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At least 955 records · Page 53

Peridynamics and surrogate modeling of pressure-driven well stimulation

In this work we use the peridynamics theory of solid mechanics to simulate fracture in an annular rock domain subject to an in-situ stress and create surrogate models that predict the area of the resulting cracks. Peridynamics is a non-local formulation of continuum mechanics that naturally accommodates material discontinuities. Furthermore, unlike other fracture modeling techniques there is no need to provide information about the crack path. We utilize the peridynamics code Peridigm and take a two-stage approach to fracture modeling. First an implicit solve is performed to compute the in-situ stress state. We then execute an explicit solve where a pressure loading designed to emulate fluid-driven hydraulic fracture is applied at the borehole and transmitted to the pre-stressed rock. We present results from polynomial and single and multi-level Gaussian process surrogate models constructed from a sampling study of the peridynamics model. The surrogates predict crack area given a measure of the in-situ stress anisotropy and rise time and amplitude of the pressure loading. These surrogates take a minuscule fraction of peridynamics model's running time to evaluate and are a step towards enabling advanced optimization and uncertainty quantification workflows that require many model evaluations.

42 ENGINEERING↗

PIC simulations of wave-particle interactions with an initial electron velocity distribution from a kinetic ring current model

Whistler wave-particle interactions play an important role in the Earth inner magnetospheric dynamics and have been the subject of numerous investigations. By running a global kinetic ring current model (RAM-SCB) in a storm event occurred on Oct 23–24 2002, we obtain the ring current electron distribution at a selected location at MLT of 9 and L of 6 where the electron distribution is composed of a warm population in the form of a partial ring in the velocity space (with energy around 15 keV) in addition to a cool population with a Maxwellian-like distribution. The warm population is likely from the injected plasma sheet electrons during substorm injections that supply fresh source to the inner magnetosphere. These electron distributions are then used as input in an implicit particle-in-cell code (iPIC3D) to study whistler-wave generation and the subsequent wave-particle interactions. Here, we find that whistler waves are excited and propagate in the quasi-parallel direction along the background magnetic field. Several different wave modes are instantaneously generated with different growth rates and frequencies. The wave mode at the maximum growth rate has a frequency around 0.62ω ce , which corresponds to a parallel resonant energy of 2.5 keV. Linear theory analysis of wave growth is in excellent agreement with the simulation results. These waves grow initially due to the injected warm electrons and are later damped due to cyclotron absorption by electrons whose energy is close to the resonant energy and can effectively attenuate waves. The warm electron population overall experiences net energy loss and anisotropy drop while moving along the diffusion surfaces towards regions of lower phase space density, while the cool electron population undergoes heating when the waves grow, suggesting the cross-population interactions.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Site heterogeneity and broad surface-binding isotherms in modern catalysis: Building intuition beyond the Sabatier principle

