences, Shubnikov Institute of Crystallography (Russian Federation)
2013-08-15
We report on the results of calculating the conditions for light generation in cholesteric liquid crystals doped with fluorescent dyes using kinetic equations. Specific features of spectral properties of the chiral cholesteric medium as a photonic structure and spatially distributed type of the feedback in the active medium are taken into account. The expression is derived for the threshold pump radiation intensity as a function of the dye concentration and sample thickness. The importance of taking into account the distributed loss level in the active medium for calculating the optimal parameters of the medium and for matching the calculated values with the results of experiments is demonstrated.
Cai, Yan; Lee, Jinhyuk; Wang, Wei; Park, Yong-Doo; Qian, Guo-Ying
2017-01-01
Cu2+ is well known to play important roles in living organisms having bifacial distinction: essential microelement that is necessary for a wide range of metabolic processes but hyper-accumulation of Cu2+ can be toxic. The physiological function of Cu2+ in ectothermic animals such as Pelodiscus sinensis (Chinese soft-shelled turtle) has not been elucidated. In this study, we elucidated effect of Cu2+ on the energy producing metabolic enzyme creatine kinase (CK), which might directly affect energy metabolism and homeostasis of P. sinensis. We first conducted molecular dynamics (MD) simulations between P-CK and Cu2+ and conducted the inactivation kinetics including spectrofluorimetry study. MD simulation showed that Cu2+ blocked the binding site of the ATP cofactor, indicating that Cu2+ could directly inactivate P-CK. We prepared the muscle type of CK (P-CK) and confirmed that Cu2+ conspicuously inactivated the activity of P-CK (IC50 = 24.3 μM) and exhibited non-competitive inhibition manner with creatine and ATP in a first-order kinetic process. This result was well matched to the MD simulation results that Cu2+-induced non-competitive inactivation of P-CK. The spectrofluorimetry study revealed that Cu2+ induced tertiary structure changes in PCK accompanying with the exposure of hydrophobic surfaces. Interestingly, the addition of osmolytes (glycine, proline, and liquaemin) effectively restored activity of the Cu2+-inactivated P-CK. Our study illustrates the Cu2+-mediated unfolding of P-CK with disruption of the enzymatic function and the protective restoration role of osmolytes on P-CK inactivation. This study provides information of interest on P-CK as a metabolic enzyme of ectothermic animal in response to Cu2+ binding. Copyright© Bentham Science Publishers; For any queries, please email at epub@benthamscience.org.
Homogenizing Advanced Alloys: Thermodynamic and Kinetic Simulations Followed by Experimental Results
Jablonski, Paul D.; Hawk, Jeffrey A.
2017-01-01
Segregation of solute elements occurs in nearly all metal alloys during solidification. The resultant elemental partitioning can severely degrade as-cast material properties and lead to difficulties during post-processing (e.g., hot shorts and incipient melting). Many cast articles are subjected to a homogenization heat treatment in order to minimize segregation and improve their performance. Traditionally, homogenization heat treatments are based upon past practice or time-consuming trial and error experiments. Through the use of thermodynamic and kinetic modeling software, NETL has designed a systematic method to optimize homogenization heat treatments. Use of the method allows engineers and researchers to homogenize casting chemistries to levels appropriate for a given application. The method also allows for the adjustment of heat treatment schedules to fit limitations on in-house equipment (capability, reliability, etc.) while maintaining clear numeric targets for segregation reduction. In this approach, the Scheil module within Thermo-Calc is used to predict the as-cast segregation present within an alloy, and then diffusion controlled transformations is used to model homogenization kinetics as a function of time and temperature. Examples of computationally designed heat treatments and verification of their effects on segregation and properties of real castings are presented.
Kinetic Monte Carlo simulation of surface segregation in Pd–Cu alloys
Energy Technology Data Exchange (ETDEWEB)
Cheng, Feng [Institute of Theoretical and Computational Chemistry, School of Chemistry and Chemical Engineering, Key Laboratory of Mesoscopic Chemistry of MOE, Nanjing University (China); He, Xiang [Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008 (China); Chen, Zhao-Xu, E-mail: zxchen@nju.edu.cn [Institute of Theoretical and Computational Chemistry, School of Chemistry and Chemical Engineering, Key Laboratory of Mesoscopic Chemistry of MOE, Nanjing University (China); Huang, Yu-Gai [Institute of Theoretical and Computational Chemistry, School of Chemistry and Chemical Engineering, Key Laboratory of Mesoscopic Chemistry of MOE, Nanjing University (China); JiangSu Second Normal University, Nanjing (China)
2015-11-05
The knowledge of surface composition and atomic arrangement is prerequisite for understanding of catalytic properties of an alloy catalyst. Gaining such knowledge is rather difficult, especially for those possessing surface segregation. Pd–Cu alloy is used in many fields and possesses surface segregation. In this paper kinetic Monte Carlo method is used to explore the surface composition and structure and to examine the effects of bulk composition and temperature on the surface segregation of Pd–Cu alloys. It is shown that the segregation basically completes within 900 s at 500 K. Below 900 K and within 20 min the enriched surface Cu atoms mainly come from the top five layers. For the first time we demonstrate that there exists a “bulk-inside flocking” or clustering phenomenon (the same component element congregates in bulk) in Pd–Cu alloys. Our results indicate that for alloys with higher Cu content there are small Pd ensembles like monomers, dimers and trimers with contiguous subsurface Pd atoms. - Highlights: • Kinetic Monte Carlo was first used to study surface segregation of Pd–Cu alloys. • Bulk-inside flocking (the same component element congregates in bulk) was observed. • Small Pd ensembles with contiguous subsurface Pd exist on surfaces of Cu-rich alloys.
Kinetic Monte Carlo simulation of surface segregation in Pd–Cu alloys
International Nuclear Information System (INIS)
Cheng, Feng; He, Xiang; Chen, Zhao-Xu; Huang, Yu-Gai
2015-01-01
The knowledge of surface composition and atomic arrangement is prerequisite for understanding of catalytic properties of an alloy catalyst. Gaining such knowledge is rather difficult, especially for those possessing surface segregation. Pd–Cu alloy is used in many fields and possesses surface segregation. In this paper kinetic Monte Carlo method is used to explore the surface composition and structure and to examine the effects of bulk composition and temperature on the surface segregation of Pd–Cu alloys. It is shown that the segregation basically completes within 900 s at 500 K. Below 900 K and within 20 min the enriched surface Cu atoms mainly come from the top five layers. For the first time we demonstrate that there exists a “bulk-inside flocking” or clustering phenomenon (the same component element congregates in bulk) in Pd–Cu alloys. Our results indicate that for alloys with higher Cu content there are small Pd ensembles like monomers, dimers and trimers with contiguous subsurface Pd atoms. - Highlights: • Kinetic Monte Carlo was first used to study surface segregation of Pd–Cu alloys. • Bulk-inside flocking (the same component element congregates in bulk) was observed. • Small Pd ensembles with contiguous subsurface Pd exist on surfaces of Cu-rich alloys
Multiscale GasKinetics/Particle (MGP) Simulation for Rocket Plume/Lunar Dust Interactions Project
National Aeronautics and Space Administration — An efficient and accurate software package named ZMGP (ZONA Multi-scale Gaskinetic/Particle simulation package) is proposed as a 3D tool to predict the lunar dust...
Improved Conservation Properties for Particle-in-cell Simulations with Kinetic Electrons
International Nuclear Information System (INIS)
Lewandowski, J.L.V.
2003-01-01
It is shown that a simple algorithm which exactly segregates between adiabatic and non-adiabatic electrons in particle-in-cell simulations of drift modes yields excellent conservation properties (e.g. particle number, energy) compared to the conventional df scheme. The removal of the free streaming term in the evolution of the marker weight is shown to be responsible for the improved linear and nonlinear properties of the simulated plasma
Directory of Open Access Journals (Sweden)
Laura L. Perissinotti
2018-04-01
-models. The minimization procedure presented here, allowed assessment of suitability of different Markov model topologies and the corresponding parameters that describe the channel kinetics. The kinetics modeling pointed to key differences in the gating kinetics that were linked to the full channel structure. Interactions between soluble domains and the transmembrane part of the channel appeared to be critical determinants of the gating kinetics. The structures of the full channel in the open and closed states were compared for the first time using the recent Cryo-EM resolved structure for full open hERG channel and an homology model for the closed state, based on the highly homolog EAG1 channel. Key potential interactions which emphasize the importance of electrostatic interactions between N-PAS cap, S4-S5, and C-linker are suggested based on the structural analysis. The derived kinetic parameters were later used in higher order models of cells and tissue to track down the effect of varying the ratios of hERG1a and hERG1b on cardiac action potentials and computed electrocardiograms. Simulations suggest that the recovery from inactivation of hERG1b may contribute to its physiologic role of this isoform in the action potential. Finally, the results presented here contribute to the growing body of evidence that hERG1b significantly affects the generation of the cardiac Ikr and plays an important role in cardiac electrophysiology. We highlight the importance of carefully revisiting the Markov models previously proposed in order to properly account for the relative abundance of the hERG1 a- and b- isoforms.
International Nuclear Information System (INIS)
Dalla Torre, J.; Fu, C.-C.; Willaime, F.; Barbu, A.; Bocquet, J.-L.
2006-01-01
The isochronal resistivity recovery in high purity α-iron irradiated by electrons was successfully reproduced by a multiscale modelling approach. The stability and mobility of small self-defect clusters determined by ab initio methods were used as input data for an event based Kinetic Monte Carlo (KMC) model, used to explore the defect population evolution during the annealing and to extract the resistivity recovery peaks. In this paper, we investigate the possibility of using an efficient mesoscale model, the Cluster Dynamics (CD), instead of KMC in this approach. The comparison between the two methods for various CD initial conditions shows the importance of spatial correlations between defects, which are neglected in the CD model. However, using appropriate initial conditions, e.g. starting from the concentration of Frenkel pairs after the uncorrelated stage I E , the CD model captures the main characteristics of subsequent defect population evolution, and it can therefore be used for fast and semi-quantitative investigations
A comprehensive detailed kinetic mechanism for the simulation of transportation fuels
Mehl, Marco
2017-02-27
This work presents a recently compiled comprehensive model for transportations fuels resulting from the collaboration of three research groups: LLNL, NUI Galway and KAUST. In the past 5 years new fundamental calculations led to significant improvements in the fidelity of detailed kinetic models of important surrogate components (e.g. n-heptane, iso-octane, toluene…) improving predictions of the combustion behavior of pure components and mixtures. By extending the newly adopted reaction rate rules, mechanisms for components that were not included in the previous LLNL gasoline and diesel surrogate mechanisms were developed (e.g. polyalkylated aromatics, cycloalkanes, components from bio-logical sources…). The major features of this updated and extended model are presented together with validation comparisons, examples of applications and future directions.
Goal-oriented sensitivity analysis for lattice kinetic Monte Carlo simulations.
Arampatzis, Georgios; Katsoulakis, Markos A
2014-03-28
In this paper we propose a new class of coupling methods for the sensitivity analysis of high dimensional stochastic systems and in particular for lattice Kinetic Monte Carlo (KMC). Sensitivity analysis for stochastic systems is typically based on approximating continuous derivatives with respect to model parameters by the mean value of samples from a finite difference scheme. Instead of using independent samples the proposed algorithm reduces the variance of the estimator by developing a strongly correlated-"coupled"- stochastic process for both the perturbed and unperturbed stochastic processes, defined in a common state space. The novelty of our construction is that the new coupled process depends on the targeted observables, e.g., coverage, Hamiltonian, spatial correlations, surface roughness, etc., hence we refer to the proposed method as goal-oriented sensitivity analysis. In particular, the rates of the coupled Continuous Time Markov Chain are obtained as solutions to a goal-oriented optimization problem, depending on the observable of interest, by considering the minimization functional of the corresponding variance. We show that this functional can be used as a diagnostic tool for the design and evaluation of different classes of couplings. Furthermore, the resulting KMC sensitivity algorithm has an easy implementation that is based on the Bortz-Kalos-Lebowitz algorithm's philosophy, where events are divided in classes depending on level sets of the observable of interest. Finally, we demonstrate in several examples including adsorption, desorption, and diffusion Kinetic Monte Carlo that for the same confidence interval and observable, the proposed goal-oriented algorithm can be two orders of magnitude faster than existing coupling algorithms for spatial KMC such as the Common Random Number approach. We also provide a complete implementation of the proposed sensitivity analysis algorithms, including various spatial KMC examples, in a supplementary MATLAB
Goal-oriented sensitivity analysis for lattice kinetic Monte Carlo simulations
International Nuclear Information System (INIS)
Arampatzis, Georgios; Katsoulakis, Markos A.
2014-01-01
In this paper we propose a new class of coupling methods for the sensitivity analysis of high dimensional stochastic systems and in particular for lattice Kinetic Monte Carlo (KMC). Sensitivity analysis for stochastic systems is typically based on approximating continuous derivatives with respect to model parameters by the mean value of samples from a finite difference scheme. Instead of using independent samples the proposed algorithm reduces the variance of the estimator by developing a strongly correlated-“coupled”- stochastic process for both the perturbed and unperturbed stochastic processes, defined in a common state space. The novelty of our construction is that the new coupled process depends on the targeted observables, e.g., coverage, Hamiltonian, spatial correlations, surface roughness, etc., hence we refer to the proposed method as goal-oriented sensitivity analysis. In particular, the rates of the coupled Continuous Time Markov Chain are obtained as solutions to a goal-oriented optimization problem, depending on the observable of interest, by considering the minimization functional of the corresponding variance. We show that this functional can be used as a diagnostic tool for the design and evaluation of different classes of couplings. Furthermore, the resulting KMC sensitivity algorithm has an easy implementation that is based on the Bortz–Kalos–Lebowitz algorithm's philosophy, where events are divided in classes depending on level sets of the observable of interest. Finally, we demonstrate in several examples including adsorption, desorption, and diffusion Kinetic Monte Carlo that for the same confidence interval and observable, the proposed goal-oriented algorithm can be two orders of magnitude faster than existing coupling algorithms for spatial KMC such as the Common Random Number approach. We also provide a complete implementation of the proposed sensitivity analysis algorithms, including various spatial KMC examples, in a supplementary
Goal-oriented sensitivity analysis for lattice kinetic Monte Carlo simulations
Energy Technology Data Exchange (ETDEWEB)
Arampatzis, Georgios, E-mail: garab@math.uoc.gr [Department of Applied Mathematics, University of Crete (Greece); Department of Mathematics and Statistics, University of Massachusetts, Amherst, Massachusetts 01003 (United States); Katsoulakis, Markos A., E-mail: markos@math.umass.edu [Department of Mathematics and Statistics, University of Massachusetts, Amherst, Massachusetts 01003 (United States)
2014-03-28
In this paper we propose a new class of coupling methods for the sensitivity analysis of high dimensional stochastic systems and in particular for lattice Kinetic Monte Carlo (KMC). Sensitivity analysis for stochastic systems is typically based on approximating continuous derivatives with respect to model parameters by the mean value of samples from a finite difference scheme. Instead of using independent samples the proposed algorithm reduces the variance of the estimator by developing a strongly correlated-“coupled”- stochastic process for both the perturbed and unperturbed stochastic processes, defined in a common state space. The novelty of our construction is that the new coupled process depends on the targeted observables, e.g., coverage, Hamiltonian, spatial correlations, surface roughness, etc., hence we refer to the proposed method as goal-oriented sensitivity analysis. In particular, the rates of the coupled Continuous Time Markov Chain are obtained as solutions to a goal-oriented optimization problem, depending on the observable of interest, by considering the minimization functional of the corresponding variance. We show that this functional can be used as a diagnostic tool for the design and evaluation of different classes of couplings. Furthermore, the resulting KMC sensitivity algorithm has an easy implementation that is based on the Bortz–Kalos–Lebowitz algorithm's philosophy, where events are divided in classes depending on level sets of the observable of interest. Finally, we demonstrate in several examples including adsorption, desorption, and diffusion Kinetic Monte Carlo that for the same confidence interval and observable, the proposed goal-oriented algorithm can be two orders of magnitude faster than existing coupling algorithms for spatial KMC such as the Common Random Number approach. We also provide a complete implementation of the proposed sensitivity analysis algorithms, including various spatial KMC examples, in a
Núñez, M; Robie, T; Vlachos, D G
2017-10-28
Kinetic Monte Carlo (KMC) simulation provides insights into catalytic reactions unobtainable with either experiments or mean-field microkinetic models. Sensitivity analysis of KMC models assesses the robustness of the predictions to parametric perturbations and identifies rate determining steps in a chemical reaction network. Stiffness in the chemical reaction network, a ubiquitous feature, demands lengthy run times for KMC models and renders efficient sensitivity analysis based on the likelihood ratio method unusable. We address the challenge of efficiently conducting KMC simulations and performing accurate sensitivity analysis in systems with unknown time scales by employing two acceleration techniques: rate constant rescaling and parallel processing. We develop statistical criteria that ensure sufficient sampling of non-equilibrium steady state conditions. Our approach provides the twofold benefit of accelerating the simulation itself and enabling likelihood ratio sensitivity analysis, which provides further speedup relative to finite difference sensitivity analysis. As a result, the likelihood ratio method can be applied to real chemistry. We apply our methodology to the water-gas shift reaction on Pt(111).
Núñez, M.; Robie, T.; Vlachos, D. G.
2017-10-01
Kinetic Monte Carlo (KMC) simulation provides insights into catalytic reactions unobtainable with either experiments or mean-field microkinetic models. Sensitivity analysis of KMC models assesses the robustness of the predictions to parametric perturbations and identifies rate determining steps in a chemical reaction network. Stiffness in the chemical reaction network, a ubiquitous feature, demands lengthy run times for KMC models and renders efficient sensitivity analysis based on the likelihood ratio method unusable. We address the challenge of efficiently conducting KMC simulations and performing accurate sensitivity analysis in systems with unknown time scales by employing two acceleration techniques: rate constant rescaling and parallel processing. We develop statistical criteria that ensure sufficient sampling of non-equilibrium steady state conditions. Our approach provides the twofold benefit of accelerating the simulation itself and enabling likelihood ratio sensitivity analysis, which provides further speedup relative to finite difference sensitivity analysis. As a result, the likelihood ratio method can be applied to real chemistry. We apply our methodology to the water-gas shift reaction on Pt(111).
Singh, Awaneesh; Singh, Amrita; Chakraborti, Anirban
2017-09-01
We present Monte Carlo (MC) simulation studies of phase separation in binary (AB) mixtures with bond-disorder that is introduced in two different ways: (i) at randomly selected lattice sites and (ii) at regularly selected sites. The Ising model with spin exchange (Kawasaki) dynamics represents the segregation kinetics in conserved binary mixtures. We find that the dynamical scaling changes significantly by varying the number of disordered sites in the case where bond-disorder is introduced at the randomly selected sites. On the other hand, when we introduce the bond-disorder in a regular fashion, the system follows the dynamical scaling for the modest number of disordered sites. For a higher number of disordered sites, the evolution morphology illustrates a lamellar pattern formation. Our MC results are consistent with the Lifshitz-Slyozov power-law growth in all the cases.
International Nuclear Information System (INIS)
Guo, Zhifang; Hong, Minghua; Du, Aimin; Lin, Yu; Wang, Xueyi; Wu, Mingyu; Lu, Quanming
2015-01-01
In this paper, effects of a fast flow in the tail plasma sheet on the generation of kinetic Alfven waves (KAWs) in the high-latitude of the near-Earth magnetotail are investigated by performing a two-dimensional (2-D) global-scale hybrid simulation, where the plasma flow is initialized by the E×B drift near the equatorial plane due to the existence of the dawn-dusk convection electric field. It is found that firstly, the plasma sheet becomes thinned and the dipolarization of magnetic field appears around (x,z)=(−10.5R E ,0.3R E ), where R E is the radius of the Earth. Then, shear Alfven waves are excited in the plasma sheet, and the strong earthward flow is braked by the dipole-like magnetic field. These waves propagate along the magnetic field lines toward the polar regions later. Subsequently, KAWs with k ⊥ ≫k ∥ are generated in the high-latitude magnetotail due to the existence of the non-uniformity of the magnetic field and density in the polar regions. The ratio of the electric field to the magnetic field in these waves is found to obey the relation (δE z )/(δB y )∼ω/k ∥ of KAWs. Our simulation provides a mechanism for the generation of the observed low-frequency shear Alfven waves in the plasma sheet and kinetic Alfven waves in the high-latitude near-Earth magnetotail, whose source is suggested to be the flow braking in the low-latitude plasma sheet
Ustinov, E A
2017-01-21
The paper aims at a comparison of techniques based on the kinetic Monte Carlo (kMC) and the conventional Metropolis Monte Carlo (MC) methods as applied to the hard-sphere (HS) fluid and solid. In the case of the kMC, an alternative representation of the chemical potential is explored [E. A. Ustinov and D. D. Do, J. Colloid Interface Sci. 366, 216 (2012)], which does not require any external procedure like the Widom test particle insertion method. A direct evaluation of the chemical potential of the fluid and solid without thermodynamic integration is achieved by molecular simulation in an elongated box with an external potential imposed on the system in order to reduce the particle density in the vicinity of the box ends. The existence of rarefied zones allows one to determine the chemical potential of the crystalline phase and substantially increases its accuracy for the disordered dense phase in the central zone of the simulation box. This method is applicable to both the Metropolis MC and the kMC, but in the latter case, the chemical potential is determined with higher accuracy at the same conditions and the number of MC steps. Thermodynamic functions of the disordered fluid and crystalline face-centered cubic (FCC) phase for the hard-sphere system have been evaluated with the kinetic MC and the standard MC coupled with the Widom procedure over a wide range of density. The melting transition parameters have been determined by the point of intersection of the pressure-chemical potential curves for the disordered HS fluid and FCC crystal using the Gibbs-Duhem equation as a constraint. A detailed thermodynamic analysis of the hard-sphere fluid has provided a rigorous verification of the approach, which can be extended to more complex systems.
