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At least 1,567 records · Page 87

A New Quantification Method Using Electrochemical Mass Spectrometry

Mass spectrometry-based quantification method has advanced rapidly. In general, the methods for accurate quantification rely on the use of authentic target compounds or isotope-labeled compounds as standards, which might be not available or difficult to synthesize. To tackle this grand challenge, this paper presents a novel approach, based on electrochemistry (EC) combined with mass spectrometry (MS). In this approach, a target compound is allowed to undergo electrochemical oxidation and then subject to MS analysis. The oxidation current recorded from electrochemistry (EC) measurement provides information about the amount of the oxidized analyte, based on the Faraday’s Law. On the other hand, the oxidation reaction yield can be determined from the analyte MS signal changes upon electrolysis. Therefore, the total amount of analyte can be determined. In combination with liquid chromatography (LC), the method can be applicable to mixture analysis. The striking strength of such a method for quantitation is that neither standard compound nor calibration curve is required. Various analyte molecules such as dopamine, norepinephrine, and rutin as well as peptide glutathione in low quantity were successfully quantified using our method with the quantification error ranging from − 2.6 to + 4.6%. Analyte in a complicated matrix (e.g., uric acid in urine) was also accurately measured. .

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Boundary node Petrov–Galerkin method in solid structures

Based on the interpolation of the Lagrange series and the Finite Block Method (FBM), the formulations of the Boundary Node Petrov–Galerkin Method (BNPGM) are presented in the weak form in this paper and their applications are demonstrated to the elasticity of functionally graded materials, subjected to static and dynamic loads. By introducing the mapping technique, a block of quadratic type is transformed from the Cartesian coordinate to the normalized coordinate with 8 seeds for two-dimensional problems. The first-order partial differential matrices of boundary nodes are obtained in terms of the nodal values of the boundary node, which can be utilized to determine the tractions on the boundary. Time-dependent partial differential equations are analyzed in the Laplace transformed domain and the Durbin’s inversion method is applied to determine the physical values in the time domain. Illustrative numerical examples are given and comparison has been made with the analytical solutions, the Boundary Element Method (BEM) and the Finite Element Method (FEM).

97 MATHEMATICS AND COMPUTING↗

The generalized Uzawa-SHSS method for non-Hermitian saddle-point problems

Recently, Li and Wu (2015) proposed the single-step Hermitian and skew-Hermitian splitting (SHSS) method for solving the non-Hermitian positive definite linear systems. Based on the single-step Hermitian and skew-Hermitian splitting of the (1,1) part of the saddle-point coefficient matrix, a new Uzawa-type method is proposed for solving a class of saddle-point problems with non-Hermitian positive definite (1,1) parts. Convergence (Semi-convergence) properties of this new method for nonsingular (singular) are derived under suitable conditions. Numerical examples are implemented to confirm the theoretical results and verify that this new method is more feasibility and robustness than the new HSS-like (NHSS-like), the Uzawa-HSS and the parameterized Uzawa-skew-Hermitian triangular splitting (PU-STS) methods for solving both the nonsingular and the singular saddle-point problems with non-Hermitian positive definite and Hermitian dominant (1,1) parts.

97 MATHEMATICS AND COMPUTING↗

Analysis of thermo-elastic problems using the improved element-free Galerkin method

The improved element-free Galerkin method (IEFG) is presented to deal with thermo-elastic problems. This mesh-free method is a combination between the element-free Galerkin method and the improved moving least-square approximation. It has not the Kronecker delta property, and the penalty method is used to impose the essential boundary conditions. In this paper, linear and stationary thermo-elasticity is treated. To solve the thermo-elastic problem, this latter is decoupled into two separate parts: first, the heat transfer problem is analyzed to reach the temperature field, which is used as input in the mechanical problem to calculate the displacement field and then the stress fields. Numerical examples with different boundary conditions are illustrated. The performance and the accuracy of the IEFG method are approved when obtained results are compared to finite-element results and analytical solution.

