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At least 19 records

Leapfrog variants of iterative methods for linear algebra equations

Two iterative methods are considered, Richardson's method and a general second order method. For both methods, a variant of the method is derived for which only even numbered iterates are computed. The variant is called a leapfrog method. Comparisons between the conventional form of the methods and the leapfrog form are made under the assumption that the number of unknowns is large. In the case of Richardson's method, it is possible to express the final iterate in terms of only the initial approximation, a variant of the iteration called the grand-leap method. In the case of the grand-leap variant, a set of parameters is required. An algorithm is presented to compute these parameters that is related to algorithms to compute the weights and abscissas for Gaussian quadrature. General algorithms to implement the leapfrog and grand-leap methods are presented. Algorithms for the important special case of the Chebyshev method are also given.

Saylor, Paul E.↗

Solution of the linear shallow water equations by the fourth-order leapfrog scheme

Numerical schemes of the first and second order of approximation introduce numerical distortion when the wave propagation over a long distance is investigated. To alleviate this problem, the fourth-order leapfrog scheme is constructed. The standard leapfrog method is based on the truncated Taylor series expansion which depicts an error proportional to the second-order terms. In the proposed method the numerical solution is corrected for these terms. The space and time corrections work well in diminishing numerical dispersion and dissipation.

Kowalik, Z.↗

Building a better leapfrog

In stellar dynamical computer simulations, as well as other types of simulations using particles, time step size is often held constant in order to guarantee a high degree of energy conservation. In many applications, allowing the time step size to change in time can offer a great saving in computational cost, but variable-size time steps usually imply a substantial degradation in energy conservation. We present a meta-algorithm' for choosing time steps in such a way as to guarantee time symmetry in any integration scheme, thus allowing vastly improved energy conservation for orbital calculations with variable time steps. We apply the algorithm to the familiar leapfrog scheme, and generalize to higher order integration schemes, showing how the stability properties of the fixed-step leapfrog scheme can be extended to higher order, variable-step integrators such as the Hermite method. We illustrate the remarkable properties of these time-symmetric integrators for the case of a highly eccentric elliptical Kepler orbit and discuss applications to more complex problems.

Hut, Piet↗

Composite methods for hyperbolic equations

A composite approximation procedure combining the properties of the Lax-Wendroff and leapfrog algorithms is proposed for solving hyperbolic equations. For a one-dimensional equation, a three-step approximation consisting of a two-step Richtmeyer method followed by a leapfrog step is considered. This is a two-level scheme, so all difficulties, including storage requirements, associated with the three-level leapfrog are eliminated. For two-dimensional problems a generalization of the preceding method is used consisting of a rotated Richtmeyer method followed by a modified leapfrog step. It is found that the composite schemes are effective in reducing oscillations and nonlinear instabilities that affect the leapfrog method. The dissipation in the composite schemes is much less than in the Richtmeyer algorithm, and hence can be used for long term integrations.

Turkel, E.↗

On Space-Time Inversion Invariance and its Relation to Non-Dissipatedness of a CESE Core Scheme

The core motivating ideas of the space-time CESE method are clearly presented and critically analyzed. It is explained why these ideas result in all the simplifying and enabling features of the CESE method. A thorough discussion of the a scheme, a two-level non-dissipative CESE solver of a simple advection equation with two independent mesh variables and two equations per mesh point is also presented. It is shown that the scheme possesses some rather intriguing properties such as: (i) its two independent mesh variables separately satisfy two decoupled three-level leapfrog schemes and (ii) it shares with the leapfrog scheme the same amplification factors, even though the a scheme and the leapfrog scheme have completely different origins and structures. It is also explained why the leapfrog scheme is not as robust as the a scheme. The amplification factors/matrices of several non-dissipative schemes are carefully studied and the key properties that contribute to their non-dissipatedness are clearly spelled out. Finally we define and establish space-time inversion (STI) invariance for several non-dissipative schemes and show that their non-dissipatedness is a result of their STI invariance.