Yang, Caiqin; Guo, Wei; Lin, Yulong; Lin, Qianqian; Wang, Jiaojiao; Wang, Jing; Zeng, Yanli
2018-05-30
In this study, a new cocrystal of felodipine (Fel) and glutaric acid (Glu) with a high dissolution rate was developed using the solvent ultrasonic method. The prepared cocrystal was characterized using X-ray powder diffraction, differential scanning calorimetry, thermogravimetric (TG) analysis, and infrared (IR) spectroscopy. To provide basic information about the optimization of pharmaceutical preparations of Fel-based cocrystals, this work investigated the thermal decomposition kinetics of the Fel-Glu cocrystal through non-isothermal thermogravimetry. Density functional theory (DFT) simulations were also performed on the Fel monomer and the trimolecular cocrystal compound for exploring the mechanisms underlying hydrogen bonding formation and thermal decomposition. Combined results of IR spectroscopy and DFT simulation verified that the Fel-Glu cocrystal formed via the NH⋯OC and CO⋯HO hydrogen bonds between Fel and Glu at the ratio of 1:2. The TG/derivative TG curves indicated that the thermal decomposition of the Fel-Glu cocrystal underwent a two-step process. The apparent activation energy (E a ) and pre-exponential factor (A) of the thermal decomposition for the first stage were 84.90 kJ mol -1 and 7.03 × 10 7 min -1 , respectively. The mechanism underlying thermal decomposition possibly involved nucleation and growth, with the integral mechanism function G(α) of α 3/2 . DFT calculation revealed that the hydrogen bonding between Fel and Glu weakened the terminal methoxyl, methyl, and ethyl groups in the Fel molecule. As a result, these groups were lost along with the Glu molecule in the first thermal decomposition. In conclusion, the formed cocrystal exhibited different thermal decomposition kinetics and showed different E a , A, and shelf life from the intact active pharmaceutical ingredient. Copyright © 2018 Elsevier B.V. All rights reserved.
Gharaee, H.; Rankin, R.; Marchand, R.; Paral, J.
2014-12-01
The ARTEMIS mission has made extensive measurements on the density and magnetic field structure of the lunar wake under different solar wind and magnetosphere conditions. Hybrid-kinetic simulations of the lunar wake have been found to be generally in good agreement with observations [Wiehle, S., et al., Planet. Space Sci., 2011], but are not readily available as they require access to large computers and human resources with expertise using this technology. It would be very useful to have an analytic model of the lunar wake, and one such model will be presented. It is based on an approach outlined by Hutchinson [Hutchinson, I., Physics Of Plasmas, 2008], and makes assumptions of cylindrical geometry, a strong and constant magnetic field, and fixed transverse velocity and temperature. Under these approximations the ion fluid equations (with massless electrons assumed) can be solved analytically by the method of characteristics. This paper demonstrates that the analytic model under these assumptions provides excellent agreement with observations and hybrid-kinetic simulations of the lunar wake. The approach outlined by Hutchinson is generalized to include an arbitrary angle between the interplanetary magnetic field and solar wind flow. This results in two angle-dependent characteristics for the fluid flow that can be solved for the density inside the wake region. The Density profiles for different orientations of magnetic field with respect to solar wind flow are in a good qualitative agreement with 2D Hybrid simulation results of the model developed by [Paral and Rankin, Nature Comms, 2012], and with ARTEMIS observations. Refrences, -Wiehle, S., et al. (2011), First Lunar wake passage of Artemis: Discrimination of wake effects and solar wind flactuations by 3D hybrid simulations, Planet. Space Sci., 59, 661-671, doi:10.1016/j.pss.2011.01.012. -Hutchinson, I. (2008),Oblique ion collection in the drift approximation:How magnetized Mach probes really work, Physics Of
CO2 capture using aqueous ammonia: kinetic study and process simulation
DEFF Research Database (Denmark)
Darde, Victor Camille Alfred; van Well, Willy J.M.; Stenby, Erling Halfdan
2011-01-01
Carbon dioxide capture using aqueous ammonia is a post-combustion technology that has shown a good potential. Therefore this process is studied by measuring the rate of absorption of carbon dioxide by aqueous ammonia and by performing process simulation. The rate of absorption of carbon dioxide b...
2012-10-25
counterflow burner, a vaporization system, flow controllers, an online Fourier transform infrared ( FTIR ) spectrometer, and a laser induced fluorescence...plane Laser sheet for LIF Air Heater Heater N2 Fuel Atomization & evaporation Temperature measurements 59 vaporizing temperature, an FTIR ...amounts of indene being formed. The model simulates the fuel decay and formation of most of the intermediates accurately for all the experimental data
Alternative fatty simulants and diffusion kinetics of nylon 12 food packaging
Stoffers, N.H.; Dekker, M.; Linssen, J.P.H.; Stoermer, A.; Franz, R.
2003-01-01
The migration of laurolactam and cyclic di- and trimer of nylon 12 was assessed using three different films and five food simulants (olive oil, isooctane, 95% ethanol, 50% ethanol, water). Substitute test conditions for migration into olive oil according to European Union Directive EC/97/48 were
International Nuclear Information System (INIS)
Parisot, M.
2011-01-01
This work is dedicated study of a problem resulting from plasma physics: the thermal transfer of electrons in a plasma close to equilibrium Maxwellian. Firstly, a dimensional study of the Vlasov-Fokker-Planck-Maxwell system is performed, allowing one hand to identify a physically relevant parameter of scale and also to define mathematically the contours of validity domain. The asymptotic regime called Spitzer-Harm is studied for a relatively general class of collision operator. The following part of this work is devoted to the derivation and study of the hydrodynamic limit of the system of Vlasov-Maxwell-Landau outside the strictly asymptotic. A model proposed by Schurtz and Nicolais located in this context and analyzed. The particularity of this model lies in the application of a delocalization operation in the heat flux. The link with non-local models of Luciani and Mora is established as well as mathematics properties as the principle of maximum and entropy dissipation. Then a formal derivation from the Vlasov equations with a simplified collision operator, is proposed. The derivation, inspired by the recent work of D. Levermore, involves decomposition methods according to the spherical harmonics and methods of closing called diffusion methods. A hierarchy of intermediate models between the kinetic equations and the hydrodynamic limit is described. In particular a new hydrodynamic system integro-differential by nature, is proposed. The Schurtz and Nicolai model appears as a simplification of the system resulting from the derivation, assuming a steady flow of heat. The above results are then generalized to account for the internal energy dependence which appears naturally in the equation establishment. The existence and uniqueness of the solution of the nonstationary system are established in a simplified framework. The last part is devoted was the implementation of a specific numerical scheme to solve these models. We propose a finite volume approach can be
International Nuclear Information System (INIS)
Bogdanov, E.A.; Kudryavtsev, A.A.; Tsendin, L.D.; Arslanbekov, R.R.; Kolobov, V.I.; Kudryavtsev, V.V.
2003-01-01
The comparison of the kinetic and fluid calculations by modeling the plasma of the positive column of the direct-current discharge in oxygen is carried out through the CDFRC commercial software, making it possible to conduct the simulations in the arbitrary 3D geometry with application of both the fluid equations for all the components and with the solution of the kinetic equation for determining the electrons distribution function. It is shown, that both in the local and in the nonlocal modes of the electrons distribution function formation its nonmaxwelliality is well accounted for through approximation by two groups of electrons. This makes it possible to account in the simplest way for the kinetic effects within the frames of the traditional fluid model through applying the proposed two-temperature approximation of the nonequilibrium and nonlocal electrons distribution function [ru
International Nuclear Information System (INIS)
Ghiass, M.; Dabir, B.; Nikazar, M.; Rey, A.D.; Mirzadeh, H.
2001-01-01
A kinetic gelation model that incorporates the kinetics of free radical homo polymerization is implemented to determine the effects of kinetics on polymerization statistics and microstructures. The simulation is performed on a simple cubic lattice that has 100 sites in each direction. A new algorithm for random selecting of the next step in a self-avoiding random walk and very efficient mechanisms of mobility of components are introduced to improve the generality of the predictions by removing commonly accruing deficiencies due to early trapping of radicals. A first order kinetics is considered for decomposition of initiator that enables us to consider the effect of temperature on polymerization reaction. Better understanding of microstructural evolution during polymerization and providing a framework to produce a realistic system of highly packed random chains within polymer network are among the benefits of model
Modeling, Simulation, and Kinetic Studies of Solvent-Free Biosynthesis of Benzyl Acetate
Directory of Open Access Journals (Sweden)
Vijay Kumar Garlapati
2013-01-01
Full Text Available Solvent-free biosynthesis of benzyl acetate through immobilized lipase-mediated transesterification has been modeled and optimized through statistical integrated artificial intelligence approach. A nonlinear response surface model has been successfully developed based on central composite design with transesterification variables, namely, molarity of alcohol, reaction time, temperature, and immobilized lipase amount as input variables and molar conversion (% as an output variable. Statistical integrated genetic algorithm optimization approach results in an optimized molar conversion of 96.32% with the predicted transesterification variables of 0.47 M alcohol molarity in a reaction time of 13.1 h, at 37.5°C using 13.31 U of immobilized lipase. Immobilized lipase withstands more than 98% relative activity up to 6 recycles and maintains 50% relative activity until 12 recycles. The kinetic constants of benzyl acetate, namely, Km and Vmax were found to be 310 mM and 0.10 mmol h−1 g−1, respectively.
Directory of Open Access Journals (Sweden)
Matteo Gabba
Full Text Available Cytoglobin (Cygb was recently discovered in the human genome and localized in different tissues. It was suggested to play tissue-specific protective roles, spanning from scavenging of reactive oxygen species in neurons to supplying oxygen to enzymes in fibroblasts. To shed light on the functioning of such versatile machinery, we have studied the processes supporting transport of gaseous heme ligands in Cygb. Carbon monoxide rebinding shows a complex kinetic pattern with several distinct reaction intermediates, reflecting rebinding from temporary docking sites, second order recombination, and formation (and dissociation of a bis-histidyl heme hexacoordinated reaction intermediate. Ligand exit to the solvent occurs through distinct pathways, some of which exploit temporary docking sites. The remarkable change in energetic barriers, linked to heme bis-histidyl hexacoordination by HisE7, may be responsible for active regulation of the flux of reactants and products to and from the reaction site on the distal side of the heme. A substantial change in both protein dynamics and inner cavities is observed upon transition from the CO-liganded to the pentacoordinated and bis-histidyl hexacoordinated species, which could be exploited as a signalling state. These findings are consistent with the expected versatility of the molecular activity of this protein.
Dziki, Dariusz; Polak, Renata; Rudy, Stanisław; Krzykowski, Andrzej; Gawlik-Dziki, Urszula; Różyło, Renata; Miś, Antoni; Combrzyński, Maciej
2018-01-01
Investigations were performed to study the freeze-drying process of kale (Brassica oleracea L. var acephala). The process of freeze-drying was performed at temperatures of 20, 40, and 60°C for whole pieces of leaves and for pulped leaves. The kinetics of the freeze-drying of both kale leaves and kale pulp were best described by the Page model. The increasing freeze-drying temperature from 20 to 60°C induced an approximately two-fold decrease in the drying time. Freeze-drying significantly increased the value of the lightness, delta Chroma, and browning index of kale, and had little influence on the hue angle. The highest increase in the lightness and delta Chroma was observed for whole leaves freeze-dried at 20°C. An increase in the drying temperature brought about a slight decrease in the lightness, delta Chroma and the total colour difference. Pulping decreased the lightness and hue angle, and increased browning index. Freeze-drying engendered a slight decrease in the total phenolics content and antioxidant activity, in comparison to fresh leaves. The temperature of the process and pulping had little influence on the total phenolics content and antioxidant activity of dried kale, but significantly decreased the contents of chlorophyll a and chlorophyll b.
Degradation kinetics of six sulfonamides in hen eggs under simulated cooking temperatures
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YING-HUA ZHANG
2011-08-01
Full Text Available Six sulfonamides, i.e., sulfadiazine, sulfadimethoxine, sulfamerazine, sulfamethazine, sulfamethoxazole and sulfamonomethoxine, were applied to spike whole hen eggs at 0.1 mg kg-1 eggs. The spiked hen eggs were heated at 80 and 100 °C to investigate the degradation kinetics of the sulfonamides under simulated cooking conditions. The sulfonamides added were extracted twice from the spiked eggs with dichloromethane by an ultrasonic-assisted extraction, and analyzed by a HPLC method after purification. The first-order rate constants and half-life times of the sulfonamides were calculated, and the corresponding apparent activation energy of their degradation was also obtained by application of the Arrhenius equation. The results indicated that all six sulfonamides degraded faster at the higher heating temperature, with first-order rate constants ranging from 0.0056 to 0.0108 min-1 at 80 °C and from 0.0147 to 0.0394 min-1 at 100 °C. The apparent activation energies for the degradation of the sulfonamides were estimated to be in the range 30.9 to 77.5 kJ mol-1. Sulfadiazine and sulfadimethoxine had the shortest and longest half-life time, respectively, and were the most instable and stable.
Oxidation kinetics of simulated metallic spent fuel in air at 200∼300 .deg. C
International Nuclear Information System (INIS)
Joo, J. S.; Yoo, K. S.; Jo, I. J.; Kook, D. H.; Lee, E. P.; Lee, J. C.; Bang, K. S.; Kim, H. D.
2003-01-01
In order to evaluate the long term storage safety study of the metallic spent fuel, U-5Zr, U-5Ti, U-5Ni, U-5Nb, and U-5Hf simulated metallic uranium alloys, known as corrosion resistant alloys, were fabricated and oxidized in oxygen gas at 200 .deg. C ∼ 300 .deg. C. All simulated metallic uranium alloys were more corrosion resistant than pure uranium metal, and corrosion resistance increases Nb, Ni, Ti, Zr, Hf in that order. The oxidation rates of uranium alloys determined and activation energy was calculated for each alloy. The matrix microstructure of the test specimens were analyzed using OM, SEM, and EPMA. It was concluded that Nb was the best acceptable alloying elements for reducing corrosion of uranium metal, and Ni, Ti were also considered to suitable as candidate
The kinetic Monte Carlo simulations of the self-diffusivity in zeolites
Czech Academy of Sciences Publication Activity Database
Tarasenko, Alexander; Jastrabík, Lubomír
326-328, APR (2012), s. 99-104 ISSN 1012-0386. [International Conference on Diffusion in Solids and Liquids (DSL 2011) /7./. Algarve, 26.06.2011-30.06.2011] R&D Projects: GA TA ČR TA01010517; GA ČR GAP108/12/1941 Institutional research plan: CEZ:AV0Z10100522 Keywords : zeolites * diffusion * MC simulations Subject RIV: BM - Solid Matter Physics ; Magnetism
Keilbach, D.; Drews, C.; Taut, A.; Wimmer-Schweingruber, R. F.
2016-12-01
Recent studies of the inflow direction of the local insterstellar medium from PUI density distributions have shown that the extrema of the longitudinal distribution of PUI velocities (with respect to the solar wind speed) can be attributed to the radial velocity of the interstellar neutral seed population and is symmetric around the inflow direction of the local interstellar medium. This work is aimed to model pickup ion injection rates from photoionization (which is the main process of interstellar PUI production) throughout the heliosphere. To that end a seed population of interstellar neutrals is injected into a model heliosphere at 60 AU distance from the sun, whereas each particle's initial speed is given by a maxwellian distribution at a temperature of 1 eV and an inflow speed of 22 km/s. Then the density of the interstellar neutrals is integrated over the model heliosphere, while the movement of the neutrals is simulated using timestep methods. To model the focusing of the interstellar neutral trajectories from the sun's gravitational potential the model heliosphere contains a central gravitational potential.Each neutral test particle can be ionized via photoionization with a per-timestep probability antiproportional to the neutral's distance to the sun squared. By tracking the ionization rate location-dependently, PUI injection rates have been determined. Therefore using these simulations the density distributions of different species of interstellar neutrals have been calculated. In addition location-dependent injection rates of different species of PUIs have been calculated, which show an increased rate of PUI production in the focusing cone region (e.g. for He+ PUIs), but also in the crescent region (e.g. for O+ PUIs).Furthermore the longitudinal distribution of the neutrals' velocity at 1 AU is calculated from the simulation's results in order to estimate the PUI cut-off as a function of ecliptic longitude. Figure: Simulated He neutral density (left
Energy Technology Data Exchange (ETDEWEB)
Reis, Patricia A.L.; Costa, Antonella L.; Hamers, Adolfo R.; Pereira, Claubia; Rodrigues, Thiago D.A.; Mantecon, Javier G.; Veloso, Maria A.F., E-mail: patricialire@yahoo.com.br, E-mail: antonella@nuclear.ufmg.br, E-mail: adolforomerohamers@hotmail.com, E-mail: claubia@nuclear.ufmg.br, E-mail: thiagodanielbh@gmail.com, E-mail: mantecon1987@gmail.com, E-mail: dora@nuclear.ufmg.br [Universidade Federal de Minas Gerais (UFMG), Belo Horizonte, MG (Brazil). Departamento de Engenharia Nuclear; Instituto Nacional de Ciencias e Tecnologia de Reatores Nucleares Inovadores (INCT/CNPq), Belo Horizonte (Brazil); Miro, Rafael; Verdu, Gumersindo, E-mail: rmiro@iqn.upv.es, E-mail: gverdu@iqn.upv.es [Universidad Politecnica de Valencia (Spain). Departamento de Ingenieria Quimica y Nuclear
2015-07-01
The computational advances observed in the last two decades have been provided direct impact on the researches related to nuclear simulations, which use several types of computer codes, including coupled between them, allowing representing with very accuracy the behavior of nuclear plants. Studies of complex scenarios in nuclear reactors have been improved by the use of thermal-hydraulic (TH) and neutron kinetics (NK) coupled codes. This technique consists in incorporating three-dimensional (3D) neutron modeling of the reactor core into codes, mainly to simulate transients that involve asymmetric core spatial power distributions and strong feedback effects between neutronics and reactor thermal-hydraulics. Therefore, this work presents preliminary results of TH RELAP5 and the NK PARCS calculations applied to model of the Angra 2 reactor. The WIMSD-5B code has been used to generate the macroscopic cross sections used in the NK code. The results obtained are satisfactory and represent important part of the development of this methodology. The next step is to couple the codes. (author)
Gou, Lin; Lee, Jinhyuk; Yang, Jun-Mo; Park, Yong-Doo; Zhou, Hai-Meng; Zhan, Yi; Lü, Zhi-Rong
2017-12-01
Alpha-ketoglutaric acid (AKG) is naturally found in organisms and is a well-known intermediate in the production of ATP or GTP in the Krebs cycle. We elucidated the effects of AKG on tyrosinase activity and conformation via methods of inhibition kinetics integrated with molecular dynamics (MD) simulations. AKG was found to be a reversible inhibitor of tyrosinase (IC 50 =15±0.5mM) and induced parabolic slope mixed-type inhibition. Based on our newly established equation, the dissociation constant (K islope ) was determined to be 7.93±0.31mM. The spectrofluorimetry studies showed that AKG mainly induced regional changes in the active site of tyrosinase, which reflects the flexibility of the active site. The computational docking and molecular dynamics (MD) simulations further demonstrated that AKG could interact with several residues near the substrate-binding site located in the tyrosinase active site pocket. Our study provides insight into the mechanism by which energy-producing intermediates such as AKG inhibit tyrosinase through its ketone groups. Also, AKG could be a potential natural antipigmentation agent due to its non-toxic property. Copyright © 2016 Elsevier B.V. All rights reserved.