97 MATHEMATICS AND COMPUTING↗

The adaptive mesh method based on HOC difference scheme for convection diffusion equations with boundary layers

In this paper, an adaptive mesh method is proposed to generate orthogonal nonuniform mesh for 2D rectangular computational domain. The algorithm adopts the dimension split idea which redistribute the mesh on each direction sequently. This approach efficiently decreases the difficultly of algorithm and enables the adapted mesh to be orthogonal. The adaptive mesh method can redistribute the mesh based on the solution without specifying the location of the boundary layer or the grid distribution function to generate the nonuniform mesh in advance. To verify the effectiveness and robustness of the algorithm, the presented method combined with the HOC difference scheme on nonuniform grid is used to solve the 1D and 2D convection diffusion problems with boundary layers. Besides, the multigrid method is used to accelerate the iterative convergence speed. The numerical solutions of adaptive mesh is more flexible than uniform or nonuniform grids methods if the location of the boundary layers is unknown in advance.

97 MATHEMATICS AND COMPUTING↗

Efficient second derivative methods with extended stability regions for non-stiff IVPs

We describe the construction of explicit Nordsieck sequential second derivative general linear methods with a large region of absolute stability. The constructed methods are of order p=q=s, where q and s are the stage order and the number of internal stages, respectively. To compare, we also construct methods in this class which possess Runge–Kutta stability property. Implementation of the constructed methods in a variable stepsize mode is discussed and efficiency of these methods is verified by some numerical experiments in fixed and variable stepsize environment.

97 MATHEMATICS AND COMPUTING↗

Factorizations of hyperpower family of iterative methods via least squares approach

A new method for finding proper factorizations of the hyperpower family of iterative methods for computing generalized inverses is proposed. The method is based on numerical optimization of an appropriate least squares problem. An iterative method in a non-normalized form for finding the generalized outer inverses with prescribed range and null space of any given complex matrix is proposed and considered. Computational complexity and convergence of the method are studied. Several numerical experiments are also presented.

97 MATHEMATICS AND COMPUTING↗

A fast, efficient direct slicing method for slender member structures

We describe a method for quickly and efficiently slicing structures consisting of a large number of slender members called struts connected at node positions called joints. Previous research on periodic lattice structures shows these structures are highly mechanically efficient with exceptionally high stiffness- and strength-to-weight ratios. Additive manufacturing technologies allow the construction slender member structures with complicated macroscale shapes. These structures could consist of thousands or millions of geometric primitives describing the struts. Structures with large numbers of geometric objects cause the conventional methods for manipulating, storing, and slicing the geometry of these parts via STL files to be highly inefficient. This work describes an alternate design process for slender member structures using efficient methods for manipulating, storing, and slicing the geometry of the part. These new methods, in particular a fast, efficient direct slicing method, enable printing slender member structures with over one hundred thousand struts. The slicing algorithm is nearly perfectly parallel so it could extend to handle structures with over one million struts, helping to facilitate the adoption of slender member structures for engineering-scale applications.

36 MATERIALS SCIENCE↗

Control rod treatment for FEM based radiation transport methods

This paper presents a novel control rod treatment for finite element method (FEM) based reactor physics simulations. The new method falls into the class of homogenization methods which treat material interfaces within mesh elements by defining a representative, homogenized nuclear cross section set. In contrast to existing homogenization based cusping treatments that attempt to approximate flux-volume weighting of the cross sections, we propose to exactly integrate terms appearing in the variational form of the transport or diffusion equation over mixed material elements. This goal is achieved by defining smoothly varying cross sections in elements that straddle material boundaries. It is shown that the smoothly varying cross sections can be obtained by projecting the piecewise set of cross sections onto the set of Legendre polynomials up to a finite order. Implementation of smoothly varying cross sections is supported within the Rattlesnake radiation multiphysics code that is currently under development at the Idaho National Laboratory. Homogenization methods traditionally suffer from cusping effects that originate from overestimation of absorption cross sections in strongly neutron-absorbing materials as found in control rods. We demonstrate that the presented method is (1) highly effective in removing cusping effects and (2) provides accurate results based on the C5G7-TD benchmark, a time-dependent version of the C5G7 benchmark.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Subcell limiting strategies for discontinuous Galerkin spectral element methods