Chang, Sin-Chung↗

Shallow water experiments using an improved Kreiss-Oliger 2-4 scheme

The Abarbanel-Gottleib (AG) modification of the Kreiss-Oliger (KO) scheme is applied to a global 1-level shallow water model and the results compared to results obtained using the standard KO scheme. The standard KO scheme consists of the second order leapfrog scheme for time derivatives and fourth order space differencing for spatial derivatives. The AG scheme modifies the KO scheme in a manner similar to that done by Wilson to the multidimensional leapfrog scheme, obtaining a 35-40% improvement of the maximum time step. Application of the AG scheme expands the domain of influence of the KO scheme by including off-axis grid points.

Takacs, L. L.↗

Satellite sweeping of electrons at Neptune and Uranus

Knowledge of satellite sweeping parameters at Neptune and Uranus, and of their functional dependences on particle energy and pitch angle, can be critical in the proper identification of parent absorbers for observed absorption signatures in regions where OTD (offset, tilted dipole) models are valid representations of the measured magnetic fields. In this paper, critical electron energies are calculated for longitudinal drift resonance, snowplow (i.e., strong) absorption, leapfrog, and corkscrew effects, using a reduced version of OTD that neglects nonaxial dipole offsets. Earlier analytic work on sweeping rates is extended to give the radial dependence of these rates within the minimum-L region and to set limits on diffusion of electrons with the simplifying approximation that leapfrog effects are ignored.

Cooper, John F.↗

NASA's Long-range Technology Goals

This document is part of the Final Report performed under contract NASW-3864, titled "NASA's Long-Range Technology Goals". The objectives of the effort were: To identify technologies whose development falls within NASA's capability and purview, and which have high potential for leapfrog advances in the national industrial posture in the 2005-2010 era. To define which of these technologies can also enable quantum jumps in the national space program. To assess mechanisms of interaction between NASA and industry constituencies for realizing the leapfrog technologies. This Volume details the findings pertaining to the advanced space-enabling technologies.

Source record↗

Application of the Space-Time Conservation Element and Solution Element Method to One-Dimensional Convection-Diffusion Problems

In the space-time conservation element and solution element (CE/SE) method, the independent marching variables used comprise not only the mesh value of the physical dependent variables but also, in contrast to it typical numerical method, the Mesh values of the spatial derivatives of the physical variables The use of the extra marching variables results from the need to construct the two-level explicit and nondissipative schemes which are at the core of the CE/SE development. It also results from the need to minimize the stencil while maintaining accuracy. In this paper using the 1D(sub (alpha)-mu) scheme as an example, the effect of this added complication on consistency, accuracy and operation count is assessed. As part of this effort, an equivalent yet more efficient form of the alpha-mu scheme in which the independent marching variables are the local fluxes tied to each mesh point is introduced. Also, the intriguing relations that exist among the alpha-mu. Leapfrog, and DuFort-Frankel schemes are further explored. In addition, the redundance of the Leapfrog, DUFort-Frankel, and Lax scheme and the remedy for this redundance are discussed. This paper is concluded with the construction and evaluation of a CE/SE solver for the inviscid Burger equation.

Chang, Sin-Chung↗

A Two-Dimensional Linear Bicharacteristic FDTD Method

The linear bicharacteristic scheme (LBS) was originally developed to improve unsteady solutions in computational acoustics and aeroacoustics. The LBS has previously been extended to treat lossy materials for one-dimensional problems. It is a classical leapfrog algorithm, but is combined with upwind bias in the spatial derivatives. This approach preserves the time-reversibility of the leapfrog algorithm, which results in no dissipation, and it permits more flexibility by the ability to adopt a characteristic based method. The use of characteristic variables allows the LBS to include the Perfectly Matched Layer boundary condition with no added storage or complexity. The LBS offers a central storage approach with lower dispersion than the Yee algorithm, plus it generalizes much easier to nonuniform grids. It has previously been applied to two and three-dimensional free-space electromagnetic propagation and scattering problems. This paper extends the LBS to the two-dimensional case. Results are presented for point source radiation problems, and the FDTD algorithm is chosen as a convenient reference for comparison.