Energy Technology Data Exchange (ETDEWEB)
Chiapetto, M. [SCK-CEN, Nuclear Materials Science Institute, Mol (Belgium); Unite Materiaux et Transformations (UMET), UMR 8207, Universite de Lille 1, ENSCL, Villeneuve d' Ascq (France); Becquart, C.S. [Unite Materiaux et Transformations (UMET), UMR 8207, Universite de Lille 1, ENSCL, Villeneuve d' Ascq (France); Laboratoire commun EDF-CNRS, Etude et Modelisation des Microstructures pour le Vieillissement des Materiaux (EM2VM) (France); Domain, C. [EDF R and D, Departement Materiaux et Mecanique des Composants, Les Renardieres, Moret sur Loing (France); Laboratoire commun EDF-CNRS, Etude et Modelisation des Microstructures pour le Vieillissement des Materiaux (EM2VM) (France); Malerba, L. [SCK-CEN, Nuclear Materials Science Institute, Mol (Belgium)
2015-01-01
Post-irradiation annealing experiments are often used to obtain clearer information on the nature of defects produced by irradiation. However, their interpretation is not always straightforward without the support of physical models. We apply here a physically-based set of parameters for object kinetic Monte Carlo (OKMC) simulations of the nanostructural evolution of FeMnNi alloys under irradiation to the simulation of their post-irradiation isochronal annealing, from 290 to 600 C. The model adopts a ''grey alloy'' scheme, i.e. the solute atoms are not introduced explicitly, only their effect on the properties of point-defect clusters is. Namely, it is assumed that both vacancy and SIA clusters are significantly slowed down by the solutes. The slowing down increases with size until the clusters become immobile. Specifically, the slowing down of SIA clusters by Mn and Ni can be justified in terms of the interaction between these atoms and crowdions in Fe. The results of the model compare quantitatively well with post-irradiation isochronal annealing experimental data, providing clear insight into the mechanisms that determine the disappearance or re-arrangement of defects as functions of annealing time and temperature. (copyright 2015 WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim) (orig.)
Directory of Open Access Journals (Sweden)
Hong-Jian Liu
2012-01-01
Full Text Available Tyrosinase is a ubiquitous enzyme with diverse physiologic roles related to pigment production. Tyrosinase inhibition has been well studied for cosmetic, medicinal, and agricultural purposes. We simulated the docking of tyrosinase and D-(−-arabinose and found a binding energy of −4.5 kcal/mol for theup-formof D-(−-arabinose and −4.4 kcal/mol for thedown-form of D-(−-arabinose. The results of molecular dynamics simulation suggested that D-(−-arabinose interacts mostly with HIS85, HIS259, and HIS263, which are believed to be in the active site. Our kinetic study showed that D-(−-arabinose is a reversible, mixed-type inhibitor of tyrosinase (α-value =6.11±0.98, Ki=0.21±0.19 M. Measurements of intrinsic fluorescence showed that D-(−-arabinose induced obvious tertiary changes to tyrosinase (binding constant K=1.58±0.02 M−1, binding number n=1.49±0.06. This strategy of predicting tyrosinase inhibition based on specific interactions of aldehyde and hydroxyl groups with the enzyme may prove useful for screening potential tyrosinase inhibitors.
Directory of Open Access Journals (Sweden)
S.B. Jonnalagadda
2012-08-01
Full Text Available ‘Simkine3’, a Delphi based software is developed to simulate the kinetic schemes of complex reaction mechanisms involving multiple sequential and competitive elementary steps for homogeneous and heterogeneous chemical reactions. Simkine3 is designed to translate the user specified mechanism into chemical first-order differential equations (ODEs and optimise the estimated rate constants in such a way that simulated curves match the experimental kinetic profiles. TLSoda which uses backward differentiation method is utilised to solve resulting ODEs and Downhill Simplex method is used to optimise the estimated rate constants in a robotic way. An online help file is developed using HelpScrible Demo to guide the users of Simkine3. The versatility of the software is demonstrated by simulating the complex reaction between methylene violet and acidic bromate, a reaction which exhibits complex nonlinear kinetics. The new software is validated after testing it on a 19-step intricate mechanism involving 15 different species. The kinetic profiles of multiple simulated curves, illustrating the effect of initial concentrations of bromate, and bromide were matched with the corresponding experimental curves.DOI: http://dx.doi.org/10.4314/bcse.v26i2.10
Gyrocenter-gauge kinetic theory
International Nuclear Information System (INIS)
Qin, H.; Tang, W.M.; Lee, W.W.
2000-01-01
Gyrocenter-gauge kinetic theory is developed as an extension of the existing gyrokinetic theories. In essence, the formalism introduced here is a kinetic description of magnetized plasmas in the gyrocenter coordinates which is fully equivalent to the Vlasov-Maxwell system in the particle coordinates. In particular, provided the gyroradius is smaller than the scale-length of the magnetic field, it can treat high frequency range as well as the usual low frequency range normally associated with gyrokinetic approaches. A significant advantage of this formalism is that it enables the direct particle-in-cell simulations of compressional Alfven waves for MHD applications and of RF waves relevant to plasma heating in space and laboratory plasmas. The gyrocenter-gauge kinetic susceptibility for arbitrary wavelength and arbitrary frequency electromagnetic perturbations in a homogeneous magnetized plasma is shown to recover exactly the classical result obtained by integrating the Vlasov-Maxwell system in the particle coordinates. This demonstrates that all the waves supported by the Vlasov-Maxwell system can be studied using the gyrocenter-gauge kinetic model in the gyrocenter coordinates. This theoretical approach is so named to distinguish it from the existing gyrokinetic theory, which has been successfully developed and applied to many important low-frequency and long parallel wavelength problems, where the conventional meaning of gyrokinetic has been standardized. Besides the usual gyrokinetic distribution function, the gyrocenter-gauge kinetic theory emphasizes as well the gyrocenter-gauge distribution function, which sometimes contains all the physics of the problems being studied, and whose importance has not been realized previously. The gyrocenter-gauge distribution function enters Maxwell's equations through the pull-back transformation of the gyrocenter transformation, which depends on the perturbed fields. The efficacy of the gyrocenter-gauge kinetic approach is
Kinetic Simulations of the Self-Focusing and Dissipation of Finite-Width Electron Plasma Waves
Energy Technology Data Exchange (ETDEWEB)
Winjum, B. J. [Univ. of California, Los Angeles, CA (United States); Berger, R. L. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Chapman, T. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Banks, J. W. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Brunner, S. [Federal Inst. of Technology, Lausanne (Switzerland)
2013-09-01
Two-dimensional simulations, both Vlasov and particle-in-cell, are presented that show the evolution of the field and electron distribution of finite-width, nonlinear electron plasma waves. The intrinsically intertwined effects of self-focusing and dissipation of field energy caused by electron trapping are studied in simulated systems that are hundreds of wavelengths long in the transverse direction but only one wavelength long and periodic in the propagation direction. From various initial wave states, both the width at focus Δm relative to the initial width Δ0 and the maximum field amplitude at focus are shown to be a function of the growth rate of the transverse modulational instability γ_{TPMI} divided by the loss rate of field energy ν_{E} to electrons escaping the trapping region. With dissipation included, an amplitude threshold for self-focusing γ_{TPMI}/ν_{E}~1 is found that supports the analysis of Rose [Phys. Plasmas 12, 012318 (2005)].
Kinetic-MHD simulations of gyroresonance instability driven by CR pressure anisotropy
Lebiga, O.; Santos-Lima, R.; Yan, H.
2018-02-01
The transport of cosmic rays (CRs) is crucial for the understanding of almost all high-energy phenomena. Both pre-existing large-scale magnetohydrodynamic (MHD) turbulence and locally generated turbulence through plasma instabilities are important for the CR propagation in astrophysical media. The potential role of the resonant instability triggered by CR pressure anisotropy to regulate the parallel spatial diffusion of low-energy CRs (≲ 100 GeV) in the interstellar and intracluster medium of galaxies (ISM and ICM) has been showed in previous theoretical works. This work aims to study the gyroresonance instability via direct numerical simulations, in order to access quantitatively the wave-particle scattering rates. For this we employ a 1D PIC-MHD code to follow the growth and saturation of the gyroresonance instability. We extract from the simulations the pitch-angle diffusion coefficient Dμμ produced by the instability during the linear and saturation phases, and a very good agreement (within a factor of 3) is found with the values predicted by the quasilinear theory (QLT). Our results support the applicability of the QLT for modeling the scattering of low-energy CRs by the gyroresonance instability in the complex interplay between this instability and the large-scale MHD turbulence.
Experimental benchmark of kinetic simulations of capacitively coupled plasmas in molecular gases
Donkó, Z.; Derzsi, A.; Korolov, I.; Hartmann, P.; Brandt, S.; Schulze, J.; Berger, B.; Koepke, M.; Bruneau, B.; Johnson, E.; Lafleur, T.; Booth, J.-P.; Gibson, A. R.; O'Connell, D.; Gans, T.
2018-01-01
We discuss the origin of uncertainties in the results of numerical simulations of low-temperature plasma sources, focusing on capacitively coupled plasmas. These sources can be operated in various gases/gas mixtures, over a wide domain of excitation frequency, voltage, and gas pressure. At low pressures, the non-equilibrium character of the charged particle transport prevails and particle-based simulations become the primary tools for their numerical description. The particle-in-cell method, complemented with Monte Carlo type description of collision processes, is a well-established approach for this purpose. Codes based on this technique have been developed by several authors/groups, and have been benchmarked with each other in some cases. Such benchmarking demonstrates the correctness of the codes, but the underlying physical model remains unvalidated. This is a key point, as this model should ideally account for all important plasma chemical reactions as well as for the plasma-surface interaction via including specific surface reaction coefficients (electron yields, sticking coefficients, etc). In order to test the models rigorously, comparison with experimental ‘benchmark data’ is necessary. Examples will be given regarding the studies of electron power absorption modes in O2, and CF4-Ar discharges, as well as on the effect of modifications of the parameters of certain elementary processes on the computed discharge characteristics in O2 capacitively coupled plasmas.
Kinetic-MHD simulations of gyroresonance instability driven by CR pressure anisotropy
Lebiga, O.; Santos-Lima, R.; Yan, H.
2018-05-01
The transport of cosmic rays (CRs) is crucial for the understanding of almost all high-energy phenomena. Both pre-existing large-scale magnetohydrodynamic (MHD) turbulence and locally generated turbulence through plasma instabilities are important for the CR propagation in astrophysical media. The potential role of the resonant instability triggered by CR pressure anisotropy to regulate the parallel spatial diffusion of low-energy CRs (≲100 GeV) in the interstellar and intracluster medium of galaxies has been shown in previous theoretical works. This work aims to study the gyroresonance instability via direct numerical simulations, in order to access quantitatively the wave-particle scattering rates. For this, we employ a 1D PIC-MHD code to follow the growth and saturation of the gyroresonance instability. We extract from the simulations the pitch-angle diffusion coefficient Dμμ produced by the instability during the linear and saturation phases, and a very good agreement (within a factor of 3) is found with the values predicted by the quasi-linear theory (QLT). Our results support the applicability of the QLT for modelling the scattering of low-energy CRs by the gyroresonance instability in the complex interplay between this instability and the large-scale MHD turbulence.
Kinetic simulations of magnetic reconnection in presence of a background O+ population
Markidis, S.; Lapenta, G.; Bettarini, L.; Goldman, M.; Newman, D.; Andersson, L.
2011-09-01
Particle-in-Cell simulations of magnetic reconnection with an H+ current sheet and a mixed background plasma of H+ and O+ ions are completed using physical mass ratios. Four main results are shown. First, the O+ presence slightly decreases the reconnection rate and the magnetic reconnection evolution depends mainly on the lighter H+ ion species in the presented simulations. Second, the Hall magnetic field is characterized by a two-scale structure in presence of O+ ions: it reaches sharp peak values in a small area in proximity of the neutral line, and then decreases slowly over a large region. Third, the two background species initially separate in the outflow region because H+ and O+ ions are accelerated by different mechanisms occurring on different timescales and with different strengths. Fourth, the effect of a guide field on the O+ dynamics is studied: the O+ presence does not change the reconnected flux and all the characteristic features of guide field magnetic reconnection are still present. Moreover, the guide field introduces an O+ circulation pattern between separatrices that enhances high O+ density areas and depletes low O+ density regions in proximity of the reconnection fronts. The importance and the validity of these results are finally discussed.
Migration kinetics of four photo-initiators from paper food packaging to solid food simulants.
Cai, Huimei; Ji, Shuilin; Zhang, Juzhou; Tao, Gushuai; Peng, Chuanyi; Hou, Ruyan; Zhang, Liang; Sun, Yue; Wan, Xiaochun
2017-09-01
The migration behaviour of four photo-initiators (BP, EHA, MBP and Irgacure 907) was studied by 'printing' onto four different food-packaging materials (Kraft paper, white cardboard, Polyethylene (PE)-coated paper and composite paper) and tracking movement into the food simulant: Tenax-TA (porous polymer 2,6-diphenyl furan resin). The results indicated that the migration of the photo-initiators was related to the molecular weight and log K o/w of each photo-initiator. At different temperatures, the migration rates of the photo-initiators were different in papers with different thicknesses. The amount of each photo-initiator found in the food was closely related to the food matrix. The Weibull model was used to predict the migration load into the food simulants by calculating the parameters τ and β and determining the relationship of the two parameters with temperature and paper thickness. The established Weibull model was then used to predict the migration of each photo-initiator with respect to different foods. A two-parameter Weibull model fitted the actual situation, with some deviation from the actual migration amount.
Kinetic Scale Structure of Low-frequency Waves and Fluctuations
Energy Technology Data Exchange (ETDEWEB)
López, Rodrigo A.; Yoon, Peter H. [Institute for Physical Science and Technology, University of Maryland, College Park, MD 20742 (United States); Viñas, Adolfo F. [NASA Goddard Space Flight Center, Heliophysics Science Division, Geospace Physics Laboratory, Mail Code 673, Greenbelt, MD 20771 (United States); Araneda, Jaime A., E-mail: rlopezh@umd.edu, E-mail: yoonp@umd.edu [Departamento de Física, Facultad de Ciencias Físicas y Matemáticas, Universidad de Concepción, Concepción (Chile)
2017-08-10
The dissipation of solar wind turbulence at kinetic scales is believed to be important for the heating of the corona and for accelerating the wind. The linear Vlasov kinetic theory is a useful tool for identifying various wave modes, including kinetic Alfvén, fast magnetosonic/whistler, and ion-acoustic (or kinetic slow), and their possible roles in the dissipation. However, the kinetic mode structure in the vicinity of ion-cyclotron modes is not clearly understood. The present paper aims to further elucidate the structure of these low-frequency waves by introducing discrete particle effects through hybrid simulations and Klimontovich formalism of spontaneous emission theory. The theory and simulation of spontaneously emitted low-frequency fluctuations are employed to identify and distinguish the detailed mode structures associated with ion-Bernstein modes versus quasi-modes. The spontaneous emission theory and simulation also confirm the findings of the Vlasov theory in that the kinetic Alfvén waves can be defined over a wide range of frequencies, including the proton cyclotron frequency and its harmonics, especially for high-beta plasmas. This implies that these low-frequency modes may play predominant roles even in the fully kinetic description of kinetic scale turbulence and dissipation despite the fact that cyclotron harmonic and Bernstein modes may also play important roles in wave–particle interactions.
Fuentealba, Matias; Muñoz, Rodrigo; Maturana, Pablo; Krapp, Adriana; Cabrera, Ricardo
2016-01-01
Glucose 6-Phosphate Dehydrogenases (G6PDHs) from different sources show varying specificities towards NAD+ and NADP+ as cofactors. However, it is not known to what extent structural determinants of cofactor preference are conserved in the G6PDH family. In this work, molecular simulations, kinetic characterization of site-directed mutants and phylogenetic analyses were used to study the structural basis for the strong preference towards NADP+ shown by the G6PDH from Escherichia coli. Molecular Dynamics trajectories of homology models showed a highly favorable binding energy for residues K18 and R50 when interacting with the 2'-phosphate of NADP+, but the same residues formed no observable interactions in the case of NAD+. Alanine mutants of both residues were kinetically characterized and analyzed with respect to the binding energy of the transition state, according to the kcat/KM value determined for each cofactor. Whereas both residues contribute to the binding energy of NADP+, only R50 makes a contribution (about -1 kcal/mol) to NAD+ binding. In the absence of both positive charges the enzyme was unable to discriminate NADP+ from NAD+. Although kinetic data is sparse, the observed distribution of cofactor preferences within the phylogenetic tree is sufficient to rule out the possibility that the known NADP+-specific G6PDHs form a monophyletic group. While the β1-α1 loop shows no strict conservation of K18, (rather, S and T seem to be more frequent), in the case of the β2-α2 loop, different degrees of conservation are observed for R50. Noteworthy is the fact that a K18T mutant is indistinguishable from K18A in terms of cofactor preference. We conclude that the structural determinants for the strict discrimination against NAD+ in the case of the NADP+-specific enzymes have evolved independently through different means during the evolution of the G6PDH family. We further suggest that other regions in the cofactor binding pocket, besides the β1-α1 and β2-α2
Gorban, A. N.; Karlin, I. V.
2003-01-01
Nonlinear kinetic equations are reviewed for a wide audience of specialists and postgraduate students in physics, mathematical physics, material science, chemical engineering and interdisciplinary research. Contents: The Boltzmann equation, Phenomenology and Quasi-chemical representation of the Boltzmann equation, Kinetic models, Discrete velocity models, Direct simulation, Lattice Gas and Lattice Boltzmann models, Minimal Boltzmann models for flows at low Knudsen number, Other kinetic equati...
Kinetic simulations of scrape-off layer physics in the DIII-D tokamak
Directory of Open Access Journals (Sweden)
R.M. Churchill
2017-08-01
The XGCa simulation of the DIII-D tokamak in a nominally sheath-limited regime show many noteworthy features in the SOL. The density and ion temperature are higher at the low-field side, indicative of ion orbit loss. The SOL ion Mach flows are at experimentally relevant levels (Mi ∼ 0.5, with similar shapes and poloidal variation as observed in various tokamaks. Surprisingly, the ion Mach flows close to the sheath edge remain subsonic, in contrast to the typical fluid Bohm criterion requiring ion flows to be above sonic at the sheath edge. Related to this are the presence of elevated sheath potentials, eΔΦ/Te∼3−4, over most of the SOL, with regions in the near-SOL close to the separatrix having eΔΦ/Te > 4. These two results at the sheath edge are a consequence of non-Maxwellian features in the ions and electrons there.
Energy Technology Data Exchange (ETDEWEB)
Franci, Luca [Dipartimento di Fisica e Astronomia, Università degli Studi di Firenze, Largo E. Fermi 2, I-50125 Firenze (Italy); INFN-Sezione di Firenze, Via G. Sansone 1, I-50019 Sesto F.no (Firenze) (Italy); Hellinger, Petr, E-mail: petr.hellinger@asu.cas.cz [Astronomical Institute, AS CR, Bocni II/1401, CZ-14100 Prague (Czech Republic); Matteini, Lorenzo [Physics Department, Imperial College London, London SW7 2AZ (United Kingdom); Verdini, Andrea [Dipartimento di Fisica e Astronomia, Università degli Studi di Firenze, Largo E. Fermi 2, I-50125 Firenze (Italy); Solar-Terrestrial Center of Excellence, Royal Observatory of Belgium, Brussels (Belgium); Landi, Simone [Dipartimento di Fisica e Astronomia, Università degli Studi di Firenze, Largo E. Fermi 2, I-50125 Firenze (Italy); INAF-Osservatorio Astrofisico di Arcetri, Largo E. Fermi 5, I-50125 Firenze (Italy)
2016-03-25
Proton temperature anisotropies between the directions parallel and perpendicular to the mean magnetic field are usually observed in the solar wind plasma. Here, we employ a high-resolution hybrid particle-in-cell simulation in order to investigate the relation between spatial properties of the proton temperature and the peaks in the current density and in the flow vorticity. Our results indicate that, although regions where the proton temperature is enhanced and temperature anisotropies are larger correspond approximately to regions where many thin current sheets form, no firm quantitative evidence supports the idea of a direct causality between the two phenomena. On the other hand, quite a clear correlation between the behavior of the proton temperature and the out-of-plane vorticity is obtained.
Sun, Wenbo; Hu, Yongxiang; MacDonnell, David G.; Kim, Hyun Jung; Weimer, Carl; Baize, Rosemary R.
2018-02-01
Photon sieves (PS) have many applications and various designs in focusing light. However, a traditional PS only has a light transmissivity up to ∼25% and a focusing efficiency up to ∼7%, which hinder the application of them in many fields, especially for satellite remote sensing. To overcome these inherent drawbacks of traditional PSs, a concept of reflective photon sieve is developed in this work. This reflective photon sieve is based on a transparent membrane backed by a mirror. The transparent membrane is optimally a fully transparent material sheet with given refractive index and designed geometric thickness which has an optical thickness of a quarter incident wavelength (i.e. an anti-reflective coating). The PS-patterned pinholes are made on the transparent membrane. The design makes the light reflected from pinholes and that from zones of membrane material have 180° phase difference. Thus, light incident on this optical device is reflected and focused on its focal point. This device can have a reflectivity of ∼100% and a focusing efficiency of ∼50% based on numerical simulation. This device functions similar to a concave focusing mirror but can preserve the phase feature of light (such as that for the light with orbital angular momentum). It also has excellent wavelength-dependent property, which can exclude most of the undesired light from the focal point. A thin sheet of this component can perform the joint function of lenses and gratings/etalons in the optical path of a remote sensing system, thus is suitable for controling/filtering light in compact instruments such as satellite sensors. This concept is validated by the finite-difference time domain (FDTD) modeling and a lab prototype in this study.