Here, we present a general family of subcell limiting strategies to construct robust high-order accurate nodal discontinuous Galerkin (DG) schemes. The main strategy is to construct compatible low order finite volume (FV) type discretizations that allow for convex blending with the high-order variant with the goal of guaranteeing additional properties, such as bounds on physical quantities and/or guaranteed entropy dissipation. For an implementation of this main strategy, four main ingredients are identified that may be combined in a flexible manner: (i) a nodal high-order DG method on Legendre–Gauss–Lobatto nodes, (ii) a compatible robust subcell FV scheme, (iii) a convex combination strategy for the two schemes, which can be element-wise or subcell-wise, and (iv) a strategy to compute the convex blending factors, which can be either based on heuristic troubled-cell indicators, or using ideas from flux-corrected transport methods. By carefully designing the metric terms of the subcell FV method, the resulting methods can be used on unstructured curvilinear meshes, are locally conservative, can handle strong shocks efficiently while directly guaranteeing physical bounds on quantities such as density, pressure or entropy. We further show that it is possible to choose the four ingredients to recover existing methods such as a provably entropy dissipative subcell shock-capturing approach or a sparse invariant domain preserving approach. We test the versatility of the presented strategies and mix and match the four ingredients to solve challenging simulation setups, such as the KPP problem (a hyperbolic conservation law with non-convex flux function), turbulent and hypersonic Euler simulations, and MHD problems featuring shocks and turbulence.

97 MATHEMATICS AND COMPUTING↗

Residual estimation for grid modification in wall-modeled large eddy simulation using unstructured high-order methods

Here, the accuracy and computational cost of a large eddy simulation are highly dependent on the computational grid. Building optimal grids manually from a priori knowledge is not feasible in most practical use cases; instead, solution-adaptive strategies can provide a robust and cost-efficient method to generate a grid with the desired accuracy. We adapt the residual estimation algorithm developed by Toosi and Larsson for Discontinuous Galerkin Spectral Elements Methods (DGSEM) to guide the grid-adaptation process. The core of the method is the computation of the estimated modeling residual using the polynomial basis functions used in DGSEM, and the averaging of the estimated residual over each element. The final method is assessed in multiple channel flow test cases and for the transonic flow over an airfoil, in both cases making use of mortar interfaces between elements with hanging nodes. The method is found to be robust and reliable, and to provide solutions on grids with significantly fewer elements at comparable accuracy compared to when using human-generated grids.

97 MATHEMATICS AND COMPUTING↗

An efficient reconstruction algorithm for diffusion on triangular grids using the nodal discontinuous Galerkin method

High-energy-density (HED) hydrodynamics studies such as those relevant to inertial confinement fusion and astrophysics require highly disparate densities, temperatures, viscosities, and other diffusion parameters over relatively short spatial scales. This presents a challenge for high-order accurate methods to effectively resolve the hydrodynamics at these scales, particularly in the presence of highly disparate diffusion. A significant volume of engineering and physics applications use an unstructured discontinuous Galerkin (DG) method developed based on the finite element mesh generation and algorithmic framework. This work discusses the application of an affine reconstructed nodal DG method for unstructured grids of triangles. Solving the diffusion terms in the DG method is non-trivial due to the solution representations being piecewise continuous. Hence, the diffusive flux is not defined on the interface of elements. The proposed numerical approach reconstructs a smooth solution in a parallelogram that is enclosed by the quadrilateral formed by two adjacent triangle elements. The interface between these two triangles is the diagonal of the enclosed parallelogram. Similar to triangles, the mapping of parallelograms from a physical domain to a reference domain is an affine mapping, which is necessary for an accurate and efficient implementation of the numerical algorithm. Thus, all computations can still be performed on the reference domain, which promotes efficiency in computation and storage. This reconstruction does not make assumptions on choice of polynomial basis. Reconstructed DG algorithms have previously been developed for modal implementations of the convection–diffusion equations. However, to the best of the authors’ knowledge, this is the first practical guideline that has been proposed for applying the reconstructed algorithm on a nodal discontinuous Galerkin method with a focus on accuracy and efficiency. As a result, the algorithm is demonstrated on a number of benchmark cases as well as a challenging substantive problem in HED hydrodynamics with highly disparate diffusion parameters.