Beggs, John H.↗

A Linear Bicharacteristic FDTD Method

The linear bicharacteristic scheme (LBS) was originally developed to improve unsteady solutions in computational acoustics and aeroacoustics [1]-[7]. It is a classical leapfrog algorithm, but is combined with upwind bias in the spatial derivatives. This approach preserves the time-reversibility of the leapfrog algorithm, which results in no dissipation, and it permits more flexibility by the ability to adopt a characteristic based method. The use of characteristic variables allows the LBS to treat the outer computational boundaries naturally using the exact compatibility equations. The LBS offers a central storage approach with lower dispersion than the Yee algorithm, plus it generalizes much easier to nonuniform grids. It has previously been applied to two and three-dimensional freespace electromagnetic propagation and scattering problems [3], [6], [7]. This paper extends the LBS to model lossy dielectric and magnetic materials. Results are presented for several one-dimensional model problems, and the FDTD algorithm is chosen as a convenient reference for comparison.

Beggs, John H.↗

Turbulent Concentration of MM-Size Particles in the Protoplanetary Nebula: Scaled-Dependent Multiplier Functions

The initial accretion of primitive bodies (asteroids and TNOs) from freely-floating nebula particles remains problematic. Here we focus on the asteroids where constituent particle (read "chondrule") sizes are observationally known; similar arguments will hold for TNOs, but the constituent particles in those regions will be smaller, or will be fluffy aggregates, and are unobserved. Traditional growth-bysticking models encounter a formidable "meter-size barrier" [1] (or even a mm-cm-size barrier [2]) in turbulent nebulae, while nonturbulent nebulae form large asteroids too quickly to explain long spreads in formation times, or the dearth of melted asteroids [3]. Even if growth by sticking could somehow breach the meter size barrier, other obstacles are encountered through the 1-10km size range [4]. Another clue regarding planetesimal formation is an apparent 100km diameter peak in the pre-depletion, pre-erosion mass distribution of asteroids [5]; scenarios leading directly from independent nebula particulates to this size, which avoid the problematic m-km size range, could be called "leapfrog" scenarios [6-8]. The leapfrog scenario we have studied in detail involves formation of dense clumps of aerodynamically selected, typically mm-size particles in turbulence, which can under certain conditions shrink inexorably on 100-1000 orbit timescales and form 10-100km diameter sandpile planetesimals. The typical sizes of planetesimals and the rate of their formation [7,8] are determined by a statistical model with properties inferred from large numerical simulations of turbulence [9]. Nebula turbulence can be described by its Reynolds number Re = L/eta sup(4/3), where L = ETA alpha sup (1/2) the largest eddy scale, H is the nebula gas vertical scale height, and α the nebula turbulent viscosity parameter, and η is the Kolmogorov or smallest scale in turbulence (typically about 1km), with eddy turnover time tη. In the nebula, Re is far larger than any numerical simulation can handle, so some physical model is needed to extend the results of numerical simulations to nebula conditions.

protoplanetary nebula↗

Turbulent Concentration of mm-Size Particles in the Protoplanetary Nebula: Scale-Dependent Cascades