Full kinetic simulations of plasma flow interactions with meso- and microscale magnetic dipoles
International Nuclear Information System (INIS)
Ashida, Y.; Yamakawa, H.; Usui, H.; Miyake, Y.; Shinohara, I.; Funaki, I.; Nakamura, M.
2014-01-01
We examined the plasma flow response to meso- and microscale magnetic dipoles by performing three-dimensional full particle-in-cell simulations. We particularly focused on the formation of a magnetosphere and its dependence on the intensity of the magnetic moment. The size of a magnetic dipole immersed in a plasma flow can be characterized by a distance L from the dipole center to the position where the pressure of the local magnetic field becomes equal to the dynamic pressure of the plasma flow under the magnetohydrodynamics (MHD) approximation. In this study, we are interested in a magnetic dipole whose L is smaller than the Larmor radius of ions r iL calculated with the unperturbed dipole field at the distance L from the center. In the simulation results, we confirmed the clear formation of a magnetosphere consisting of a magnetopause and a tail region in the density profile, although the spatial scale is much smaller than the MHD scale. One of the important findings in this study is that the spatial profiles of the plasma density as well as the current flows are remarkably affected by the finite Larmor radius effect of the plasma flow, which is different from the Earth's magnetosphere. The magnetopause found in the upstream region is located at a position much closer to the dipole center than L. In the equatorial plane, we also found an asymmetric density profile with respect to the plasma flow direction, which is caused by plasma gyration in the dipole field region. The ion current layers are created in the inner region of the dipole field, and the electron current also flows in the region beyond the ion current layer because ions with a large inertia can closely approach the dipole center. Unlike the ring current structure of the Earth's magnetosphere, the current layers in the microscale dipole fields are not circularly closed around the dipole center. Since the major current is caused by the particle gyrations, the current is independently
Energy Technology Data Exchange (ETDEWEB)
Winnischofer, Herbert; Araujo, Marcio Peres de; Dias Junior, Lauro Camargo; Novo, Joao Batista Marques [Universidade Federal do Parana (UFPR), Curitiba, PR (Brazil)
2010-07-01
A software based in the Monte Carlo method have been developed aiming the teaching of important cases of mechanisms found in luminescence and in excited states decay kinetics, including: multiple decays, consecutive decays and coupled systems decays. The Monte Carlo Method allows the student to easily simulate and visualize the luminescence mechanisms, focusing on the probabilities of the related steps. The software CINESTEX was written for FreeBASIC compiler; it assumes first-order kinetics and any number of excited states, where the pathways are allowed with probabilities assigned by the user. (author)
Halimi, Mokhtar; Kadri, Dahane; Mokeddem, Abdelmalek
2015-12-01
In this paper, the simulation of the thermal cleaning procedure in LiF:Mg,Ti as well as the investigation of the origin of its glow-peaks have been performed by six electron trapping levels and one recombination center phenomenological model. The most generally accepted parameter of the glow-peaks 1 to 5 of LiF:Mg,Ti is their first-order kinetics; this was particularly investigated by the use of the random variation of the kinetic parameters method.
Kinetic simulations of the Kelvin-Helmholtz instability: Application to boundary layers
International Nuclear Information System (INIS)
Thomas, V.A.; Winske, D.
1994-01-01
Boundary layers separating the solar wind from planetary magnetic fields and ionospheres are ubiquitous features in the solar system. The transport of plasma between the solar wind and the planetary system is determined by processes that take place at these boundary layers. One such process is the Kelvin-Helmholtz instability, which may be excited due to shear flow at the boundary. Two dimensional hybrid simulations are performed for situations of relevance for this type of boundary layer. For the first situation, the Kelvin-Helmholtz instability is considered within the context of flow past a finite sized obstacle. The finite sized obstacle is a source of plasma and the Kelvin-Helmholtz instability sets in at the interface between the two plasma species. Effects are clearly visible near the subsolar location, indicating that the Kelvin-Helmholtz instability may occur more readily than expected. The source of this unexpected growth can be understood from the overall time dependence of the boundary layer. In the second situation, the Kelvin-Helmholtz instability is studied for the case of a finite sized jet of material moving perpendicular to a magnetic field where the magnetic field reverses sign. Such a scenario may arise as a result of reconnection. The characteristic time and spatial signatures of such an interaction are considered
Kinetic simulations of plasma sheath with parallel to the wall magnetic field
Krasheninnikova, Natalia; Tang, Xianzhu
2010-11-01
Plasma-wall interactions can play an important role in plasma transport and confinement in tokamaks or Magneto-Inertial Fusion (MIF), where one of the approaches is to use an imploding metal liner to compress magnetized target plasma to thermonuclear temperatures. Since for the MIF applications the magnetic field is parallel to the liner surface, the ions, with their large gyro-radii, positively charge the wall. This creates a strong ExB shear flow which can cause turbulence and influence transport. Here we report on progress of the simulation studies of plasma sheath turbulence using a state-of-the-art VPIC [1] code. Baseline calculations have confirmed the possibility of establishing a quiescent plasma sheath in 1D for a flat liner surface[2,3]. However, in higher dimensions, these self-consistent plasma and field parameters do not always result in a stable sheath. In this work we present the analysis of a 2D equilibrium and quantify its stability characteristics for two cases, with Debye length being intermediate between electron and ion thermal Larmors and Debye length being much smaller than electron Larmor. [1] K. J. Bowers, et al. Phys. Plasmas 15, 055703 (2008). [2] N. Krasheninnikova, et al. Phys. Plasmas 17 057103 (2010). [3] N. Krasheninnikova, et al. Phys. Plasmas 17 063508 (2010).
Mathematical study and numerical simulations of bi-kinetic plasma sheaths
International Nuclear Information System (INIS)
Badsi, Mehdi
2016-01-01
This thesis focuses on the construction and the numerical simulation theoretical models of plasmas in interaction with an absorbing wall. These models are based on two species Vlasov-Poisson or Vlasov-Ampere systems in the presence of boundary conditions. The expected stationary solutions must verify the balance of the flux of charges in the orthogonal direction to the wall. This feature is called the ambi-polarity. Through the study of a non linear Poisson equation, we prove the well-posedness of 1d-1v stationary Vlasov-Poisson system, for which we determine incoming particles distributions and a wall potential that induces the ambi-polarity as well as a non negative charge density hold. We also give a quantitative estimates of the thickness of the boundary layer that develops at the wall. These results are illustrated numerically. We prove the linear stability of the electronic stationary solution for a non-stationary Vlasov-Ampere system. Finally, we study a 1d-3v stationary Vlasov-Poisson system in the presence of a constant and parallel to the wall magnetic field. We determine incoming particles distributions and a wall potential so that the ambi-polarity holds. We study a non linear Poisson equation through a non linear functional energy that admits minimizers. We established some bounds on the numerical parameters inside which, our model is relevant and we propose an interpretation of the results. (author)
Jacquey, Antoine; Cacace, Mauro
2017-04-01
Utilization of the underground for energy-related purposes have received increasing attention in the last decades as a source for carbon-free energy and for safe storage solutions. Understanding the key processes controlling fluid and heat flow around geological discontinuities such as faults and fractures as well as their mechanical behaviours is therefore of interest in order to design safe and sustainable reservoir operations. These processes occur in a naturally complex geological setting, comprising natural or engineered discrete heterogeneities as faults and fractures, span a relatively large spectrum of temporal and spatial scales and they interact in a highly non-linear fashion. In this regard, numerical simulators have become necessary in geological studies to model coupled processes and complex geological geometries. In this study, we present a new simulator GOLEM, using multiphysics coupling to characterize geological reservoirs. In particular, special attention is given to discrete geological features such as faults and fractures. GOLEM is based on the Multiphysics Object-Oriented Simulation Environment (MOOSE). The MOOSE framework provides a powerful and flexible platform to solve multiphysics problems implicitly and in a tightly coupled manner on unstructured meshes which is of interest for the considered non-linear context. Governing equations in 3D for fluid flow, heat transfer (conductive and advective), saline transport as well as deformation (elastic and plastic) have been implemented into the GOLEM application. Coupling between rock deformation and fluid and heat flow is considered using theories of poroelasticity and thermoelasticity. Furthermore, considering material properties such as density and viscosity and transport properties such as porosity as dependent on the state variables (based on the International Association for the Properties of Water and Steam models) increase the coupling complexity of the problem. The GOLEM application aims
International Nuclear Information System (INIS)
Takase, Kazuyuki; Akino, Norio
1996-06-01
Thermal-hydraulic characteristics of an annular fuel channel with spacer ribs for high temperature gas-cooled reactors were analyzed numerically by three-dimensional heat transfer computations under a fully developed turbulent flow. The two-equations κ-ε turbulence model was applied to the present turbulent analysis. In particular, the κ-ε turbulence model constants and the turbulent Prandtl number were improved from the previous standard values proposed by Jones and Launder in order to obtain heat transfer predictions with higher accuracy. Consequently, heat transfer coefficients and friction factors in the spacer-ribbed fuel channel were predicted with sufficient accuracy in the range of Reynolds number exceeding 3000. It was clarified quantitatively from the present study that main mechanism for the heat transfer augmentation in the spacer-ribbed fuel channel was combined effects of the turbulence promoter effect by the spacer ribs and the velocity acceleration effect by a reduction in the channel cross-section. (author)
Directory of Open Access Journals (Sweden)
Wenbin Mao
Full Text Available In this study, we present a fully-coupled fluid-structure interaction (FSI framework that combines smoothed particle hydrodynamics (SPH and nonlinear finite element (FE method to investigate the coupled aortic and mitral valves structural response and the bulk intraventricular hemodynamics in a realistic left ventricle (LV model during the entire cardiac cycle. The FSI model incorporates valve structures that consider native asymmetric leaflet geometries, anisotropic hyperelastic material models and human material properties. Comparison of FSI results with subject-specific echocardiography data demonstrates that the SPH-FE approach is able to quantitatively predict the opening and closing times of the valves, the mitral leaflet opening and closing angles, and the large-scale intraventricular flow phenomena with a reasonable agreement. Moreover, comparison of FSI results with a LV model without valves reveals substantial differences in the flow field. Peak systolic velocities obtained from the FSI model and the LV model without valves are 2.56 m/s and 1.16 m/s, respectively, compared to the Doppler echo data of 2.17 m/s. The proposed SPH-FE FSI framework represents a further step towards modeling patient-specific coupled LV-valve dynamics, and has the potential to improve our understanding of cardiovascular physiology and to support professionals in clinical decision-making.
Hellen, Adam; Mandelis, Andreas; Finer, Yoav; Amaechi, Bennett T.
2011-03-01
Photothermal radiometry and modulated luminescence (PTR-LUM) is a non-destructive methodology applied toward the detection, monitoring and quantification of dental caries. The purpose of this study was to evaluate the efficacy of PTRLUM to detect incipient caries lesions and quantify opto-thermophysical properties as a function of treatment time. Extracted human molars (n=15) were exposed to an acid demineralization gel (pH 4.5) for 10 or 40 days in order to simulate incipient caries lesions. PTR-LUM frequency scans (1 Hz - 1 kHz) were performed prior to and during demineralization. Transverse Micro-Radiography (TMR) analysis followed at treatment conclusion. A coupled diffusephoton- density-wave and thermal-wave theoretical model was applied to PTR experimental amplitude and phase data across the frequency range of 4 Hz - 354 Hz, to quantitatively evaluate changes in thermal and optical properties of sound and demineralized enamel. Excellent fits with small residuals were observed experimental and theoretical data illustrating the robustness of the computational algorithm. Increased scattering coefficients and poorer thermophysical properties were characteristic of demineralized lesion bodies. Enhanced optical scattering coefficients of demineralized lesions resulted in poorer luminescence yield due to scattering of both incident and converted luminescent photons. Differences in the rate of lesion progression for the 10-day and 40-day samples points to a continuum of surface and diffusion controlled mechanism of lesion formation. PTR-LUM sensitivity to changes in tooth mineralization coupled with opto-thermophysical property extraction illustrates the technique's potential for non-destructive quantification of enamel caries.
Directory of Open Access Journals (Sweden)
Vincenzo Maria De Benedictis
2016-05-01
Full Text Available The Mark–Houwink–Sakurada (MHS equation allows for estimation of rheological properties, if the molecular weight is known along with good understanding of the polymer conformation. The intrinsic viscosity of a polymer solution is related to the polymer molecular weight according to the MHS equation, where the value of the constants is related to the specific solvent and its concentration. However, MHS constants do not account for other characteristics of the polymeric solutions, i.e., Deacetilation Degree (DD when the solute is chitosan. In this paper, the degradation of chitosan in different acidic environments by thermal treatment is addressed. In particular, two different solutions are investigated (used as solvent acetic or hydrochloric acid with different concentrations used for the preparation of chitosan solutions. The samples were treated at different temperatures (4, 30, and 80 °C and time points (3, 6 and 24 h. Rheological, Gel Permeation Chromatography (GPC, Fourier Transform Infrared Spectroscopy (FT-IR, Differential Scanning Calorimetry (DSC and Thermal Gravimetric Analyses (TGA were performed in order to assess the degradation rate of the polymer backbones. Measured values of molecular weight have been integrated in the simulation of the batch degradation of chitosan solutions for evaluating MHS coefficients to be compared with their corresponding experimental values. Evaluating the relationship between the different parameters used in the preparation of chitosan solutions (e.g., temperature, time, acid type and concentration, and their contribution to the degradation of chitosan backbone, it is important to have a mathematical frame that could account for phenomena involved in polymer degradation that go beyond the solvent-solute combination. Therefore, the goal of the present work is to propose an integration of MHS coefficients for chitosan solutions that contemplate a deacetylation degree for chitosan systems or a more
Four-bar linkage modelling in teleost pharyngeal jaws: computer simulations of bite kinetics
Grubich, Justin R; Westneat, Mark W
2006-01-01
The pharyngeal arches of the red drum (Sciaenops ocellatus) possess large toothplates and a complex musculoskeletal design for biting and crushing hard prey. The morphology of the pharyngeal apparatus is described from dissections of six specimens, with a focus on the geometric conformation of contractile and rotational elements. Four major muscles operate the rotational 4th epibranchial (EB4) and 3rd pharyngobranchial (PB3) elements to create pharyngeal bite force, including the levator posterior (LP), levator externus 3/4 (LE), obliquus posterior (OP) and 3rd obliquus dorsalis (OD). A biomechanical model of upper pharyngeal jaw biting is developed using lever mechanics and four-bar linkage theory from mechanical engineering. A pharyngeal four-bar linkage is proposed that involves the posterior skull as the fixed link, the LP muscle as input link, the epibranchial bone as coupler link and the toothed pharyngobranchial as output link. We used a computer model to simulate contraction of the four major muscles, with the LP as the dominant muscle, the length of which determined the position of the linkage. When modelling lever mechanics, we found that the effective mechanical advantages of the pharyngeal elements were low, resulting in little resultant bite force. By contrast, the force advantage of the four-bar linkage was relatively high, transmitting approximately 50% of the total muscle force to the bite between the toothplates. Pharyngeal linkage modelling enables quantitative functional morphometry of a key component of the fish feeding system, and the model is now available for ontogenetic and comparative analyses of fishes with pharyngeal linkage mechanisms. PMID:16822272
International Nuclear Information System (INIS)
Perez M, C.
2004-01-01
The development of a software is presented that simulates the punctual kinetics of a nuclear reactor of investigation model TRIGA Mark III, generating the answers of the reactor low different algorithms of control of power. The user requires a graphic interface that allows him easily interacting with the simulator. To achieve the proposed objective, first the system was modeled in open loop, not using a mathematical model of the consistent reactor in a system of linear ordinary differential equations. For their solution in real time the numeric method of Runge-Kutta-Fehlberg was used. As second phase, it was modeled to the system in closed loop, using for it an algorithm of control of the power based on fuzzy logic. This software has as purpose to help the investigator in the control area who will be able to prove different algorithms for the control of the power of the reactor. This is achieved using the code source in language C, C++, Visual Basic, with which a file is generated. DLL and it is inserted in the simulator. Then they will be able to visualize the results as if their controller had installed in the reactor, analyzing the behavior of all his variables that will be stored in files, for his later study. The easiness of proving these control algorithms in the reactor without necessity to make it physically has important consequences as the saving in the expense of fuel, the not generation of radioactive waste and the most important thing, one doesn't run any risk. The simulator can be used how many times it is necessary until the total purification of the algorithm. This program is the base for following investigation processes, enlarging the capacities and options of the same one. The program fulfills the time of execution satisfactorily, assisting to the necessity of visualizing the behavior in real time of the reactor, and it responds from an effective way to the petitions of changes of power on the part of the user. (Author)
International Nuclear Information System (INIS)
Perez-Manes, Jorge; Sanchez Espinoza, Victor Hugo; Chiva, Sergio
2014-01-01
The Institute for Neutron Physics and Reactor Technology (INR) at the Karlsruhe Institute of Technology (KIT) is investigating the application of the meso- and microscale analysis for the prediction of local safety parameters for light water reactors (LWR). By applying codes like CFD (computational fluid dynamics) and SP3 (simplified transport) reactor dynamics it is possible to describe the underlying phenomena in a more accurate manner than by the nodal/coarse 1D thermal hydraulic coupled codes. By coupling the transport (SP3) based neutron kinetics (NK) code DYN3D with NEPTUNE-CFD, within a parallel MPI-environment, the NHESDYN platform is created. The newly developed system will allow high fidelity simulations of LWR fuel assemblies and cores. In NHESDYN, a heat conduction solver, SYRTHES, is coupled to NEPTUNE-CFD. The driver module of NHESDYN controls the sequence of execution of the solvers as well as the communication between the solvers based on MPI. In this paper, the main features of NHESDYN are discussed and the proof of the concept is done by solving a single pin problem. The prediction capability of NHESDYN is demonstrated by a code-to-code comparison with the DYNSUB code. Finally, the future developments and validation efforts are highlighted. (authors)
International Nuclear Information System (INIS)
Orso, J A
2012-01-01
The critical state of a nuclear reactor is an unstable equilibrium. The nuclear reactor can go from critical to subcritical state or can go from critical to hypercritical state. Although the evolution of the system in these cases is slow, it requires the intervention of an operator to correct deviations. For this reason an automatic control technique was designed, based on the kinetic point to a group of delayed neutrons, which corrects deviations automatically. In this paper we study the point kinetics models in a group and six groups of delayed neutrons for different values of reactivity using the simulations software MATLAB, Simulink. A comparison of two models with the reactor kinetic behavior is made (author)
von Holst, Hans; Li, Xiaogai
2013-07-01
Although the consequences of traumatic brain injury (TBI) and its treatment have been improved, there is still a substantial lack of understanding the mechanisms. Numerical simulation of the impact can throw further lights on site and mechanism of action. A finite element model of the human head and brain tissue was used to simulate TBI. The consequences of gradually increased kinetic energy transfer was analyzed by evaluating the impact intracranial pressure (ICP), strain level, and their potential influences on binding forces in folded protein structures. The gradually increased kinetic energy was found to have the potential to break apart bonds of Van der Waals in all impacts and hydrogen bonds at simulated impacts from 6 m/s and higher, thereby superseding the energy in folded protein structures. Further, impacts below 6 m/s showed none or very slight increase in impact ICP and strain levels, whereas impacts of 6 m/s or higher showed a gradual increase of the impact ICP and strain levels reaching over 1000 KPa and over 30%, respectively. The present simulation study shows that the free kinetic energy transfer, impact ICP, and strain levels all have the potential to initiate cytotoxic brain tissue edema by unfolding protein structures. The definition of mild, moderate, and severe TBI should thus be looked upon as the same condition and separated only by a gradual severity of impact.
International Nuclear Information System (INIS)
Moradmand Jalali, Hamed; Bashiri, Hadis; Rasa, Hossein
2015-01-01
In the present study, the mechanism of free radical production by light-reflective agents in sunscreens (TiO 2 , ZnO and ZrO 2 ) was obtained by applying kinetic Monte Carlo simulation. The values of the rate constants for each step of the suggested mechanism have been obtained by simulation. The effect of the initial concentration of mineral oxides and uric acid on the rate of uric acid photo-oxidation by irradiation of some sun care agents has been studied. The kinetic Monte Carlo simulation results agree qualitatively with the existing experimental data for the production of free radicals by sun care agents. - Highlights: • The mechanism and kinetics of uric acid photo-oxidation by irradiation of sun care agents has been obtained by simulation. • The mechanism has been used for free radical production of TiO 2 (rutile and anatase), ZnO and ZrO 2 . • The ratios of photo-activity of ZnO to anastase, rutile and ZrO have been obtained. • By doubling the initial concentrations of mineral oxide, the rate of reaction was doubled. • The optimum ratio of initial concentration of mineral oxides to uric acid has been obtained
Energy Technology Data Exchange (ETDEWEB)
Moradmand Jalali, Hamed; Bashiri, Hadis, E-mail: hbashiri@kashanu.ac.ir; Rasa, Hossein
2015-05-01
In the present study, the mechanism of free radical production by light-reflective agents in sunscreens (TiO{sub 2}, ZnO and ZrO{sub 2}) was obtained by applying kinetic Monte Carlo simulation. The values of the rate constants for each step of the suggested mechanism have been obtained by simulation. The effect of the initial concentration of mineral oxides and uric acid on the rate of uric acid photo-oxidation by irradiation of some sun care agents has been studied. The kinetic Monte Carlo simulation results agree qualitatively with the existing experimental data for the production of free radicals by sun care agents. - Highlights: • The mechanism and kinetics of uric acid photo-oxidation by irradiation of sun care agents has been obtained by simulation. • The mechanism has been used for free radical production of TiO{sub 2} (rutile and anatase), ZnO and ZrO{sub 2}. • The ratios of photo-activity of ZnO to anastase, rutile and ZrO have been obtained. • By doubling the initial concentrations of mineral oxide, the rate of reaction was doubled. • The optimum ratio of initial concentration of mineral oxides to uric acid has been obtained.