Learning the science of heterogeneous catalysis and electrocatalysis always starts with the simple case of a flat, uniform surface with an ideal adsorbate. It has of course been recognized for a century that real catalysts are more complicated. For the increasingly complex catalysts of the 21st century, this Perspective argues that surface heterogeneity and non-ideal binding isotherms are central features, and their implications need to be incorporated in current thinking. A variety of systems are described herein where catalyst complexity leads to broad, non-Langmuirian surface isotherms for the binding of hydrogen atoms – and this occurs even for ideal, flat Pt(111) surfaces. Modern catalysis employs nanoscale materials whose surfaces have substantial step, edge, corner, impurity, and other defect sites, and they increasingly have both metallic and non-metallic elements M n X m , including metal oxides, chalcogenides, pnictides, carbides, doped carbons, etc. The surfaces of such catalysts are often not crystal facets of the bulk phase underneath, and they typically have a variety of potential active sites. Catalytic surfaces in operando are often non-stoichiometric, amorphous, dynamic, and impure, and often vary from one part of the surface to another. Understanding of the issues that arise at such nanoscale, multi-element catalysts is just beginning to emerge. Yet these catalysts are widely discussed using Brønsted/Bell-Evans-Polanyi (BEP) relations, volcano plots, Tafel slopes, the Butler-Volmer equation, and other linear free energy relations (LFERs), which all depend on the implicit assumption that the active sites are “similar” and that surface adsorption is close to ideal. These assumptions underly the ubiquitous intuition based on the Sabatier Principle, that the fastest catalysis will occur when key intermediates have free energies of adsorption that are not too strong nor too weak. Current catalysis research often aims to minimize the complexity of non-ideal isotherms through experimental and computational design (e.g., the use of single crystal surfaces), and these studies are the foundation of the field. In contrast, this Perspective argues that the heterogeneity of binding sites and binding energies is an inherent strength of these catalysts. Here, this diversity makes many nanoscale catalysts inherently a high-throughput screen wrapped in a tiny package. Only by making the heterogeneity part of the foundation of catalysis models, sorting the types of active sites and dissecting non-ideal binding isotherms, will modern catalysis learn to harness the inherent diversity of real catalysts. Controlling and exploiting diversity rather than avoiding it will help to optimize complex modern catalysts and catalytic conditions.

Mayer, James M.↗

Curvilinear finite-volume schemes using high-order compact interpolation

During the last years, the need of high fidelity simulations on complex geometries for aeroacoustics predictions has grown. Most of high fidelity numerical schemes, in terms of low dissipative and low dispersive effects, lie on finite-difference (FD) approach. But for industrial applications, FD schemes are less robust compared to finite-volume (FV) ones. Thus the present study focuses on the development of a new compact FV scheme for two- and three-dimensional applications. The proposed schemes are formulated in the physical space and not in the computational space as it is the case in most of the known works. Therefore, they are more appropriate for general grids. They are based on compact interpolation to approximate interface-averaged field values using known cell-averaged values. For each interface, the interpolation coefficients are determined by matching Taylor series expansions around the interface center. Two types of schemes can be distinguished. The first one uses only the curvilinear abscissa along a mesh line to derive a sixth-order compact interpolation formulae while the second, more general, uses coordinates in a spatial three-dimensional frame well chosen. This latter is formally sixth-order accurate in a preferred direction almost orthogonal to the interface and at most fourth-order accurate in transversal directions. For non-linear problems, different approaches can be used to keep the high-order scheme. However, in the present paper, a MUSCL-like formulation was sufficient to address the presented test cases. All schemes have been modified to treat multiblock and periodic interfaces in such a way that high-order accuracy, stability, good spectral resolution, conservativeness and low computational costs are guaranteed. This is a first step to insure good scalability of the schemes although parallel performances issues are not addressed. As high frequency waves, badly resolved, could be amplified and then destabilize the scheme, compact filtering operators have been used. Numerous test cases as the linear convection of a Gaussian wave, the convection of a Lamb-Oseen vortex and the diffraction of an acoustic wave on a plane have been realized to validate the schemes. The most efficient schemes are shown to be at least fifth-order accurate on linear and non-linear convection problems. They are also less dissipative and less dispersive on non-uniform curvilinear grids than schemes using implicit interpolation with constant coefficients of the same order on uniform cartesian grids.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Robust and accurate filtered spherical harmonics expansions for radiative transfer

We present a novel application of filters to the spherical harmonics (P{sub N}) expansion for radiative transfer problems in the high-energy-density regime. The filter we use is based on non-oscillatory spherical splines and a filter strength chosen to (i) preserve the equilibrium diffusion limit and (ii) vanish as the expansion order tends to infinity. Our implementation is based on modified equations that are derived by applying the filter after every time step in a simple first-order time integration scheme. The method is readily applied to existing codes that solve the P{sub N} equations. Numerical results demonstrate that the solution to the filtered P{sub N} equations are (i) more robust and less oscillatory than standard P{sub N} solutions and (ii) more accurate than discrete ordinates solutions of comparable order. In particular, the filtered P{sub 7} solution demonstrates comparable accuracy to an implicit Monte Carlo solution for a benchmark hohlraum problem in 2D Cartesian geometry.