The initial accretion of primitive bodies (here, asteroids in particular) from freely-floating nebula particles remains problematic. Traditional growth-by-sticking models encounter a formidable "meter-size barrier" (or even a mm-to-cm-size barrier) in turbulent nebulae, making the preconditions for so-called "streaming instabilities" difficult to achieve even for so-called "lucky" particles. Even if growth by sticking could somehow breach the meter size barrier, turbulent nebulae present further obstacles through the 1-10km size range. On the other hand, nonturbulent nebulae form large asteroids too quickly to explain long spreads in formation times, or the dearth of melted asteroids. Theoretical understanding of nebula turbulence is itself in flux; recent models of MRI (magnetically-driven) turbulence favor low-or- no-turbulence environments, but purely hydrodynamic turbulence is making a comeback, with two recently discovered mechanisms generating robust turbulence which do not rely on magnetic fields at all. An important clue regarding planetesimal formation is an apparent 100km diameter peak in the pre-depletion, pre-erosion mass distribution of asteroids; scenarios leading directly from independent nebula particulates to large objects of this size, which avoid the problematic m-km size range, could be called "leapfrog" scenarios. The leapfrog scenario we have studied in detail involves formation of dense clumps of aerodynamically selected, typically mm-size particles in turbulence, which can under certain conditions shrink inexorably on 100-1000 orbit timescales and form 10-100km diameter sandpile planetesimals. There is evidence that at least the ordinary chondrite parent bodies were initially composed entirely of a homogeneous mix of such particles. Thus, while they are arcane, turbulent concentration models acting directly on chondrule size particles are worthy of deeper study. The typical sizes of planetesimals and the rate of their formation can be estimated using a statistical model with properties inferred from large numerical simulations of turbulence. Nebula turbulence is described by its Reynolds number Re = (L/eta)(exp 4/3), where L = H alpha(exp 1/2) is the largest eddy scale, H is the nebula gas vertical scale height, alpha the turbulent viscosity parameter, and eta is the Kolmogorov or smallest scale in turbulence (typically about 1km), with eddy turnover time t(sub eta). In the nebula, Re is far larger than any numerical simulation can handle, so some physical arguments are needed to extend the results of numerical simulations to nebula conditions. In this paper, we report new physics to be incorporated into our statistical models.

mm-size particles↗

A Particle-in-Cell Method for Plasmas with a Generalized Momentum Formulation, Part I: Model Formulation

Here, this paper formulates a new particle-in-cell method for the Vlasov–Maxwell system. Under the Lorenz gauge condition, Maxwell’s equations for the electromagnetic fields can be written as a collection of scalar and vector wave equations. The use of potentials for the fields motivates the adoption of a Hamiltonian formulation for particles that employs the generalized (conjugate) momentum. A notable advantage offered by the Hamiltonian formulation is the elimination of time derivatives in the Lorenz gauge formulation that are required by the standard Newton–Lorentz treatment of the particles. This allows the fields to retain the full time-accuracy guaranteed by the field solver. The resulting updates for particles require only knowledge of the fields and their spatial derivatives. An analytical method for constructing these spatial derivatives is presented that exploits the underlying integral solution used in the field solver for the wave equations. Moreover, these derivatives are demonstrated to converge at the same rate as the fields in both time and space. The Method of Lines Transpose field solver we consider in this work is globally first-order accurate in time and high-order accurate in space (e.g., fourth- and fifth-order) and belongs to a larger class of methods which are unconditionally stable, can address geometry, and leverage $\mathcal {O}(N)$ fast summation methods for efficiency. We demonstrate the method on several well-established benchmark problems on bounded domains, including a plasma sheath as well as a relativistic particle beam. The efficacy of the proposed formulation is established by comparing with a second-order accurate finite-difference time-domain method that employs a leapfrog time advance for particles and a charge conserving map suitable for bounded domains. The new method shows mesh-independent numerical heating properties even in cases where the plasma Debye length is smaller than the grid spacing. This is an important feature of the new method for problems defined on bounded domains, because it permits the use of coarser grids in space in the representation of the fields. Such a capability has significant implications for the simulation of plasmas in bounded domains with complex geometry, where the ratio between the largest and smallest cells can vary significantly. The use of high-order spatial approximations in the new method also means that fewer grid points are required in order to achieve a fixed accuracy. Our results also suggest that the new method can be used with fewer simulation particles per cell compared to the benchmark explicit method, which permits further computational savings.