Zhang, Long; Zhao, Xin; Tao, Guan-Jun; Chen, Jie; Zheng, Zong-Ping
2017-05-15
Flavonoids are an important type of natural tyrosinase inhibitor, but their inhibitory activity and mechanism against tyrosinase are very different because of their different structures. In this study, the inhibitory activity and mechanism differences between norartocarpetin and luteolin for tyrosinase were investigated by a combination of kinetic studies and computational simulations. The kinetic analysis showed that norartocarpetin reversibly inhibited tyrosinase in a competitive manner, whereas luteolin caused reversible noncompetitive inhibition. Both norartocarpetin and luteolin showed a single type of quenching and a static-type quenching mechanism. A computational simulation indicated that the hydroxyl groups of the B ring of norartocarpetin interacted with tyrosinase residues Asn81 and His85 in the active pocket, while the hydroxyl groups of the B ring of luteolin bound residues Asn81 and Cys83. HPLC and UPLC-MS/MS further confirmed that luteolin acted as a substrate or a suicide inhibitor, yet norartocarpetin acted as an inhibitor. Copyright © 2016 Elsevier Ltd. All rights reserved.
Pont, Grégoire; Brenner, Pierre; Cinnella, Paola; Maugars, Bruno; Robinet, Jean-Christophe
2017-12-01
A Godunov's type unstructured finite volume method suitable for highly compressible turbulent scale-resolving simulations around complex geometries is constructed by using a successive correction technique. First, a family of k-exact Godunov schemes is developed by recursively correcting the truncation error of the piecewise polynomial representation of the primitive variables. The keystone of the proposed approach is a quasi-Green gradient operator which ensures consistency on general meshes. In addition, a high-order single-point quadrature formula, based on high-order approximations of the successive derivatives of the solution, is developed for flux integration along cell faces. The proposed family of schemes is compact in the algorithmic sense, since it only involves communications between direct neighbors of the mesh cells. The numerical properties of the schemes up to fifth-order are investigated, with focus on their resolvability in terms of number of mesh points required to resolve a given wavelength accurately. Afterwards, in the aim of achieving the best possible trade-off between accuracy, computational cost and robustness in view of industrial flow computations, we focus more specifically on the third-order accurate scheme of the family, and modify locally its numerical flux in order to reduce the amount of numerical dissipation in vortex-dominated regions. This is achieved by switching from the upwind scheme, mostly applied in highly compressible regions, to a fourth-order centered one in vortex-dominated regions. An analytical switch function based on the local grid Reynolds number is adopted in order to warrant numerical stability of the recentering process. Numerical applications demonstrate the accuracy and robustness of the proposed methodology for compressible scale-resolving computations. In particular, supersonic RANS/LES computations of the flow over a cavity are presented to show the capability of the scheme to predict flows with shocks
Amino, T.; Arakawa, K.; Mori, H.
2011-08-01
The rate equation approach is useful for semi-quantitatively simulating long-term processes of accumulation or recovery of lattice defects in crystalline materials upon irradiation or annealing. This approach has been developed and applied to a large number of systems, including 3D or 1D migrating self-interstitial atoms (SIAs) and 1D migrating SIA clusters. The dimensionality of the migration of mobile species significantly affects the forms of the reaction rate. For reactions related to 1D migrating SIAs and clusters, only their reactions with stationary traps have been considered. However, the reactions between 1D migrating SIAs (or clusters) cannot be ignored, especially for processes in metals, in which the most stable configuration of an SIA is the crowdion, under electron and ion irradiations at comparatively high dose rate. In the present study, we use the object kinetic Monte Carlo (KMC) method to find the approximate form of the reaction rate between 1D migrating SIAs. For this purpose, we examine the average time for one SIA to encounter another SIA, in systems where the spatial distribution of SIAs is kept homogeneous, as a function of the concentration of SIAs. The approximate form of the reaction rate between 1D migrating SIAs primarily and effectively reflects the 2D migration process. In addition, it is shown that, in the systems composed of all reactive SIAs under annealing, the absolute value of the reaction rate by KMC becomes slightly lower than the solution of the derived form after longer times, due to the spatial correlation among SIAs.
Nie, Yifan; Liang, Chaoping; Cha, Pil-Ryung; Colombo, Luigi; Wallace, Robert M; Cho, Kyeongjae
2017-06-07
Controlled growth of crystalline solids is critical for device applications, and atomistic modeling methods have been developed for bulk crystalline solids. Kinetic Monte Carlo (KMC) simulation method provides detailed atomic scale processes during a solid growth over realistic time scales, but its application to the growth modeling of van der Waals (vdW) heterostructures has not yet been developed. Specifically, the growth of single-layered transition metal dichalcogenides (TMDs) is currently facing tremendous challenges, and a detailed understanding based on KMC simulations would provide critical guidance to enable controlled growth of vdW heterostructures. In this work, a KMC simulation method is developed for the growth modeling on the vdW epitaxy of TMDs. The KMC method has introduced full material parameters for TMDs in bottom-up synthesis: metal and chalcogen adsorption/desorption/diffusion on substrate and grown TMD surface, TMD stacking sequence, chalcogen/metal ratio, flake edge diffusion and vacancy diffusion. The KMC processes result in multiple kinetic behaviors associated with various growth behaviors observed in experiments. Different phenomena observed during vdW epitaxy process are analysed in terms of complex competitions among multiple kinetic processes. The KMC method is used in the investigation and prediction of growth mechanisms, which provide qualitative suggestions to guide experimental study.
High quality factor, fully switchable terahertz superconducting metasurface
Energy Technology Data Exchange (ETDEWEB)
Scalari, G., E-mail: scalari@phys.ethz.ch; Maissen, C.; Faist, J. [Institute of Quantum Electronics, Eidgenössische Technische Hochschule Zürich (Switzerland); Cibella, S.; Leoni, R. [Istituto di Fotonica e Nanotecnologie (IFN), CNR, via Cineto Romano 42, 00156 Rome (Italy)
2014-12-29
We present a complementary THz metasurface realised with Niobium thin film which displays a quality factor Q = 54 and a fully switchable behaviour as a function of the temperature. The switching behaviour and the high quality factor are due to a careful design of the metasurface aimed at maximising the ohmic losses when the Nb is above the critical temperature and minimising the radiative coupling. The superconductor allows the operation of the cavity with high Q and the use of inductive elements with a high aspect ratio. Comparison with three dimensional finite element simulations highlights the crucial role of the inductive elements and of the kinetic inductance of the Cooper pairs in achieving the high quality factor and the high field enhancement.
Kimura, Satoshi; Candy, Adam; Holland, Paul; Piggott, Matthew; Jenkins, Adrian
2013-04-01
There have been many efforts to explicitly represent ice shelf cavities in ocean models. These ocean models employ isopycnic, terrain-following, or z coordinates. We will explore an alternate method by using the finite-element ocean model, Fluidity-ICOM, to represent an ice shelf. The Fluidity-ICOM model simulates non-hydrostatic dynamics on meshes that can be unstructured in all three dimensions. This geometric flexibility offers several advantages over previous approaches. The model represents melting or freezing on ice-ocean interfaces oriented in any direction, treats the ice shelf topography as continuous rather than stepped, and does not require any smoothing of the ice topography or any additional parameterisations of the ocean mixed layer used in isopycnal or z-coordinate models. We will demonstrate these capabilities by investigating the response of ice shelf basal melting to 1) variations in ocean temperature on an idealized ice shelf and 2) variation in sub-glacial discharge on an idealized Fjord. Melting near the grounding line of the ice shelf produces melt water that is lighter than the surrounding and therefore the meltwater ascends along the base. A band of melting area is concentrated at the Western region due to the Coriolis force in the Southern Hemisphere. As found in previous studies, the melt rate increases non-linearly as the temperature of the water forcing the cavity increases. However, the model is able to represent the dynamics of a meltwater plume that separates from the ice shelf when it reaches neutral buoyancy, unlike previous models with mixed-layer parameterisation. In the warmest case, the meltwater is lighter than the surrounding water, thereby warming the surface of the ocean. As the deep water temperature decreases, the meltwater is not light enough to penetrate to the surface, so it intrudes into the open ocean, cooling the deep water. In the case of the idealized Fjord, the discharged water ascends along the vertical ice base
International Nuclear Information System (INIS)
Zhen, Xudong; Wang, Yang
2013-01-01
Methanol has been recently used as an alternative to conventional fuels for internal combustion engines in order to satisfy some environmental and economical concerns. In this paper, the ignition in a high compression ratio SI (spark ignition) methanol engine was studied by using LES (large eddy simulation) with detailed chemical kinetics. A 21-species, 84-reaction methanol mechanism was adopted to simulate the auto-ignition process of the methanol/air mixture. The MIT (minimum ignition temperature) and MIE (minimum ignition energy) are two important properties for designing safety standards and understanding the ignition process of combustible mixtures. The effects of the flame kernel size, flame kernel temperature and equivalence ratio were also examined on MIT, MIE and IDP (ignition delay period). The methanol mechanism was validated by experimental test. The simulated results showed that the flame kernel size, temperature and energy dramatically affected the values of the MIT, MIE and IDP for a methanol/air mixture, the value of the ignition delay period was not only related to the flame kernel energy, but also to the flame kernel temperature. - Highlights: • We used LES (large eddy simulation) coupled with detailed chemical kinetics to simulate methanol ignition. • The flame kernel size and temperature affected the minimum ignition temperature. • The flame kernel temperature and energy affected the ignition delay period. • The equivalence ratio of methanol–air mixture affected the ignition delay period
International Nuclear Information System (INIS)
Aldana, S; García-Fernández, P; Jiménez-Molinos, F; Gómez-Campos, F; Roldán, J B; Rodríguez-Fernández, Alberto; Romero-Zaliz, R; González, M B; Campabadal, F
2017-01-01
A new RRAM simulation tool based on a 3D kinetic Monte Carlo algorithm has been implemented. The redox reactions and migration of cations are developed taking into consideration the temperature and electric potential 3D distributions within the device dielectric at each simulation time step. The filamentary conduction has been described by obtaining the percolation paths formed by metallic atoms. Ni/HfO 2 /Si-n + unipolar devices have been fabricated and measured. The different experimental characteristics of the devices under study have been reproduced with accuracy by means of simulations. The main physical variables can be extracted at any simulation time to clarify the physics behind resistive switching; in particular, the final conductive filament shape can be studied in detail. (paper)
Winter, Christian; Seubert, Andreas
2016-01-15
Species decomposition is an often occurring artefact during the chromatographic determination of elemental speciation. The decomposition follows a simple path to lower coordinated compounds. Therefore a simulation is developed for those decomposition reactions. The simulation separates the isochronal processes of the separation itself and the ongoing reaction and delivers thermodynamic and kinetic information about the species present in the original sample. This shifts the boundaries of separation based elemental speciation to less inert metal ions which are typically not analyzable by this approach. The less inert gallium monooxalato complex [GaOx](+) is used as example for testing the simulation software as this complex decomposes only to Ga(3+) and both species are retained on cation exchange columns. We extracted thermodynamic and kinetic information from flow rate experiments by the analysis of the peak areas in the chromatogram. The results show that some of our assumptions such as the irreversibility under the applied chromatographic conditions are not ultimately true, but good accordance of simulation and measured data was achieved. Copyright © 2015 Elsevier B.V. All rights reserved.
International Nuclear Information System (INIS)
Li Jiequan; Li Qibing; Xu Kun
2011-01-01
The generalized Riemann problem (GRP) scheme for the Euler equations and gas-kinetic scheme (GKS) for the Boltzmann equation are two high resolution shock capturing schemes for fluid simulations. The difference is that one is based on the characteristics of the inviscid Euler equations and their wave interactions, and the other is based on the particle transport and collisions. The similarity between them is that both methods can use identical MUSCL-type initial reconstructions around a cell interface, and the spatial slopes on both sides of a cell interface involve in the gas evolution process and the construction of a time-dependent flux function. Although both methods have been applied successfully to the inviscid compressible flow computations, their performances have never been compared. Since both methods use the same initial reconstruction, any difference is solely coming from different underlying mechanism in their flux evaluation. Therefore, such a comparison is important to help us to understand the correspondence between physical modeling and numerical performances. Since GRP is so faithfully solving the inviscid Euler equations, the comparison can be also used to show the validity of solving the Euler equations itself. The numerical comparison shows that the GRP exhibits a slightly better computational efficiency, and has comparable accuracy with GKS for the Euler solutions in 1D case, but the GKS is more robust than GRP. For the 2D high Mach number flow simulations, the GKS is absent from the shock instability and converges to the steady state solutions faster than the GRP. The GRP has carbuncle phenomena, likes a cloud hanging over exact Riemann solvers. The GRP and GKS use different physical processes to describe the flow motion starting from a discontinuity. One is based on the assumption of equilibrium state with infinite number of particle collisions, and the other starts from the non-equilibrium free transport process to evolve into an
Huddleston, Rob
2012-01-01
Fully loaded with the latest tricks and tips on your new Android! Android smartphones are so hot, they're soaring past iPhones on the sales charts. And the second edition of this muscular little book is equally impressive--it's packed with tips and tricks for getting the very most out of your latest-generation Android device. Start Facebooking and tweeting with your Android mobile, scan barcodes to get pricing and product reviews, download your favorite TV shows--the book is positively bursting with practical and fun how-tos. Topics run the gamut from using speech recognition, location-based m
Fully nonlinear elliptic equations
Caffarelli, Luis A
1995-01-01
The goal of the book is to extend classical regularity theorems for solutions of linear elliptic partial differential equations to the context of fully nonlinear elliptic equations. This class of equations often arises in control theory, optimization, and other applications. The authors give a detailed presentation of all the necessary techniques. Instead of treating these techniques in their greatest generality, they outline the key ideas and prove the results needed for developing the subsequent theory. Topics discussed in the book include the theory of viscosity solutions for nonlinear equa
Van Ende, Marie-Aline; Jung, In-Ho
2017-02-01
The ladle furnace (LF) is widely used in the secondary steelmaking process in particular for the de-sulfurization, alloying, and reheating of liquid steel prior to the casting process. The Effective Equilibrium Reaction Zone model using the FactSage macro processing code was applied to develop a kinetic LF process model. The slag/metal interactions, flux additions to slag, various metallic additions to steel, and arcing in the LF process were taken into account to describe the variations of chemistry and temperature of steel and slag. The LF operation data for several steel grades from different plants were accurately described using the present kinetic model.
Hong, Qi-Jun; Liu, Zhi-Pan
2010-10-01
It has been a goal consistently pursued by chemists to understand and control the catalytic process over composite materials. In order to provide deeper insight on complex interfacial catalysis at the experimental conditions, we performed an extensive analysis on CO 2 hydrogenation over a Cu/ZrO 2 model catalyst by employing density functional theory (DFT) calculations and kinetic Monte Carlo (kMC) simulations based on the continuous stirred tank model. The free energy profiles are determined for the reaction at the oxygen-rich Cu/m-ZrO 2 (2̅12) interface, where all interfacial Zr are six-coordinated since the interface accumulates oxidative species at the reaction conditions. We show that not only methanol but also CO are produced through the formate pathway dominantly, whilst the reverse-water-gas-shift (RWGS) channel has only a minor contribution. H 2CO is a key intermediate species in the reaction pathway, the hydrogenation of which dictates the high temperature of CO 2 hydrogenation. The kinetics simulation shows that the CO 2 conversion is 1.20%, the selectivity towards methanol is 68% at 500 K and the activation energies for methanol and CO formation are 0.79 and 1.79 eV, respectively. The secondary reactions due to the product readsorption lower the overall turnover frequency (TOF) but increase the selectivity towards methanol by 16%. We also show that kMC is a more reliable tool for simulating heterogeneous catalytic processes compared to the microkinetics approach.
Mårdh, S; Lindahl, S
1977-11-25
In order to learn whether the kinetics of transient phosphorylation of sodium plus potassium ion transport adenosine triphosphatase was compatible with the hydrolysis of ATP, computer simulation of experimental data was studied. The enzyme mechanism was described in terms of first order and pseudo-first order reactions. The resulting system of linear first order differential equations was solved by a Runge-Kutta method. Phosphorylation kinetics was studied by means of a rapid mixing apparatus at 21 degrees in the presence of 100 micron ATP, 3 mM MgCl2, 120 mM NaCl, and 10 mM KCl. Computer simulation gave a close fit to experimental data with a model of the reaction mechanism which included a sequence of two dephospho forms and two phospho forms of the enzyme. With this model, rate constants obtained by computer simulation were in agreement with constants which had been determined in separate phosphorylation and dephosphorylation experiments. Within experimental limits, the net flux of reaction in each partial step was compatible with the (Na+,K+)-stimulated hydrolysis of ATP (about 324 and 300 nmol-mg-1-min-1, respectively).
Almudallal, Ahmad M.; Mercer, J. I.; Whitehead, J. P.; Plumer, M. L.; van Ek, J.
2018-05-01
A hybrid Landau Lifshitz Gilbert/kinetic Monte Carlo algorithm is used to simulate experimental magnetic hysteresis loops for dual layer exchange coupled composite media. The calculation of the rate coefficients and difficulties arising from low energy barriers, a fundamental problem of the kinetic Monte Carlo method, are discussed and the methodology used to treat them in the present work is described. The results from simulations are compared with experimental vibrating sample magnetometer measurements on dual layer CoPtCrB/CoPtCrSiO media and a quantitative relationship between the thickness of the exchange control layer separating the layers and the effective exchange constant between the layers is obtained. Estimates of the energy barriers separating magnetically reversed states of the individual grains in zero applied field as well as the saturation field at sweep rates relevant to the bit write speeds in magnetic recording are also presented. The significance of this comparison between simulations and experiment and the estimates of the material parameters obtained from it are discussed in relation to optimizing the performance of magnetic storage media.
This research applied a new one-step methodology to directly construct a tertiary model for describing the growth of C. perfringens in cooked turkey meat under dynamically cooling conditions. The kinetic parameters of the growth models were determined by numerical analysis and optimization using mu...
The objective of this study was to directly construct a tertiary growth model for Listeria monocytogenes in cooked pork and simultaneously determine the kinetic parameters using a combination of dynamic and isothermal growth curves. Growth studies were conducted using a cocktail of 5 strains of L. ...
Clements, Aspen R.; Berk, Brandon; Cooke, Ilsa R.; Garrod, Robin T.
2018-02-01
Using an off-lattice kinetic Monte Carlo model we reproduce experimental laboratory trends in the density of amorphous solid water (ASW) for varied deposition angle, rate and surface temperature. Extrapolation of the model to conditions appropriate to protoplanetary disks and interstellar dark clouds indicate that these ices may be less porous than laboratory ices.
International Nuclear Information System (INIS)
Moreno M, A.; Moreno B, A.
2000-01-01
In this work the incorporation of activation energy and frequency factor parameters proposed by R. Chen are presented in the original formulation of Randall and wilkins second order kinetics. The results concordance are compared between the calculus following the R. Chen methodology with those ones obtained by direct incorporation of the previously indicated in the Randall-Wilkins-Levy expression for a simulated thermoluminescent emission curve of two peaks with maximum peak temperature (tm): t m1=120 and t m2=190. (Author)
DEFF Research Database (Denmark)
Ta, Na; Chen, Ming; Zhang, Lijun
2018-01-01
A composition- and temperature-dependent mobility database of all ionic species in the LaCoO3-δ phase was developed and combined with a La-Co-O thermodynamic database to simulate kinetic demixing and partial decomposition in LaCoO3-δ oxygen membranes operated under a 0.0001/0.21 bar oxygen partia...... by the mobility of oxygen ions, and the latter is determined by the higher mobility of Co ions as compared to the La ion in the ABO3-type perovskite. A drift motion of both oxide surfaces towards the high PO2 side occurs with the movement of cations....
Mollick, P. K.; Venugopalan, R.; Srivastava, D.