97 MATHEMATICS AND COMPUTING↗

A hybrid Godunov method for radiation hydrodynamics

From a mathematical perspective, radiation hydrodynamics can be thought of as a system of hyperbolic balance laws with dual multiscale behavior (multiscale behavior associated with the hyperbolic wave speeds as well as multiscale behavior associated with source term relaxation). With this outlook in mind, this paper presents a hybrid Godunov method for one-dimensional radiation hydrodynamics that is uniformly well behaved from the photon free streaming (hyperbolic) limit through the weak equilibrium diffusion (parabolic) limit and to the strong equilibrium diffusion (hyperbolic) limit. Moreover, one finds that the technique preserves certain asymptotic limits. The method incorporates a backward Euler upwinding scheme for the radiation energy density E{sub r} and flux F{sub r} as well as a modified Godunov scheme for the material density {rho}, momentum density m, and energy density E. The backward Euler upwinding scheme is first-order accurate and uses an implicit HLLE flux function to temporally advance the radiation components according to the material flow scale. The modified Godunov scheme is second-order accurate and directly couples stiff source term effects to the hyperbolic structure of the system of balance laws. This Godunov technique is composed of a predictor step that is based on Duhamel's principle and a corrector step that is based on Picard iteration. The Godunov scheme is explicit on the material flow scale but is unsplit and fully couples matter and radiation without invoking a diffusion-type approximation for radiation hydrodynamics. This technique derives from earlier work by Miniati and Colella (2007) . Numerical tests demonstrate that the method is stable, robust, and accurate across various parameter regimes.

97 MATHEMATICS AND COMPUTING↗

Direct pore-level modeling of incompressible fluid flow in porous media

We present a dynamic particle-based model for direct pore-level modeling of incompressible viscous fluid flow in disordered porous media. The model is capable of simulating flow directly in three-dimensional high-resolution micro-CT images of rock samples. It is based on moving particle semi-implicit (MPS) method. We modify this technique in order to improve its stability for flow in porous media problems. Using the micro-CT image of a rock sample, the entire medium, i.e., solid and fluid, is discretized into particles. The incompressible Navier-Stokes equations are then solved for each particle using the MPS summations. The model handles highly irregular fluid-solid boundaries effectively. An algorithm to split and merge fluid particles is also introduced. To handle the computational load, we present a parallel version of the model that runs on distributed memory computer clusters. The accuracy of the model is validated against the analytical, numerical, and experimental data available in the literature. The validated model is then used to simulate both unsteady- and steady-state flow of an incompressible fluid directly in a representative elementary volume (REV) size micro-CT image of a naturally-occurring sandstone with 3.398 {mu}m resolution. We analyze the quality and consistency of the predicted flow behavior and calculate absolute permeability using the steady-state flow rate.

97 MATHEMATICS AND COMPUTING↗

Pseudo-random number generation for Brownian Dynamics and Dissipative Particle Dynamics simulations on GPU devices