97 MATHEMATICS AND COMPUTING↗

Data-driven equation-free dynamics applied to many-protein complexes: The microtubule tip relaxation

Microtubules (MTs) constitute the largest components of the eukaryotic cytoskeleton and play crucial roles in various cellular processes, including mitosis and intracellular transport. The property allowing MTs to cater to such diverse roles is attributed to dynamic instability, which is coupled to the hydrolysis of GTP (guanosine-5'-triphosphate) to GDP (guanosine-5'-diphosphate) within the β-tubulin monomers. Understanding the equilibrium dynamics and the structural features of both GDP- and GTP-complexed MT tips, especially at an all-atom level, remains challenging for both experimental and computational methods because of their dynamic nature and the prohibitive computational demands of simulating large, many-protein systems. This study employs the “equation-free” multiscale computational method to accelerate the relaxation of all-atom simulations of MT tips toward their putative equilibrium conformation. Using large MT lattice systems (14 protofilaments × 8 heterodimers) comprising ~21-38 million atoms, we applied this multiscale approach to leapfrog through time and nearly double the computational efficiency in realizing relaxed all-atom conformations of GDP- and GTP-complexed MT tips. Commencing from an initial 4 μs unbiased all-atom simulation, we interleave coarse projective “equation-free” jumps with short bursts of all-atom molecular dynamics simulation to realize an additional effective simulation time of 1.875 μs. Our 5.875 μs of effective simulation trajectories for each system expose the subtle yet essential differences in the structures of MT tips as a function of whether β-tubulin monomer is complexed with GDP or GTP, as well as the lateral interactions within the MT tip, offering a refined understanding of features underlying MT dynamic instability. Furthermore, the approach presents a robust and generalizable framework for future explorations of large biomolecular systems at atomic resolution.

Wu, Jiangbo [University of Chicago, IL (United Sta↗

An explicit, energy-conserving particle-in-cell scheme

We present an explicit temporal discretization of particle-in-cell schemes for the non-relativistic Vlasov equation that results in exact energy conservation when combined with an appropriate spatial discretization. The scheme is inspired by a simple, second-order explicit scheme that conserves energy exactly in the Eulerian context. We show that direct translation to particle-in-cell does not result in strict conservation, but derive a simple correction based on an analytically solvable optimization problem that recovers conservation. While this optimization problem is not guaranteed to have a real solution for every particle, we provide a correction that makes imaginary values extremely rare and still admits $\mathcal{O}$(10 –12 ) fractional errors in energy for practical simulation parameters. We present the scheme in both electrostatic – where we use the Ampère formulation – and electromagnetic contexts. With an electromagnetic field solve, the field update is most naturally linearly implicit, but the more computationally intensive particle update remains fully explicit. Here, we also show how the scheme can be extended to use the fully explicit leapfrog and pseudospectral analytic time-domain (PSATD) field solvers. The scheme is tested on standard kinetic plasma problems, confirming its conservation properties.

Energy conservation↗

Finite element computation of a viscous compressible free shear flow governed by the time dependent Navier-Stokes equations

A finite element algorithm for solution of fluid flow problems characterized by the two-dimensional compressible Navier-Stokes equations was developed. The program is intended for viscous compressible high speed flow; hence, primitive variables are utilized. The physical solution was approximated by trial functions which at a fixed time are piecewise cubic on triangular elements. The Galerkin technique was employed to determine the finite-element model equations. A leapfrog time integration is used for marching asymptotically from initial to steady state, with iterated integrals evaluated by numerical quadratures. The nonsymmetric linear systems of equations governing time transition from step-to-step are solved using a rather economical block iterative triangular decomposition scheme. The concept was applied to the numerical computation of a free shear flow. Numerical results of the finite-element method are in excellent agreement with those obtained from a finite difference solution of the same problem.

Cooke, C. H.↗

Initialization procedures for primitive equation models

A linear analysis and comparison of the damping properties of six dynamic initialization schemes is presented, indicating that the Okamura-Rivas scheme has the most efficient damping properties over the whole frequency range, and suggesting that it should be faster than the other methods and given more stable results. The results obtained with a nonlinear shallow water equations model agree well with the linear analysis. The Okamura-Rivas scheme attains complete balance in the equivalent of 5 to 6 hours of leapfrog forecasting, and requires in this model an order of magnitude less computation than the balance equation solution.

Grant, W. K. F.↗