2017-10-01
Chemical Vapor Deposition (CVD) process is generally carried out in a hot wall reactor of vertical or horizontal type keeping the substrate inside the chamber on which deposition is targeted. Present study is focused to explain the role of hydrodynamics and temperature conditions on the overall coating rates inside a hot wall vertical tubular reactor. Deposition of β-Silicon Carbide crystals from Methytricholorosilane catalyzed by hydrogen is modeled here considering growth kinetics which can be successfully described - using only two steps. Finite Element Method based simulation is performed to obtain the flow and temperature profiles inside the hot wall reactor. Model equations for kinetics are derived in differential form based on mass balance considering transport of species. Kinetic parameters were approximated comparing the experimentally found coating rates as reported earlier. Present model is seen to fit reasonably well for the wide variation of gas flow rates as well as temperature. Apart from the flow rates of total fluid at inlet and initial wall temperature of reactor, sample position and the inlet diameter of the reactor are found to be key important parameters for the desired coating to take place. Model prediction thus can provide better knowledge in order to carefully choose process parameters in designing the reactor for achieving optimized deposition rates by CVD with desired properties.
Sadi, Toufik; Mehonic, Adnan; Montesi, Luca; Buckwell, Mark; Kenyon, Anthony; Asenov, Asen
2018-02-28
We employ an advanced three-dimensional (3D) electro-thermal simulator to explore the physics and potential of oxide-based resistive random-access memory (RRAM) cells. The physical simulation model has been developed recently, and couples a kinetic Monte Carlo study of electron and ionic transport to the self-heating phenomenon while accounting carefully for the physics of vacancy generation and recombination, and trapping mechanisms. The simulation framework successfully captures resistance switching, including the electroforming, set and reset processes, by modeling the dynamics of conductive filaments in the 3D space. This work focuses on the promising yet less studied RRAM structures based on silicon-rich silica (SiO x ) RRAMs. We explain the intrinsic nature of resistance switching of the SiO x layer, analyze the effect of self-heating on device performance, highlight the role of the initial vacancy distributions acting as precursors for switching, and also stress the importance of using 3D physics-based models to capture accurately the switching processes. The simulation work is backed by experimental studies. The simulator is useful for improving our understanding of the little-known physics of SiO x resistive memory devices, as well as other oxide-based RRAM systems (e.g. transition metal oxide RRAMs), offering design and optimization capabilities with regard to the reliability and variability of memory cells.
Sadi, Toufik; Mehonic, Adnan; Montesi, Luca; Buckwell, Mark; Kenyon, Anthony; Asenov, Asen
2018-02-01
We employ an advanced three-dimensional (3D) electro-thermal simulator to explore the physics and potential of oxide-based resistive random-access memory (RRAM) cells. The physical simulation model has been developed recently, and couples a kinetic Monte Carlo study of electron and ionic transport to the self-heating phenomenon while accounting carefully for the physics of vacancy generation and recombination, and trapping mechanisms. The simulation framework successfully captures resistance switching, including the electroforming, set and reset processes, by modeling the dynamics of conductive filaments in the 3D space. This work focuses on the promising yet less studied RRAM structures based on silicon-rich silica (SiO x ) RRAMs. We explain the intrinsic nature of resistance switching of the SiO x layer, analyze the effect of self-heating on device performance, highlight the role of the initial vacancy distributions acting as precursors for switching, and also stress the importance of using 3D physics-based models to capture accurately the switching processes. The simulation work is backed by experimental studies. The simulator is useful for improving our understanding of the little-known physics of SiO x resistive memory devices, as well as other oxide-based RRAM systems (e.g. transition metal oxide RRAMs), offering design and optimization capabilities with regard to the reliability and variability of memory cells.
Janus, Tomasz; Ulanicki, Bogumil
2015-01-01
This paper presents an activated sludge model suitable for modelling membrane bioreactors (MBRs) for wastewater treatment. The model, later referred to as combined EPS and SMP production ASM1-based model (CES-ASM1), extends Activated Sludge Model No. 1 (ASM1) with biokinetics of two types of bacterial biopolymers: soluble microbial products (SMP) and extracellular polymeric substances (EPS). The biopolymer kinetics in CES-ASM1 are, in their majority, borrowed from Laspidou and Rittmann[1] ...
Fully electric waste collection
Anaïs Schaeffer
2015-01-01
Since 15 June, Transvoirie, which provides waste collection services throughout French-speaking Switzerland, has been using a fully electric lorry for its collections on the CERN site – a first for the region! Featuring a motor powered by electric batteries that charge up when the brakes are used, the new lorry that roams the CERN site is as green as can be. And it’s not only the motor that’s electric: its waste compactor and lifting mechanism are also electrically powered*, making it the first 100% electric waste collection vehicle in French-speaking Switzerland. Considering that a total of 15.5 tonnes of household waste and paper/cardboard are collected each week from the Meyrin and Prévessin sites, the benefits for the environment are clear. This improvement comes as part of CERN’s contract with Transvoirie, which stipulates that the firm must propose ways of becoming more environmentally friendly (at no extra cost to CERN). *The was...
Development of an Improved Permeability Modification Simulator
Energy Technology Data Exchange (ETDEWEB)
Gao, H.W.; Elphnick, J.
1999-03-09
This report describes the development of an improved permeability modification simulator performed jointly by BDM Petroleum Technologies and Schlumberger Dowell under a cooperative research and development agreement (CRADA) with the US Department of Energy. The improved simulator was developed by modifying NIPER's PC-GEL permeability modification simulator to include a radial model, a thermal energy equation, a wellbore simulator, and a fully implicit time-stepping option. The temperature-dependent gelation kinetics of a delayed gel system (DGS) is also included in the simulator.
A fully degradable tracheal stent: in vitro and in vivo characterization of material degradation.
Ng, Anthony H C; Ng, Nelson S P; Zhu, G H; Lim, Lynne H Y; Venkatraman, Subbu S
2012-04-01
We report on the testing of materials for a fully degradable tracheal stent. Such a stent has several advantages over currently used permanent stents made of metal or silicone polymers. However, the mode of degradation in the trachea is expected to be different from a fully submerged device, because of the uniqueness of the tracheal environment. A physical model was developed to allow an in-depth study of degradation of bioabsorbable polymers exposed to two differing media; namely 70 wt % water (gel) on one side and humidified air on the other, simulating conditions in a tracheal passage. Longitudinal microtome slices were obtained from both polymer surfaces and degradation kinetics data were derived from size exclusion chromatography. On the basis of the data obtained, it is observed that well-studied bulk-degrading polymers might show surface-eroding properties in such an environment. Generally, hydrophobic polymers retard the formation of a water concentration gradient and exhibit bulk-degradation kinetics. However, addition of specific plasticizers can influence the water uptake gradient, and force the polymer towards a pseudo "surface-eroding" behavior. In vivo studies in a rabbit model of degradable stents made from a selected polymer, demonstrate the feasibility of a fully bioabsorbable tracheal stent. This study aims to improve understanding of degradation of polymers under heterogeneous environments. Copyright © 2011 Wiley Periodicals, Inc.
Sainsbury-Martinez, Felix; Browning, Matthew; Miesch, Mark; Featherstone, Nicholas A.
2018-01-01
Low-Mass stars are typically fully convective, and as such their dynamics may differ significantly from sun-like stars. Here we present a series of 3D anelastic HD and MHD simulations of fully convective stars, designed to investigate how the meridional circulation, the differential rotation, and residual entropy are affected by both varying stellar parameters, such as the luminosity or the rotation rate, and by the presence of a magnetic field. We also investigate, more specifically, a theoretical model in which isorotation contours and residual entropy (σ‧ = σ ‑ σ(r)) are intrinsically linked via the thermal wind equation (as proposed in the Solar context by Balbus in 2009). We have selected our simulation parameters in such as way as to span the transition between Solar-like differential rotation (fast equator + slow poles) and ‘anti-Solar’ differential rotation (slow equator + fast poles), as characterised by the convective Rossby number and △Ω. We illustrate the transition from single-celled to multi-celled MC profiles, and from positive to negative latitudinal entropy gradients. We show that an extrapolation involving both TWB and the σ‧/Ω link provides a reasonable estimate for the interior profile of our fully convective stars. Finally, we also present a selection of MHD simulations which exhibit an almost unsuppressed differential rotation profile, with energy balances remaining dominated by kinetic components.
International Nuclear Information System (INIS)
Dabli, Djamel
2010-01-01
Hadron-therapy is a cancer treatment method based on the use of heavy charged particles. The physical characteristics of these particles allow more precise targeting of tumours and offer higher biological efficiency than photons and electrons. This thesis addresses the problem of modelling the biological effects induced by such particles. One part of this work is devoted to the analysis of the Monte-Carlo simulation tool-kit 'Geant4' used to simulate the physical stage of the particle interactions with the biological medium. We evaluated the ability of 'Geant4' to simulate the microscopic distribution of energy deposition produced by charged particles and we compared these results with those of another simulation code dedicated to radiobiological applications. The other part of the work is dedicated to the study of two radiobiological models that are the LEM (Local Effect Model) based on an amorphous track structure approach and the MKM (Microdosimetric Kinetic Model) based on microdosimetric approach. A theoretical analysis of both models and a comparison of their concepts are presented. Then we focused on a detailed analysis of the microdosimetric model 'MKM'. Finally, we applied the MKM to reproduce the experimental results obtained at GANIL by irradiation of two tumour cell lines (cell line SCC61 and SQ20B) of different radiosensitivity with carbon and argon ions. (author)
Clements, Aspen R; Berk, Brandon; Cooke, Ilsa R; Garrod, Robin T
2018-02-21
Dust grains in cold, dense interstellar clouds build up appreciable ice mantles through the accretion and subsequent surface chemistry of atoms and molecules from the gas. These mantles, of thicknesses on the order of 100 monolayers, are primarily composed of H 2 O, CO, and CO 2 . Laboratory experiments using interstellar ice analogues have shown that porosity could be present and can facilitate diffusion of molecules along the inner pore surfaces. However, the movement of molecules within and upon the ice is poorly described by current chemical kinetics models, making it difficult either to reproduce the formation of experimental porous ice structures or to extrapolate generalized laboratory results to interstellar conditions. Here we use the off-lattice Monte Carlo kinetics model MIMICK to investigate the effects that various deposition parameters have on laboratory ice structures. The model treats molecules as isotropic spheres of a uniform size, using a Lennard-Jones potential. We reproduce experimental trends in the density of amorphous solid water (ASW) for varied deposition angle, rate and surface temperature; ice density decreases when the incident angle or deposition rate is increased, while increasing temperature results in a more-compact water ice. The models indicate that the density behaviour at higher temperatures (≥80 K) is dependent on molecular rearrangement resulting from thermal diffusion. To reproduce trends at lower temperatures, it is necessary to take account of non-thermal diffusion by newly-adsorbed molecules, which bring kinetic energy both from the gas phase and from their acceleration into a surface binding site. Extrapolation of the model to conditions appropriate to protoplanetary disks, in which direct accretion of water from the gas-phase may be the dominant ice formation mechanism, indicate that these ices may be less porous than laboratory ices.
Energy Technology Data Exchange (ETDEWEB)
Mei, Donghai; Neurock, Matthew; Smith, C Michael
2009-10-22
The kinetics for the selective hydrogenation of acetylene-ethylene mixtures over model Pd(111) and bimetallic Pd-Ag alloy surfaces were examined using first principles based kinetic Monte Carlo (KMC) simulations to elucidate the effects of alloying as well as process conditions (temperature and hydrogen partial pressure). The mechanisms that control the selective and unselective routes which included hydrogenation, dehydrogenation and C-C bond breaking pathways were analyzed using first-principle density functional theory (DFT) calculations. The results were used to construct an intrinsic kinetic database that was used in a variable time step kinetic Monte Carlo simulation to follow the kinetics and the molecular transformations in the selective hydrogenation of acetylene-ethylene feeds over Pd and Pd-Ag surfaces. The lateral interactions between coadsorbates that occur through-surface and through-space were estimated using DFT-parameterized bond order conservation and van der Waal interaction models respectively. The simulation results show that the rate of acetylene hydrogenation as well as the ethylene selectivity increase with temperature over both the Pd(111) and the Pd-Ag/Pd(111) alloy surfaces. The selective hydrogenation of acetylene to ethylene proceeds via the formation of a vinyl intermediate. The unselective formation of ethane is the result of the over-hydrogenation of ethylene as well as over-hydrogenation of vinyl to form ethylidene. Ethylidene further hydrogenates to form ethane and dehydrogenates to form ethylidyne. While ethylidyne is not reactive, it can block adsorption sites which limit the availability of hydrogen on the surface and thus act to enhance the selectivity. Alloying Ag into the Pd surface decreases the overall rated but increases the ethylene selectivity significantly by promoting the selective hydrogenation of vinyl to ethylene and concomitantly suppressing the unselective path involving the hydrogenation of vinyl to ethylidene
International Nuclear Information System (INIS)
Advocat, T.
1991-01-01
An inactive borosilicate glass made of about 30 oxides is studied. The composition was developed by the CEA for encapsulation of calcinated fission product solutions from reprocessing. Hydration energy of glass is first calculated for 8 glasses and results are compared to experimental data. Dissolution of R7T7 glass is examined at 90 0 C in a large range of pH and S/V ratios (glass surface/solution volume). In dilute media (S/V = 0.1 cm -1 ) dissolution is selective at acid pH and stoichiometric at basic pH. In alkaline media dissolution rate increases with pH. Corrosion products, generally amorphous or badly crystallized are observed on glass surface. For high S/V ratios (4, 20, 80 and 200 cm -1 ) the very low dissolution rate is explained by saturation. Orthosilic acid controls corrosion kinetics. A kinetic equation is proposed taking into account pH, S/V ratio and dissolved silica concentration. Geochemical consequences of R7T7 dissolution are modelled at 100 0 C and 90 0 C. Affinity of dissolution reaction depends upon many factors (pH, silica concentration, nature and crystallinity of secondary phases. Reaction affinity is not constant for the long-term [fr
CMOS current controlled fully balanced current conveyor
Chunhua, Wang; Qiujing, Zhang; Haiguang, Liu
2009-07-01
This paper presents a current controlled fully balanced second-generation current conveyor circuit (CF-BCCII). The proposed circuit has the traits of fully balanced architecture, and its X-Y terminals are current controllable. Based on the CFBCCII, two biquadratic universal filters are also proposed as its applications. The CFBCCII circuits and the two filters were fabricated with chartered 0.35-μm CMOS technology; with ±1.65 V power supply voltage, the total power consumption of the CFBCCII circuit is 3.6 mW. Comparisons between measured and HSpice simulation results are also given.
2008-01-01
Thanks to the first real signals received from the LHC while in operation before the incident, the experiments are now set to make the best use of the data they have collected. Report from the LHCC open session.The September open session of the LHCC (LHC Experiments Committee) came just a few days after the incident that occurred at the LHC. The packed auditorium was a testament to the huge interest raised by Lyn Evans’ talk about the status of the machine and the plans for the future. After being told that the actual consequences of the incident will be clear only once Sector 3-4 has been warmed up, the audience focussed on the reports from the experiments. For the first time, the reports showed performance results of the various detectors with particles coming from the machine and not just from cosmic rays or tests and simulations. "The first days of LHC beam exceeded all expectations and the experiments made extensive and rapid use of the data they collected", says ...
Alibrandi, Giuseppe; Fabbrizzi, Luigi; Licchelli, Maurizio; Puglisi, Antonio
2015-01-12
This paper proposes a new type of molecular device that is able to act as an inverse proton sponge to slowly decrease the pH inside a reaction vessel. This makes the automatic monitoring of the concentration of pH-sensitive systems possible. The device is a composite formed of an alkyl chloride, which kinetically produces acidity, and a buffer that thermodynamically modulates the variation in pH value. Profiles of pH versus time (pH-t plots) have been generated under various experimental conditions by computer simulation, and the device has been tested by carrying out automatic spectrophotometric titrations, without using an autoburette. To underline the wide variety of possible applications, this new system has been used to realize and monitor HCl uptake by a di-copper(II) bistren complex in a single run, in a completely automatic experiment. © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.
Directory of Open Access Journals (Sweden)
Hanae Shimo
2011-01-01
Full Text Available It is well known that G6PD-deficient individuals are highly susceptible to oxidative stress. However, the differences in the degree of metabolic alterations among patients during an oxidative crisis have not been extensively studied. In this study, we applied mathematical modeling to assess the metabolic changes in erythrocytes of various G6PD-deficient patients during hydrogen peroxide- (H2O2- induced perturbation and predict the kinetic properties that elicit redox imbalance after exposure to an oxidative agent. Simulation results showed a discrepancy in the ability to restore regular metabolite levels and redox homeostasis among patients. Two trends were observed in the response of redox status (GSH/GSSG to oxidative stress, a mild decrease associated with slow recovery and a drastic decline associated with rapid recovery. The former was concluded to apply to patients with severe clinical symptoms. Low max and high mG6P of G6PD were shown to be kinetic properties that enhance consequent redox imbalance.
Directory of Open Access Journals (Sweden)
J. Aravind
2015-07-01
Full Text Available Gooseberry seed (Phyllanthus acidus was used as an adsorbent to determine its feasibility for the removal of Cr(VI. Various parameters such as pH, temperature, contact time, initial metal concentration and adsorbent dosage were investigated to determine the biosorption performance. Equilibrium was attained within 60 minutes and maximum removal of 96% was achieved under the optimum conditions at pH 2. The adsorption phenomenon demonstrated here was monolayer represented by Langmuir isotherm with R2 value of 0.992 and the Langmuir constants k and q0 was found to be 0.0061 (L/mg and 19.23 (mg/g. The adsorption system obeyed Pseudo second order kinetics with R2 value of 0.999. The results of the present study indicated that gooseberry seed powder can be employed as adsorbent for the effective removal of hexavalent chromium economically.
Magleby, K L; Weiss, D S
1990-09-22
Ion channels are integral membrane proteins that regulate ionic flux through cell membranes by opening and closing (or gating) their pores. The gating can be monitored by observing step changes in the current flowing through single channels. Analysis of the durations of the open and closed intervals and of the correlations among the interval durations can give insight into the gating mechanism. Although it is well known that the correlation information can be essential to distinguish among possible gating mechanisms, it has been difficult to use this information because it has not been possible to correct the predicted correlations for the distortion of the single-channel data because of filtering and noise. To overcome this limitation we present a method based on a comparison of simulated and experimental two-dimensional dwell-time distributions constructed by analysing simulated and experimental single-channel currents in an identical manner. The simulated currents incorporate the true effects of filtering and noise, the two-dimensional distributions retain the correlation information, and the identical analysis allows direct maximum-likelihood comparison of the simulated and experimental two-dimensional distributions. We show that the two-dimensional simulation method has a greatly increased ability to distinguish among models, compared with methods that use one-dimensional distributions.
Al-Subeihi, A.A.; Alhusainy, W.; Kiwamoto, R.; Spenkelink, A.; Bladeren, van P.J.; Rietjens, I.M.C.M.; Punt, A.
2015-01-01
The present study aims at predicting the level of formation of the ultimate carcinogenic metabolite of methyleugenol, 1'-sulfooxymethyleugenol, in the human population by taking variability in key bioactivation and detoxification reactions into account using Monte Carlo simulations. Depending on the
International Nuclear Information System (INIS)
Cook, J W S; Chapman, S C; Dendy, R O; Brady, C S
2011-01-01
We present particle-in-cell (PIC) simulations of minority energetic protons in deuterium plasmas, which demonstrate a collective instability responsible for emission near the lower hybrid frequency and its harmonics. The simulations capture the lower hybrid drift instability in a parameter regime motivated by tokamak fusion plasma conditions, and show further that the excited electromagnetic fields collectively and collisionlessly couple free energy from the protons to directed electron motion. This results in an asymmetric tail antiparallel to the magnetic field. We focus on obliquely propagating modes excited by energetic ions, whose ring-beam distribution is motivated by population inversions related to ion cyclotron emission, in a background plasma with a temperature similar to that of the core of a large tokamak plasma. A fully self-consistent electromagnetic relativistic PIC code representing all vector field quantities and particle velocities in three dimensions as functions of a single spatial dimension is used to model this situation, by evolving the initial antiparallel travelling ring-beam distribution of 3 MeV protons in a background 10 keV Maxwellian deuterium plasma with realistic ion-electron mass ratio. These simulations provide a proof-of-principle for a key plasma physics process that may be exploited in future alpha channelling scenarios for magnetically confined burning plasmas.
DEFF Research Database (Denmark)
van Leeuwen, Theo; Djonov, Emilia
2014-01-01
After discussing broad cultural drivers behind the development of kinetic typography, the chapter outlines an approach to analysing kinetic typography which is based on Halliday's theory of transitivity, as applied by Kress and Van Leeuwen to visual images....
Energy Technology Data Exchange (ETDEWEB)
Chason, Eric
2018-02-01
Thin films are critical for a wide range of advanced technologies. However, the deposited films often have high levels of residual stress that can limit their performance or lead to failure. The stress is known to depend on many variables, including the processing conditions, type of material, deposition technique and the film’s microstructure. The goal of this DOE program was to develop a fundamental understanding of how the different processes that control thin film growth under different conditions can be related to the development of stress. In the program, systematic experiments were performed or analyzed that related the stress to the processing conditions that were used. Measurements of stress were obtained for films that were grown at different rates, different solutions (for electrodeposition), different particle energies (for sputter deposition) and different microstructures. Based on this data, models were developed to explain the observed dependence on the different parameters. The models were based on considering the balance among different stress-inducing mechanism occurring as the film grows (for both non-energetic and energetic deposition). Comparison of the model predictions with the experiments enabled the kinetic parameters to be determined for different materials. The resulting model equations provide a comprehensive picture of how stress changes with the processing conditions that can be used to optimize the growth of thin films.