Highlights: {yields} Molecular Dynamics codes implemented on GPUs have achieved two-order of magnitude computational accelerations. {yields} Brownian Dynamics and Dissipative Particle Dynamics simulations require a large number of random numbers per time step. {yields} We introduce a method for generating small batches of pseudorandom numbers distributed over many threads of calculations. {yields} With this method, Dissipative Particle Dynamics is implemented on a GPU device without requiring thread-to-thread communication. - Abstract: Brownian Dynamics (BD), also known as Langevin Dynamics, and Dissipative Particle Dynamics (DPD) are implicit solvent methods commonly used in models of soft matter and biomolecular systems. The interaction of the numerous solvent particles with larger particles is coarse-grained as a Langevin thermostat is applied to individual particles or to particle pairs. The Langevin thermostat requires a pseudo-random number generator (PRNG) to generate the stochastic force applied to each particle or pair of neighboring particles during each time step in the integration of Newton's equations of motion. In a Single-Instruction-Multiple-Thread (SIMT) GPU parallel computing environment, small batches of random numbers must be generated over thousands of threads and millions of kernel calls. In this communication we introduce a one-PRNG-per-kernel-call-per-thread scheme, in which a micro-stream of pseudorandom numbers is generated in each thread and kernel call. These high quality, statistically robust micro-streams require no global memory for state storage, are more computationally efficient than other PRNG schemes in memory-bound kernels, and uniquely enable the DPD simulation method without requiring communication between threads.

97 MATHEMATICS AND COMPUTING↗

Physically consistent simulation of mesoscale chemical kinetics: The non-negative FIS-{alpha} method

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 {alpha} (FIS {alpha}) 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.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Perfectly matched layers in a divergence preserving ADI scheme for electromagnetics

For numerical simulations of highly relativistic and transversely accelerated charged particles including radiation fast algorithms are needed. While the radiation in particle accelerators has wavelengths in the order of 100 {mu}m the computational domain has dimensions roughly five orders of magnitude larger resulting in very large mesh sizes. The particles are confined to a small area of this domain only. To resolve the smallest scales close to the particles subgrids are envisioned. For reasons of stability the alternating direction implicit (ADI) scheme by Smithe et al. [D.N. Smithe, J.R. Cary, J.A. Carlsson, Divergence preservation in the ADI algorithms for electromagnetics, J. Comput. Phys. 228 (2009) 7289-7299] for Maxwell equations has been adopted. At the boundary of the domain absorbing boundary conditions have to be employed to prevent reflection of the radiation. In this paper we show how the divergence preserving ADI scheme has to be formulated in perfectly matched layers (PML) and compare the performance in several scenarios.

97 MATHEMATICS AND COMPUTING↗

A compatible Lagrangian hydrodynamic scheme for multicomponent flows with mixing

We present a Lagrangian time integration scheme and compatible discretization for total energy conservation in multicomponent mixing simulations. Mixing behavior results from relative motion between species. Species velocities are determined by solving species momentum equations in a Lagrangian manner. Included in the species momentum equations are species artificial viscosity (since each species can undergo compression) and inter-species momentum exchange. Thermal energy for each species is also solved, including compression work and thermal dissipation caused by momentum exchange. The present procedure is applicable to mixing of an arbitrary number of species that may not be in pressure or temperature equilibrium. A traditional staggered stencil has been adopted to describe motion of each species. The computational mesh for the mixture is constructed in a Lagrangian manner using the mass-averaged mixture velocity. Species momentum equations are solved at the vertices of the mesh, and temporary species meshes are constructed and advanced in time using the resulting species velocities. Following the Lagrangian step, species quantities are advected (mapped) from the species meshes to the mixture mesh. Momentum exchange between species introduces work that must be included in an energy-conserving discretization scheme. This work has to be transformed to dissipation in order to effect a net change in species thermal energy. The dissipation between interacting species pairs is obtained by combining the momentum exchange work. The dissipation is then distributed to the species involved using a distribution factor based on species specific heats. The resulting compatible discretization scheme provides total energy conservation of the whole mixture. In addition, the numerical scheme includes conservative local energy exchange between species in mixture. Due to the relatively large species interaction coefficients, both the species momenta and energies are calculated implicitly. Sample calculations have yielded excellent results, including conservation of total energy in Lagrangian steps, symmetry preservation, and correct steady-state behavior.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Time dependent Schroedinger equation on arbitrary structured grids: Application to photoionization

A systematic technique for conservatively discretizing the time dependent Schroedinger equation on an arbitrary structured grid is given. Spatial differencing is carried out by finite volumes, and temporal differencing is carried out semi-implicitly. It is shown that the resulting algorithm conserves probability to within a round-off error regardless of the grid geometry. The algorithm is efficient for both serial and parallel computation. The conservative nature of the algorithm, and its phase accuracy, are demonstrated for a bound state, and for a free state in an electromagnetic field. The ionization rate for a hydrogen atom in a strong electromagnetic field is computed, and compared with the rate from tunneling theory. The regime of validity of tunneling theory is clarified.

74 ATOMIC AND MOLECULAR PHYSICS↗

A finite element/Fourier treatment of the Fokker-Planck equation

A method is proposed for a finite element/Fourier solution of the Fokker-Planck (FP) equation describing Coulomb collisions between particles in a fully ionized, spatially homogeneous plasma. A linearized FP equation is obtained by assuming collisions between test particles and a static background are more important than between the test particles themselves. A full 3D velocity space dependence is maintained using cylindrical coordinates (v{sub Double-Vertical-Line },v{sub Up-Tack },{gamma}). When a magnetic field exists, v{sub Double-Vertical-Line} is aligned with it and {gamma} corresponds to gyroangle. Distribution functions are approximated by a Fourier representation in the azimuthal angle, {gamma}, and by a 2D finite element representation in the parallel and perpendicular directions. The FP equation can be solved in a fully implicit manner allowing large, stable timesteps and simulations that arrive quickly at equilibrium solutions. The results of several test problems are discussed including a calculation of the resistivity of a Lorentz plasma, the heating and cooling of a test particle distribution, the slowing down of a beam of test particles and the acquisition of a perpendicular flow for a non-flowing Maxwellian test distribution. Robust convergence upon refinement of the finite element/Fourier representation is highlighted.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

A hybrid transport-diffusion Monte Carlo method for frequency-dependent radiative-transfer simulations

Discrete Diffusion Monte Carlo (DDMC) is a technique for increasing the efficiency of Implicit Monte Carlo radiative-transfer simulations in optically thick media. In DDMC, particles take discrete steps between spatial cells according to a discretized diffusion equation. Each discrete step replaces many smaller Monte Carlo steps, thus improving the efficiency of the simulation. In this paper, we present an extension of DDMC for frequency-dependent radiative transfer. We base our new DDMC method on a frequency-integrated diffusion equation for frequencies below a specified threshold, as optical thickness is typically a decreasing function of frequency. Above this threshold we employ standard Monte Carlo, which results in a hybrid transport-diffusion scheme. With a set of frequency-dependent test problems, we confirm the accuracy and increased efficiency of our new DDMC method.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Numerical schemes for dynamically orthogonal equations of stochastic fluid and ocean flows

The quantification of uncertainties is critical when systems are nonlinear and have uncertain terms in their governing equations or are constrained by limited knowledge of initial and boundary conditions. Such situations are common in multiscale, intermittent and non-homogeneous fluid and ocean flows. The dynamically orthogonal (DO) field equations provide an adaptive methodology to predict the probability density functions of such flows. The present work derives efficient computational schemes for the DO methodology applied to unsteady stochastic Navier-Stokes and Boussinesq equations, and illustrates and studies the numerical aspects of these schemes. Semi-implicit projection methods are developed for the mean and for the DO modes, and time-marching schemes of first to fourth order are used for the stochastic coefficients. Conservative second-order finite-volumes are employed in physical space with new advection schemes based on total variation diminishing methods. Other results include: (i) the definition of pseudo-stochastic pressures to obtain a number of pressure equations that is linear in the subspace size instead of quadratic; (ii) symmetric advection schemes for the stochastic velocities; (iii) the use of generalized inversion to deal with singular subspace covariances or deterministic modes; and (iv) schemes to maintain orthonormal modes at the numerical level. To verify our implementation and study the properties of our schemes and their variations, a set of stochastic flow benchmarks are defined including asymmetric Dirac and symmetric lock-exchange flows, lid-driven cavity flows, and flows past objects in a confined channel. Different Reynolds number and Grashof number regimes are employed to illustrate robustness. Optimal convergence under both time and space refinements is shown as well as the convergence of the probability density functions with the number of stochastic realizations.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Generalized fictitious methods for fluid–structure interactions: Analysis and simulations