Liechty, Derek S.
2014-01-01
The ability to compute rarefied, ionized hypersonic flows is becoming more important as missions such as Earth reentry, landing high mass payloads on Mars, and the exploration of the outer planets and their satellites are being considered. Recently introduced molecular-level chemistry models that predict equilibrium and nonequilibrium reaction rates using only kinetic theory and fundamental molecular properties are extended in the current work to include electronic energy level transitions and reactions involving charged particles. These extensions are shown to agree favorably with reported transition and reaction rates from the literature for near-equilibrium conditions. Also, the extensions are applied to the second flight of the Project FIRE flight experiment at 1634 seconds with a Knudsen number of 0.001 at an altitude of 76.4 km. In order to accomplish this, NASA's direct simulation Monte Carlo code DAC was rewritten to include the ability to simulate charge-neutral ionized flows, take advantage of the recently introduced chemistry model, and to include the extensions presented in this work. The 1634 second data point was chosen for comparisons to be made in order to include a CFD solution. The Knudsen number at this point in time is such that the DSMC simulations are still tractable and the CFD computations are at the edge of what is considered valid because, although near-transitional, the flow is still considered to be continuum. It is shown that the inclusion of electronic energy levels in the DSMC simulation is necessary for flows of this nature and is required for comparison to the CFD solution. The flow field solutions are also post-processed by the nonequilibrium radiation code HARA to compute the radiative portion.
DEFF Research Database (Denmark)
van Leeuwen, Theo; Djonov, Emilia
2014-01-01
After discussing broad cultural drivers behind the development of kinetic typography, the chapter outlines an approach to analysing kinetic typography which is based on Halliday's theory of transitivity, as applied by Kress and Van Leeuwen to visual images.......After discussing broad cultural drivers behind the development of kinetic typography, the chapter outlines an approach to analysing kinetic typography which is based on Halliday's theory of transitivity, as applied by Kress and Van Leeuwen to visual images....
Vorberger, J.; Gericke, D. O.
2014-03-01
We evaluate various analytical models for the electron-ion energy transfer and compare the results to data from molecular dynamics (MD) simulations. The models tested include energy transfer via strong binary collisions, Landau-Spitzer rates with different choices for the cut-off parameters in the Coulomb logarithm, rates based on Fermi's golden rule (FGR) and theories taking coupled collective modes (CM) into account. In search of a model easy to apply, we first analyze different approximations of the FGR energy transfer rate. Then, we investigate several numerical studies using MD simulations and try to uncover CM effects in the data obtained. Most MD data published so far, except one study by Murillo et al. [23], show no distinct CM effects and, thus, can be interpreted within a FGR or binary collision approach. We show that this finding is related to the parameter regime, in particular the initial temperature difference, considered in these investigations.
Directory of Open Access Journals (Sweden)
C. Mesado
2012-01-01
Full Text Available In nuclear safety analysis, it is very important to be able to simulate the different transients that can occur in a nuclear power plant with a very high accuracy. Although the best estimate codes can simulate the transients and provide realistic system responses, the use of nonexact models, together with assumptions and estimations, is a source of uncertainties which must be properly evaluated. This paper describes a Rod Ejection Accident (REA simulated using the coupled code RELAP5/PARCSv2.7 with a perturbation on the cross-sectional sets in order to determine the uncertainties in the macroscopic neutronic information. The procedure to perform the uncertainty and sensitivity (U&S analysis is a sampling-based method which is easy to implement and allows different procedures for the sensitivity analyses despite its high computational time. DAKOTA-Jaguar software package is the selected toolkit for the U&S analysis presented in this paper. The size of the sampling is determined by applying the Wilks’ formula for double tolerance limits with a 95% of uncertainty and with 95% of statistical confidence for the output variables. Each sample has a corresponding set of perturbations that will modify the cross-sectional sets used by PARCS. Finally, the intervals of tolerance of the output variables will be obtained by the use of nonparametric statistical methods.
Liu, Baoshun; Yang, Jingjing; Zhao, Xiujian; Yu, Jiaguo
2017-03-29
In this research, a combination of in situ photoconductivity (σ) and kinetic simulations was used to study the role of electron interfacial transfer (IT) in the gaseous photocatalysis of formic acid by mesoporous nanocrystalline TiO 2 . The effects of light intensity, initial formic acid concentrations, oxygen amounts, and temperature on the in situ σ and the photocatalytic courses were studied in detail. The temperature dependence of in situ σ clearly shows that the electron transfer is determined by the IT of electrons to O 2 rather than by the transport. It was seen that the electron IT limits the photocatalysis by correlating with the recombination and the hole IT via the dynamic change in electron densities. The numerical simulation of in situ σ shows that the IT of electrons belongs to a thermally activated process that presents a thermal barrier of 0.5 eV. It is considered that this high thermal barrier limits the IT of electrons. It was also seen that the thermal activation of photocatalysis does not relate to that of the electron IT, although the overall photocatalysis is limited by the IT of electrons. Our finding shows that it is an effective way to increase the photocatalytic activity by reducing the thermal barrier of electron IT.
Chen, Gong; Kong, Xian; Lu, Diannan; Wu, Jianzhong; Liu, Zheng
2017-05-10
Molecular dynamics (MD) simulations, in combination with the Markov-state model (MSM), were applied to probe CO 2 diffusion from an aqueous solution into the active site of human carbonic anhydrase II (hCA-II), an enzyme useful for enhanced CO 2 capture and utilization. The diffusion process in the hydrophobic pocket of hCA-II was illustrated in terms of a two-dimensional free-energy landscape. We found that CO 2 diffusion in hCA-II is a rate-limiting step in the CO 2 diffusion-binding-reaction process. The equilibrium distribution of CO 2 shows its preferential accumulation within a hydrophobic domain in the protein core region. An analysis of the committors and reactive fluxes indicates that the main pathway for CO 2 diffusion into the active site of hCA-II is through a binding pocket where residue Gln 136 contributes to the maximal flux. The simulation results offer a new perspective on the CO 2 hydration kinetics and useful insights toward the development of novel biochemical processes for more efficient CO 2 sequestration and utilization.
International Nuclear Information System (INIS)
Cleveland, J.C.
1977-01-01
CORTAP (Core Transient Analysis Program) was developed to predict the dynamic behavior of the High Temperature Gas Cooled Reactor (HTGR) core under normal operational transients and postulated accident conditions. CORTAP is used both as a stand-alone component simulation and as part of the HTGR nuclear steam supply (NSS) system simulation code ORTAP. The core thermal neutronic response is determined by solving the heat transfer equations for the fuel, moderator and coolant in an average powered region of the reactor core. The space independent neutron kinetics equations are coupled to the heat transfer equations through a rapidly converging iterative technique. The code has the capability to determine conservative fuel, moderator, and coolant temperatures in the ''hot'' fuel region. For transients involving a reactor trip, the core heat generation rate is determined from an expression for decay heat following a scram. Nonlinear effects introduced by temperature dependent fuel, moderator, and coolant properties are included in the model. CORTAP predictions will be compared with dynamic test results obtained from the Fort St. Vrain reactor owned by Public Service of Colorado, and, based on these comparisons, appropriate improvements will be made in CORTAP
Li, Haoyuan
2017-01-16
The electrical properties of organic field-effect transistors (OFETs) are usually characterized by applying models initially developed for inorganic-based devices, which often implies the use of approximations that might be inappropriate for organic semiconductors. These approximations have brought limitations to the understanding of the device physics associated with organic materials. A strategy to overcome this issue is to establish straightforward connections between the macroscopic current characteristics and microscopic charge transport in OFETs. Here, a 3D kinetic Monte Carlo model is developed that goes beyond both the conventional assumption of zero channel thickness and the gradual channel approximation to simulate carrier transport and current. Using parallel computing and a new algorithm that significantly improves the evaluation of electric potential within the device, this methodology allows the simulation of micrometer-sized OFETs. The current characteristics of representative OFET devices are well reproduced, which provides insight into the validity of the gradual channel approximation in the case of OFETs, the impact of the channel thickness, and the nature of microscopic charge transport.
Yield strength prediction in Ni-base alloy 718Plus based on thermo-kinetic precipitation simulation
International Nuclear Information System (INIS)
Ahmadi, M.R.; Povoden-Karadeniz, E.; Whitmore, L.; Stockinger, M.; Falahati, A.; Kozeschnik, E.
2014-01-01
The yield strength of Allvac ® 718Plus ™ during aging is computed using integrated physical models that take into account intrinsic, grain boundary, solid solution and precipitate strengthening contributions. Precipitation strengthening of γ′ has the main effect on the final yield strength in this alloy during aging, with the coherency and anti-phase boundary effects providing the major strengthening contributions. We utilize transmission electron microscopy to obtain the unknown physical parameters entering the strengthening models and compare precipitate size and distribution with the simulation results
Self-learning kinetic Monte Carlo simulations of diffusion in ferromagnetic α -Fe–Si alloys
Energy Technology Data Exchange (ETDEWEB)
Nandipati, Giridhar; Jiang, Xiujuan; Vemuri, Rama S.; Mathaudhu, Suveen; Rohatgi, Aashish
2017-12-19
Diffusion in α-Fe-Si alloys is studied using AKSOME, an on-lattice self-learning KMC code, in the ferromagnetic state. Si diffusivity in the α-Fe matrix were obtained with and without the magnetic disorder in various temperature ranges. In addition we studied vacancy diffusivity in ferromagnetic α-Fe at various Si concentrations up to 12.5at.% in the temperature range of 350–550 K. The results were compared with available experimental and theoretical values in the literature. Local Si-atom dependent activation energies for vacancy hops were calculated using a broken-model and were stored in a database. The migration barrier and prefactors for Si-diffusivity were found to be in reasonable agreement with available modeling results in the literature. Magnetic disorder has a larger effect on the prefactor than on the migration barrier. Prefactor was approximately an order of magnitude and the migration barrier a tenth of an electron-volt higher with magnetic disorder when compared to a fully ferromagnetic ordered state. In addition, the correlation between various have a larger effect on the Si-diffusivity extracted in various temperature range than the magnetic disorder. In the case of vacancy diffusivity, the migration barrier more or less remained constant while the prefactor decreased with increasing Si concentration in the disordered or A2-phase of Fe-Si alloy. Important vacancy-Si/Fe atom exchange processes and their activation barriers were also identified and discuss the effect of energetics on the formation of ordered phases in Fe-Si alloys.
Energy Technology Data Exchange (ETDEWEB)
Poutsma, Marvin L [ORNL
2006-01-01
Simulations of the initial distribution of volatiles from pyrolysis of polystyrene were based on propagation rate constants estimated by thermochemical kinetic procedures. The voluminous database exhibits a disturbing lack of consistency with respect to effects of conversion level, temperature, and reactor type. It therefore remains difficult to assign the true primary distribution of the major products, styrene, 2,4-diphenyl-1-butene (''dimer''), 2,4,6-triphenyl-1-hexene (''trimer''), 1,3-diphenylpropane, and toluene, and its dependence on conditions. Probable perturbations by secondary reactions and selective evaporation are considered. The rate constant for 1,3-hydrogen shift appears much too small to accommodate the commonly proposed ''back-biting'' mechanism for dimer formation. Dimer more likely arises by addition of benzyl radical to olefinic chain-ends, followed by {beta}-scission, although ambiguities remain in assigning rate constants for the addition and {beta}-scission steps. With this modification, the major products can be successfully associated with decay of the sec-benzylic chain-end radical. In contrast, the minimal formation of allylbenzene, 2,4-diphenyl-1-pentene, and 2,4,6-triphenyl-1-heptene suggests a minimal chain-propagating role for the prim chain-end radical. Compared with polyethylene, the much enhanced ''unzipping'' to form monomer from polystyrene and the more limited depth of ''back-biting'' into the chain arise from an enthalpy-driven acceleration of {beta}-scission coupled with a kinetically driven deceleration of intramolecular hydrogen transfer. In contrast, the greater ''unzipping'' of poly(isobutylene) compared with polyethylene is proposed to result from relief of steric strain.
Balasubramaniam, R; Gokoglu, S.; Hegde, U.
2009-01-01
We have previously developed a chemical conversion model of the carbothermal processing of lunar regolith using methane to predict the rate of production of carbon monoxide. In this carbothermal process, gaseous methane is pyrolyzed as it flows over the hot surface of a molten zone of lunar regolith and is converted to carbon and hydrogen. Hydrogen is carried away by the exiting stream of gases and carbon is deposited on the melt surface. The deposited carbon mixes with the melt and reacts with the metal oxides in it to produce carbon monoxide that bubbles out of the melt. In our model, we assume that the flux of carbon deposited is equal to the product of the surface reaction rate constant gamma and the concentration of methane adjacent to the melt surface. Similarly, the rate of consumption of carbon per unit volume in the melt is equal to the product of the melt reaction rate constant k and the concentrations of carbon and metal oxide in the melt. In this paper, we describe our effort to determine gamma and k by comparison of the predictions from our model with test data obtained by ORBITEC (Orbital Technologies Corporation). The concentration of methane adjacent to the melt surface is a necessary input to the model. It is inferred from the test data by a mass balance of methane, adopting the usual assumptions of the continuously-stirred-tank-reactor model, whereby the average concentration of a given gaseous species equals its exit concentration. The reaction rates gamma and k have been determined by a non-linear least-squares fit to the test data for the production of carbon monoxide and the fraction of the incoming methane that is converted. The comparison of test data with our model predictions using the determined chemical kinetic rate constants provides a consistent interpretation of the process over the full range of temperatures, pressures, and methane flow rates used in the tests, thereby increasing our confidence to use the model for scale-up purposes.
Zhou, Chong-Wen; Simmie, John M; Somers, Kieran P; Goldsmith, C Franklin; Curran, Henry J
2017-03-09
Hydrogen atom abstraction from allylic C-H bonds by molecular oxygen plays a very important role in determining the reactivity of fuel molecules having allylic hydrogen atoms. Rate constants for hydrogen atom abstraction by molecular oxygen from molecules with allylic sites have been calculated. A series of molecules with primary, secondary, tertiary, and super secondary allylic hydrogen atoms of alkene, furan, and alkylbenzene families are taken into consideration. Those molecules include propene, 2-butene, isobutene, 2-methylfuran, and toluene containing the primary allylic hydrogen atom; 1-butene, 1-pentene, 2-ethylfuran, ethylbenzene, and n-propylbenzene containing the secondary allylic hydrogen atom; 3-methyl-1-butene, 2-isopropylfuran, and isopropylbenzene containing tertiary allylic hydrogen atom; and 1-4-pentadiene containing super allylic secondary hydrogen atoms. The M06-2X/6-311++G(d,p) level of theory was used to optimize the geometries of all of the reactants, transition states, products and also the hinder rotation treatments for lower frequency modes. The G4 level of theory was used to calculate the electronic single point energies for those species to determine the 0 K barriers to reaction. Conventional transition state theory with Eckart tunnelling corrections was used to calculate the rate constants. The comparison between our calculated rate constants with the available experimental results from the literature shows good agreement for the reactions of propene and isobutene with molecular oxygen. The rate constant for toluene with O 2 is about an order magnitude slower than that experimentally derived from a comprehensive model proposed by Oehlschlaeger and coauthors. The results clearly indicate the need for a more detailed investigation of the combustion kinetics of toluene oxidation and its key pyrolysis and oxidation intermediates. Despite this, our computed barriers and rate constants retain an important internal consistency. Rate constants
Energy Technology Data Exchange (ETDEWEB)
Chen, Guangye [Los Alamos National Laboratory; Chacon, Luis [Los Alamos National Laboratory; Knoll, Dana Alan [Los Alamos National Laboratory; Barnes, Daniel C [Coronado Consulting
2015-07-31
A multi-rate PIC formulation was developed that employs large timesteps for slow field evolution, and small (adaptive) timesteps for particle orbit integrations. Implementation is based on a JFNK solver with nonlinear elimination and moment preconditioning. The approach is free of numerical instabilities (ω_{pe}Δt >>1, and Δx >> λ_{D}), and requires many fewer dofs (vs. explicit PIC) for comparable accuracy in challenging problems. Significant gains (vs. conventional explicit PIC) may be possible for large scale simulations. The paper is organized as follows: Vlasov-Maxwell Particle-in-cell (PIC) methods for plasmas; Explicit, semi-implicit, and implicit time integrations; Implicit PIC formulation (Jacobian-Free Newton-Krylov (JFNK) with nonlinear elimination allows different treatments of disparate scales, discrete conservation properties (energy, charge, canonical momentum, etc.)); Some numerical examples; and Summary.
Ngada, Narcisse
2015-06-15
The complexity and cost of building and running high-power electrical systems make the use of simulations unavoidable. The simulations available today provide great understanding about how systems really operate. This paper helps the reader to gain an insight into simulation in the field of power converters for particle accelerators. Starting with the definition and basic principles of simulation, two simulation types, as well as their leading tools, are presented: analog and numerical simulations. Some practical applications of each simulation type are also considered. The final conclusion then summarizes the main important items to keep in mind before opting for a simulation tool or before performing a simulation.
Joneta Witabora; Jonata Witabora
2014-01-01
Kinetic Sculpture was born from a long process of searching new approach in sculpture. The artists tried to escape from 'static' paradigm and tried to implement movement into their works: a sculpture that is mobile. Movement is always a fascinating phenomenon to eyes. Kinetic sculpture strength lies in its unique character in combining science and art. Kinetic Sculptures are really interesting pieces of art. It succeeds to fascinate human everytime.
Zhang, Congyao; Yu, Qingjuan; Lu, Youjun
2018-03-01
The massive galaxy cluster “El Gordo” (ACT-CL J0102–4915) is a rare merging system with a high collision speed suggested by multi-wavelength observations and theoretical modeling. Zhang et al. propose two types of mergers, a nearly head-on merger and an off-axis merger with a large impact parameter, to reproduce most of the observational features of the cluster using numerical simulations. The different merger configurations of the two models result in different gas motion in the simulated clusters. In this paper, we predict the kinetic Sunyaev–Zel’dovich (kSZ) effect, the relativistic correction of the thermal Sunyaev–Zel’dovich (tSZ) effect, and the X-ray spectrum of this cluster, based on the two proposed models. We find that (1) the amplitudes of the kSZ effect resulting from the two models are both on the order of ΔT/T ∼ 10‑5 but their morphologies are different, which trace the different line-of-sight velocity distributions of the systems; (2) the relativistic correction of the tSZ effect around 240 GHz can be possibly used to constrain the temperature of the hot electrons heated by the shocks; and (3) the shift between the X-ray spectral lines emitted from different regions of the cluster can be significantly different in the two models. The shift and the line broadening can be up to ∼25 eV and 50 eV, respectively. We expect that future observations of the kSZ effect and the X-ray spectral lines (e.g., by ALMA, XARM) will provide a strong constraint on the gas motion and the merger configuration of ACT-CL J0102–4915.
International Nuclear Information System (INIS)
Perez M, C.
2004-01-01
The development of a software that simulates the punctual kinetics of a nuclear research reactor model TRIGA Mark III, generating the answers of the reactor low different algorithms of control of power is presented. The user requires a graphic interface that allows him easily interacting with the pretender. To achieve the proposed objective, first the system was modeled in open knot, not using a mathematical model of the consistent reactor in a system of ordinary differential equations lineal. For their solution in real time the numeric method of Runge-Kutta-Fehlberg was used. As second phase, it was modeled to the system in closed knot, using for it an algorithm of control of the power based on fuzzy logic. Taking into account the graphic characteristics detailed in the requirements of the system (chapter 4), it was chosen to develop the pretender the language of Visual programming Basic 6.0. The program fulfills the time of execution satisfactorily, assisting to the necessity of visualizing the behavior in real time of the reactor, and it responds from an effective way to the petitions of changes of power on the part of the user. (Author)
Wang, Peng; Wang, Lian-Ping; Guo, Zhaoli
2016-10-01
The main objective of this work is to perform a detailed comparison of the lattice Boltzmann equation (LBE) and the recently developed discrete unified gas-kinetic scheme (DUGKS) methods for direct numerical simulation (DNS) of the decaying homogeneous isotropic turbulence and the Kida vortex flow in a periodic box. The flow fields and key statistical quantities computed by both methods are compared with those from the pseudospectral method at both low and moderate Reynolds numbers. The results show that the LBE is more accurate and efficient than the DUGKS, but the latter has a superior numerical stability, particularly for high Reynolds number flows. In addition, we conclude that the DUGKS can adequately resolve the flow when the minimum spatial resolution parameter k_{max}η>3, where k_{max} is the maximum resolved wave number and η is the flow Kolmogorov length. This resolution requirement can be contrasted with the requirements of k_{max}η>1 for the pseudospectral method and k_{max}η>2 for the LBE. It should be emphasized that although more validations should be conducted before the DUGKS can be called a viable tool for DNS of turbulent flows, the present work contributes to the overall assessment of the DUGKS, and it provides a basis for further applications of DUGKS in studying the physics of turbulent flows.
Lee, Jaeeun; Park, Siwook; Kim, Hwangsun; Park, Seong-Jun; Lee, Keunho; Kim, Mi-Young; Madakashira, Phaniraj P.; Han, Heung Nam
2018-03-01
Fe-Al-Mn-C alloy systems are low-density austenite-based steels that show excellent mechanical properties. After aging such steels at adequate temperatures for adequate time, nano-scale precipitates such as κ-carbide form, which have profound effects on the mechanical properties. Therefore, it is important to predict the amount and size of the generated κ-carbide precipitates in order to control the mechanical properties of low-density steels. In this study, the microstructure and mechanical properties of aged low-density austenitic steel were characterized. Thermo-kinetic simulations of the aging process were used to predict the size and phase fraction of κ-carbide after different aging periods, and these results were validated by comparison with experimental data derived from dark-field transmission electron microscopy images. Based on these results, models for precipitation strengthening based on different mechanisms were assessed. The measured increase in the strength of aged specimens was compared with that calculated from the models to determine the exact precipitation strengthening mechanism.
International Nuclear Information System (INIS)
Vincent, E.; Domain, C.; Vincent, E.; Becquart, C.S.
2008-01-01
Full text of publication follows. The embrittlement and the hardening of pressure vessel steels under radiation has been correlated with the presence solutes such as Cu, Ni, Mn and Si. Indeed it has been observed that under irradiation, these solutes tend to gather to form more or less dilute clusters. The interactions of these solutes with radiation induced point defects thus need to be characterised properly in order to understand the elementary mechanisms behind the formation of these clusters. Ab initio calculations based on the density functional theory have been performed to determine the interactions of point defects (vacancies as well as interstitials) with solute atoms in dilute FeX alloys (X Cu, Mn, Ni or Si) in order to build a database used to parameterize an atomic kinetic Monte Carlo model. The model has been applied to simulate thermal ageing as well as irradiation conditions in dilute Fe-CuNiMnSi alloys. Results obtained with this model will be presented. (authors)
Energy Technology Data Exchange (ETDEWEB)
Albrecht-Marc, M
2005-09-15
This thesis deals with the numerical simulation of Raman instability through optical mixing in the field of inertial confinement fusion. We have used a semi-Lagrangian Vlasov-Maxwell code allowing a fine description in phase space of the effects of this type of plasma instabilities (likely to occur in future machines like LMJ and NIF). We have showed, both in homogeneous and inhomogeneous profiles, the effect of the convective amplification of the probe wave that induces weak turbulence in plasma. It is associated with a non-linear shift in frequency and in wave-vector of the scattered modes, due to kinetic effects. All this is a preliminary phase of the plasma. Moreover, both forward Raman or Brillouin scatterings have been taken into account. Eventually, we have been able to detect in various conditions low frequency (below the plasma frequency) electronic modes (KEEN) appearing through parametric coupling with other waves already present in the plasma. This work is divided into 3 parts: 1) models for laser-plasma interaction, 2) Raman scattering, optical mix and wave beat, and 3) analysis of the results of simulation.
Indian Academy of Sciences (India)
Collapse of a Bose gas: Kinetic approach ... Thermodynamical, statistical and static properties of condensates; Ultracold and trapped gases; matter waves. ... of a harmonically trapped attractively interacting Bose gas below the condensation point by introducing a kinetic approach within the Hartee-Fock approximation.
International Nuclear Information System (INIS)
Swart, C.A.M. de.
1983-01-01
The author has studied the kinetics of heparin and heparin fractions after intravenous administration in humans and in this thesis the results of this study are reported. Basic knowledge about the physico-chemical properties of heparin and its interactions with proteins resulting in anticoagulant and lipolytic effects are discussed in a review (chapter II), which also comprises some clinical aspects of heparin therapy. In chapter III the kinetics of the anticoagulant effect are described after intravenous administration of five commercial heparin preparations. A mathematical model is presented that fits best to these kinetics. The kinetics of the anticoagulant and lipolytic effects after intravenous injection of various 35 S-radiolabelled heparin fractions and their relationship with the disappearance of the radiolabel are described in chapter IV. Chapter V gives a description of the kinetics of two radiolabels after injection of in vitro formed complexes consisting of purified, 125 I-radiolabelled antithrombin III and various 35 S-radiolabelled heparin fractions. (Auth.)
PB-AM: An open-source, fully analytical linear poisson-boltzmann solver
Energy Technology Data Exchange (ETDEWEB)
Felberg, Lisa E. [Department of Chemical and Biomolecular Engineering, University of California Berkeley, Berkeley California 94720; Brookes, David H. [Department of Chemistry, University of California Berkeley, Berkeley California 94720; Yap, Eng-Hui [Department of Systems and Computational Biology, Albert Einstein College of Medicine, Bronx New York 10461; Jurrus, Elizabeth [Division of Computational and Statistical Analytics, Pacific Northwest National Laboratory, Richland Washington 99352; Scientific Computing and Imaging Institute, University of Utah, Salt Lake City Utah 84112; Baker, Nathan A. [Advanced Computing, Mathematics, and Data Division, Pacific Northwest National Laboratory, Richland Washington 99352; Division of Applied Mathematics, Brown University, Providence Rhode Island 02912; Head-Gordon, Teresa [Department of Chemical and Biomolecular Engineering, University of California Berkeley, Berkeley California 94720; Department of Chemistry, University of California Berkeley, Berkeley California 94720; Department of Bioengineering, University of California Berkeley, Berkeley California 94720; Chemical Sciences Division, Lawrence Berkeley National Labs, Berkeley California 94720
2016-11-02
We present the open source distributed software package Poisson-Boltzmann Analytical Method (PB-AM), a fully analytical solution to the linearized Poisson Boltzmann equation. The PB-AM software package includes the generation of outputs files appropriate for visualization using VMD, a Brownian dynamics scheme that uses periodic boundary conditions to simulate dynamics, the ability to specify docking criteria, and offers two different kinetics schemes to evaluate biomolecular association rate constants. Given that PB-AM defines mutual polarization completely and accurately, it can be refactored as a many-body expansion to explore 2- and 3-body polarization. Additionally, the software has been integrated into the Adaptive Poisson-Boltzmann Solver (APBS) software package to make it more accessible to a larger group of scientists, educators and students that are more familiar with the APBS framework.
A kinetics database and scripts for PHREEQC
Hu, B.; Zhang, Y.; Teng, Y.; Zhu, C.
2017-12-01
Kinetics of geochemical reactions has been increasingly used in numerical models to simulate coupled flow, mass transport, and chemical reactions. However, the kinetic data are scattered in the literature. To assemble a kinetic dataset for a modeling project is an intimidating task for most. In order to facilitate the application of kinetics in geochemical modeling, we assembled kinetics parameters into a database for the geochemical simulation program, PHREEQC (version 3.0). Kinetics data were collected from the literature. Our database includes kinetic data for over 70 minerals. The rate equations are also programmed into scripts with the Basic language. Using the new kinetic database, we simulated reaction path during the albite dissolution process using various rate equations in the literature. The simulation results with three different rate equations gave difference reaction paths at different time scale. Another application involves a coupled reactive transport model simulating the advancement of an acid plume in an acid mine drainage site associated with Bear Creek Uranium tailings pond. Geochemical reactions including calcite, gypsum, and illite were simulated with PHREEQC using the new kinetic database. The simulation results successfully demonstrated the utility of new kinetic database.
Ignition delay measurements of light naphtha: A fully blended low octane fuel
Javed, Tamour
2016-06-15
Light naphtha is a fully blended, low-octane (RON. = 64.5, MON. = 63.5), highly paraffinic (>. 90% paraffinic content) fuel, and is one of the first distillates obtained during the crude oil refining process. Light naphtha is an attractive low-cost fuel candidate for advanced low-temperature compression ignition engines where autoignition is the primary control mechanism. We measured ignition delay times for light naphtha in a shock tube and a rapid compression machine (RCM) over a broad range of temperatures (640-1250. K), pressures (20 and 40. bar) and equivalence ratios (0.5, 1 and 2). Ignition delay times were modeled using a two-component primary reference fuel (PRF) surrogate and a multi-component surrogate. Both surrogates adequately captured the measured ignition delay times of light naphtha under shock tube conditions. However, for low-temperature RCM conditions, simulations with the multi-component surrogate showed better agreement with experimental data. These simulated surrogate trends were confirmed by measuring the ignition delay times of the PRF and multi-component surrogates in the RCM at . P = 20. bar, . ϕ = 2. Detailed kinetic analyses were undertaken to ascertain the dependence of the surrogates\\' reactivity on their chemical composition. To the best of our knowledge, this is the first fundamental autoignition study on the reactivity of a low-octane fully blended fuel and the use of a suitably formulated multi-component surrogate to model its behavior.
Physics of fully ionized regions
International Nuclear Information System (INIS)
Flower, D.
1975-01-01
In this paper the term fully ionised regions is taken to embrace both planetary nebulae and the so-called 'H II' regions referred to as H + regions. Whilst these two types of gaseous nebulae are very different from an evolutionary standpoint, they are physically very similar, being characterised by photoionisation of a low-density plasma by a hot star. (Auth.)
Simonov, Alexandr N.
2014-08-19
Many electrode processes that approach the "reversible" (infinitely fast) limit under voltammetric conditions have been inappropriately analyzed by comparison of experimental data and theory derived from the "quasi-reversible" model. Simulations based on "reversible" and "quasi-reversible" models have been fitted to an extensive series of a.c. voltammetric experiments undertaken at macrodisk glassy carbon (GC) electrodes for oxidation of ferrocene (Fc0/+) in CH3CN (0.10 M (n-Bu)4NPF6) and reduction of [Ru(NH 3)6]3+ and [Fe(CN)6]3- in 1 M KCl aqueous electrolyte. The confidence with which parameters such as standard formal potential (E0), heterogeneous electron transfer rate constant at E0 (k0), charge transfer coefficient (α), uncompensated resistance (Ru), and double layer capacitance (CDL) can be reported using the "quasi- reversible" model has been assessed using bootstrapping and parameter sweep (contour plot) techniques. Underparameterization, such as that which occurs when modeling CDL with a potential independent value, results in a less than optimal level of experiment-theory agreement. Overparameterization may improve the agreement but easily results in generation of physically meaningful but incorrect values of the recovered parameters, as is the case with the very fast Fc0/+ and [Ru(NH3)6]3+/2+ processes. In summary, for fast electrode kinetics approaching the "reversible" limit, it is recommended that the "reversible" model be used for theory-experiment comparisons with only E0, R u, and CDL being quantified and a lower limit of k 0 being reported; e.g., k0 ≥ 9 cm s-1 for the Fc0/+ process. © 2014 American Chemical Society.
Xie, Fan; Gong, Shengxiang; Zhang, Wei; Wu, Jinhong; Wang, Zhengwu
2017-02-01
In this study, we extracted lignin from Canna edulis ker residue. Its chemical structure, inhibitory activity on α-d-glucosidase, and kinetics as well as interaction mechanism were investigated by using spectrum analysis and docking simulation. The isolated lignin was composed by guaiacyl and syringal units, and exhibited stronger inhibition on α-d-glucosidase than acarbose with the half maximal inhibitory concentration at 5.3±0.3μM. It was a non-competitive inhibitior with K m and K i values of 0.53±0.02mM and 0.92±0.12μM, respectively. It could quench the intrinsic fluorescence of α-d-glucosidase through a static quenching mode. The calculated values of enthalpy and entropy change were 20.8±2.5kJmol -1 and 172.7±0.8Jmol -1 K -1 , respectively. There was a single binding site on α-d-glucosidase for lignin, and the binding distance was 3.2nm. The molecular docking analysis exhibited that the hydrogen bonds, hydropholic interaction, and van der Waals forces were the main forces for lignin bind to α-d-glucosidase. This work provides a new insight into the interaction between the lignin and α-d-glucosidase, which might be beneficial to type 2 diabetes with the application of lignin in functional food and pharmacy fields. Copyright © 2016 Elsevier B.V. All rights reserved.
Lefeber, Timothy; Janssens, Maarten; Camu, Nicholas; De Vuyst, Luc
2010-12-01
The composition of cocoa pulp simulation media (PSM) was optimized with species-specific strains of lactic acid bacteria (PSM-LAB) and acetic acid bacteria (PSM-AAB). Also, laboratory fermentations were carried out in PSM to investigate growth and metabolite production of strains of Lactobacillus plantarum and Lactobacillus fermentum and of Acetobacter pasteurianus isolated from Ghanaian cocoa bean heap fermentations, in view of the development of a defined starter culture. In a first step, a selection of strains was made out of a pool of strains of these LAB and AAB species, obtained from previous studies, based on their fermentation kinetics in PSM. Also, various concentrations of citric acid in the presence of glucose and/or fructose (PSM-LAB) and of lactic acid in the presence of ethanol (PSM-AAB) were tested. These data could explain the competitiveness of particular cocoa-specific strains, namely, L. plantarum 80 (homolactic and acid tolerant), L. fermentum 222 (heterolactic, citric acid fermenting, mannitol producing, and less acid tolerant), and A. pasteurianus 386B (ethanol and lactic acid oxidizing, acetic acid overoxidizing, acid tolerant, and moderately heat tolerant), during the natural cocoa bean fermentation process. For instance, it turned out that the capacity to use citric acid, which was exhibited by L. fermentum 222, is of the utmost importance. Also, the formation of mannitol was dependent not only on the LAB strain but also on environmental conditions. A mixture of L. plantarum 80, L. fermentum 222, and A. pasteurianus 386B can now be considered a mixed-strain starter culture for better controlled and more reliable cocoa bean fermentation processes.
DEFF Research Database (Denmark)
2009-01-01
A kinetic interface for orientation detection in a video training system is disclosed. The interface includes a balance platform instrumented with inertial motion sensors. The interface engages a participant's sense of balance in training exercises.......A kinetic interface for orientation detection in a video training system is disclosed. The interface includes a balance platform instrumented with inertial motion sensors. The interface engages a participant's sense of balance in training exercises....
A three-dimensional mixed-domain PEM fuel cell model with fully-coupled transport phenomena
Energy Technology Data Exchange (ETDEWEB)
Meng, Hua [Center for Engineering and Scientific Computation, College of Computer Science, P.O. Box 1455, Zhejiang University, Hangzhou, Zhejiang 310027 (China)
2007-02-10
A three-dimensional mixed-domain PEM fuel cell model with fully-coupled transport phenomena has been developed in this paper. In this model, after fully justified simplifications, only one set of interfacial boundary conditions is required to connect the water content equation inside the membrane and the equation of the water mass fraction in the other regions. All the other conservation equations are still solved in the single-domain framework. Numerical results indicate that although the fully-coupled transport phenomena produce only minor effects on the overall PEM fuel cell performance, i.e. average current density, they impose significant effects on current distribution, net water transfer coefficient, velocity and density variations, and species distributions. Intricate interactions of the mass transfer across the membrane, electrochemical kinetics, density and velocity variations, and species distributions dictate the detailed cell performances. Therefore, for accurate PEM fuel cell modeling and simulation, the effects of the fully-coupled transport phenomena could not be neglected. (author)
Axiomatisation of fully probabilistic design
Czech Academy of Sciences Publication Activity Database
Kárný, Miroslav; Kroupa, Tomáš
2012-01-01
Roč. 186, č. 1 (2012), s. 105-113 ISSN 0020-0255 R&D Projects: GA MŠk(CZ) 2C06001; GA ČR GA102/08/0567 Institutional research plan: CEZ:AV0Z10750506 Keywords : Bayesian decision making * Fully probabilistic design * Kullback–Leibler divergence * Unified decision making Subject RIV: BB - Applied Statistics, Operational Research Impact factor: 3.643, year: 2012 http://library.utia.cas.cz/separaty/2011/AS/karny-0367271.pdf
Energy Technology Data Exchange (ETDEWEB)
Jeong, Jae Jun; Chung, Bub Dong
2005-09-15
For realistic analysis of thermal-hydraulics (T-H) transients in light water reactors, KAERI has developed the best-estimate T-H system code, MARS. The code has been improved from the consolidated version of the RELAP5/MOD3 and COBRA-TF codes. Then, the MARS code was coupled with a three-dimensional (3-D) reactor kinetics code, MASTER. This coupled calculation feature, in conjunction with the existing hot channel analysis capabilities of the MARS and MASTER codes, allows for more realistic simulations of nuclear system transients. In this work, a main steam line break (MSLB) accident is simulated using the coupled 'system T-H, 3-D reactor kinetics, and hot channel analysis' feature of the MARS code. Two coupled calculations are performed for demonstration. First, a coupled calculation of the 'system T-H and 3-D reactor kinetics' with a refined core T-H nodalization is carried out to obtain global core power and local departure from nucleate boiling (DNB) ratio (DNBR) behaviors. Next, for a more accurate DNBR prediction, another coupled calculation with subchannel meshes for the hot channels is performed. The results of the coupled calculations are very reasonable and consistent so that these can be used to remove the excessive conservatism in the conventional safety analysis.
Directory of Open Access Journals (Sweden)
Mojtaba Ahmadi
2016-11-01
Full Text Available The aqueous degradation of Reactive Yellow 84 (RY84 by potassium peroxydisulfate (K2S2O8 has been studied in laboratory scale experiments. The effect of the initial concentrations of potassium peroxydisulfate and RY84, pH and temperature on RY84 degradation were also examined. Experimental data were analyzed using first and second-order kinetics. The degradation kinetics of RY84 of the potassium peroxydisulfate process followed the second-order reaction kinetics. These rate constants have an extreme values similar to of 9.493 mM−1min−1 at a peroxydisulfate dose of 4 mmol/L. Thermodynamic parameters such as activation (Ea and Gibbs free energy (ΔG° were also evaluated. The negative value of ΔGo and Ea shows the spontaneous reaction natural conditions and exothermic nature.
Fast Search and Adaptive Resolution for Complex Particle Kinetics
Larson, David J.
2005-10-01
A new plasma simulation algorithm, intended to bridge the gap between Eulerian fluid and kinetic regimes, is now being used for a variety of applications in ICF and weapon effects. The CPK method (Complex Particle Kinetic) concept [1] uses an ensemble of macro-particles with a Gaussian spatial profile and a Mawellian velocity distribution to represent particle distributions in phase space. Time evolution is modeled by a combination of Lagrangian motion and internal evolution within each individual macro-particle. Collisional particle-particle interactions [2] are facilitated by sorting particles into bins depending of the particle size. Different bin levels are connected by a linked list. Searching for neighboring particles is highly efficient because the search is limited to particles in neighboring bins with the possibility of interaction. The bin structure also allows the computation of various spatial moments at different resolutions. Combining the results of the moment calculations yields information on where and when increased resolution is necessary. We will present details of the particle binning process along with progress towards our goal of simulating the transition from continuum to fully kinetic physics. [1] D. W. Hewett, J. Comp. Phys. 189 (2003). [2] D. J. Larson, J. Comp. Phys. 188 (2003).
DEFF Research Database (Denmark)
Gould, Derek A; Chalmers, Nicholas; Johnson, Sheena J
2012-01-01
Recognition of the many limitations of traditional apprenticeship training is driving new approaches to learning medical procedural skills. Among simulation technologies and methods available today, computer-based systems are topical and bring the benefits of automated, repeatable, and reliable...... performance assessments. Human factors research is central to simulator model development that is relevant to real-world imaging-guided interventional tasks and to the credentialing programs in which it would be used....
1980-01-01
This report on kinetic bridges is essentially a state-of-the-art study on two types of bridges whose location or physical characteristics are designed to be time dependent. The first type, called a "relocatable bridge", is essentially for use as a te...
Kinetic theory of nonideal gases and nonideal plasmas
Klimontovich, Yu L
2013-01-01
Kinetic Theory of Nonideal Gases and Nonideal Plasmas presents the fundamental aspects of the kinetic theory of gases and plasmas. The book consists of three parts, which attempts to present some of the ideas, methods and applications in the study of the kinetic processes in nonideal gases and plasmas. The first part focuses on the classical kinetic theory of nonideal gases. The second part discusses the classical kinetic theory of fully ionized plasmas. The last part is devoted to the quantum kinetic theory of nonideal gases and plasmas. A concluding chapter is included, which presents a shor
Hydrocarbon characterization experiments in fully turbulent fires.
Energy Technology Data Exchange (ETDEWEB)
Ricks, Allen; Blanchat, Thomas K.
2007-05-01
As the capabilities of numerical simulations increase, decision makers are increasingly relying upon simulations rather than experiments to assess risks across a wide variety of accident scenarios including fires. There are still, however, many aspects of fires that are either not well understood or are difficult to treat from first principles due to the computational expense. For a simulation to be truly predictive and to provide decision makers with information which can be reliably used for risk assessment the remaining physical processes must be studied and suitable models developed for the effects of the physics. The model for the fuel evaporation rate in a liquid fuel pool f