We present a new fictitious pressure method for fluid–structure interaction (FSI) problems in incompressible flow by generalizing the fictitious mass and damping methods we published previously in [1]. The fictitious pressure method involves modification of the fluid solver whereas the fictitious mass and damping methods modify the structure solver. We analyze all fictitious methods for simplified problems and obtain explicit expressions for the optimal reduction factor (convergence rate index) at the FSI interface [2]. This analysis also demonstrates an apparent similarity of fictitious methods to the FSI approach based on Robin boundary conditions, which have been found to be very effective in FSI problems. We implement all methods, including the semi-implicit Robin based coupling method, in the context of spectral element discretization, which is more sensitive to temporal instabilities than low-order methods. However, the methods we present here are simple and general, and hence applicable to FSI based on any other spatial discretization. In numerical tests, we verify the selection of optimal values for the fictitious parameters for simplified problems and for vortex-induced vibrations (VIV) even at zero mass ratio (“for-ever-resonance”). We also develop an empirical a posteriori analysis for complex geometries and apply it to 3D patient-specific flexible brain arteries with aneurysms for very large deformations. We demonstrate that the fictitious pressure method enhances stability and convergence, and is comparable or better in most cases to the Robin approach or the other fictitious methods.

Computer Science↗

Higher-order compositional modeling of three-phase flow in 3D fractured porous media based on cross-flow equilibrium

Numerical simulation of multiphase compositional flow in fractured porous media, when all the species can transfer between the phases, is a real challenge. Despite the broad applications in hydrocarbon reservoir engineering and hydrology, a compositional numerical simulator for three-phase flow in fractured media has not appeared in the literature, to the best of our knowledge. In this work, we present a three-phase fully compositional simulator for fractured media, based on higher-order finite element methods. To achieve computational efficiency, we invoke the cross-flow equilibrium (CFE) concept between discrete fractures and a small neighborhood in the matrix blocks. We adopt the mixed hybrid finite element (MHFE) method to approximate convective Darcy fluxes and the pressure equation. This approach is the most natural choice for flow in fractured media. The mass balance equations are discretized by the discontinuous Galerkin (DG) method, which is perhaps the most efficient approach to capture physical discontinuities in phase properties at the matrix-fracture interfaces and at phase boundaries. In this work, we account for gravity and Fickian diffusion. The modeling of capillary effects is discussed in a separate paper. We present the mathematical framework, using the implicit-pressure-explicit-composition (IMPEC) scheme, which facilitates rigorous thermodynamic stability analyses and the computation of phase behavior effects to account for transfer of species between the phases. A deceptively simple CFL condition is implemented to improve numerical stability and accuracy. We provide six numerical examples at both small and larger scales and in two and three dimensions, to demonstrate powerful features of the formulation.

97 MATHEMATICS AND COMPUTING↗

Time-independent hybrid enrichment for finite element solution of transient conduction–radiation in diffusive grey media

We investigate the effectiveness of the partition-of-unity finite element method for transient conduction–radiation problems in diffusive grey media. The governing equations consist of a semi-linear transient heat equation for the temperature field and a stationary diffusion approximation to the radiation in grey media. The coupled equations are integrated in time using a semi-implicit method in the finite element framework. We show that for the considered problems, a combination of hyperbolic and exponential enrichment functions based on an approximation of the boundary layer leads to improved accuracy compared to the conventional finite element method. It is illustrated that this approach can be more efficient than using h adaptivity to increase the accuracy of the finite element method near the boundary walls. The performance of the proposed partition-of-unity method is analyzed on several test examples for transient conduction–radiation problems in two space dimensions.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