Computational efficiency↗

A projection method for particle resampling

Particle discretizations of partial differential equations are advantageous for high-dimensional kinetic models in phase-space due to their better scalability than continuum approaches with respect to dimension. Complex processes collectively referred to as particle noise hamper long time simulations with particle methods. One approach to address this problem is particle mesh adaptivity, or remapping, known as particle resampling and remeshing. Here, this work introduces a resampling method that projects particles to and from a (finite element) function space. The method is simple, using standard sparse linear algebra and finite element techniques, and it preserves all moments up to the order of a polynomial represented exactly by the continuum function space. It is distinguished from most other mesh-based methods in that new particle positions and number are decoupled from the mesh, allowing particle and continuum meshes to be adapted relatively independently. While this work is developed with structured particle and continuum phase-space grids on 1X + 1V Vlasov-Poisson models of Landau damping and two-stream instability, the method is well-suited to unstructured grids. Stable long time dynamics are demonstrated up to time T = 500. Reproducibility artifacts and data are publicly available.

Kinetic methods↗

Magnus method for electronic structure calculations at extreme conditions

We present the application of Magnus based methods to the solution of first order coupled ordinary differential equations in High Energy Density (HED) physics applications. Our focus is on the application to quantum mechanical methods, specifically on the solution of the radial Dirac equation for real and complex energies. HED applications require accurate solutions across a wide range of spatial and energy domains, including regimes where the solutions exhibit pronounced oscillatory behavior. Such cases pose significant computational challenges. We demonstrate that Magnus-based integrators can efficiently and accurately address these challenges. We discuss the implementation of the Magnus method for the solution of the radial Dirac equation, including practical considerations such as the evaluation of matrix exponentials, numerical integration, error estimation, and adaptive step size control. We also discuss the application of these methods to complex energy Green’s function techniques and the efficient approximation of integrals of the solutions relevant to HED electronic structure calculations. Here, we demonstrate the accuracy and robustness of the resulting method in applications to the free-particle case, for which analytic solutions are available for comparison, as well as the challenging case of gold at HED conditions.

general physics↗

Spectral element method for elastic and acoustic waves in frequency domain

Numerical techniques in time domain are widespread in seismic and acoustic modeling. In some applications, however, frequency-domain techniques can be advantageous over the time-domain approach when narrow band results are desired, especially if multiple sources can be handled more conveniently in the frequency domain. Moreover, the medium attenuation effects can be more accurately and conveniently modeled in the frequency domain. In this paper, we present a spectral-element method (SEM) in frequency domain to simulate elastic and acoustic waves in anisotropic, heterogeneous, and lossy media. The SEM is based upon the finite-element framework and has exponential convergence because of the use of GLL basis functions. The anisotropic perfectly matched layer is employed to truncate the boundary for unbounded problems. Compared with the conventional finite-element method, the number of unknowns in the SEM is significantly reduced, and higher order accuracy is obtained due to its spectral accuracy. To account for the acoustic-solid interaction, the domain decomposition method (DDM) based upon the discontinuous Galerkin spectral-element method is proposed. Numerical experiments show the proposed method can be an efficient alternative for accurate calculation of elastic and acoustic waves in frequency domain.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

The Curvature-Augmented Closest Point method with vesicle inextensibility application

Here, the Closest Point method, initially developed by Ruuth and Merriman, allows for the numerical solution of surface partial differential equations without the need for a parameterization of the surface itself. Surface quantities are embedded into the surrounding domain by assigning each value at a given spatial location to the corresponding value at the closest point on the surface. This embedding allows for surface derivatives to be replaced by their Cartesian counterparts (e.g. ∇ s =∇). This equivalence is only valid on the surface, and thus, interpolation is used to enforce what is known as the side condition away from the surface. To improve upon the method, this work derives an operator embedding that incorporates curvature information, making it valid in a neighborhood of the surface. With this, direct enforcement of the side condition is no longer needed. Comparisons in R 2 and R 3 show that the resulting Curvature-Augmented Closest Point method has better accuracy and requires less memory, through increased matrix sparsity, than the Closest Point method, while maintaining similar matrix condition numbers. To demonstrate the utility of the method in a physical application, simulations of inextensible, bi-lipid vesicles evolving toward equilibrium shapes are also included.

97 MATHEMATICS AND COMPUTING↗

Stellar surface as low-rank modification in iterative methods for binary neutron stars

We present a new multidomain spectral method for the treatment of non-spherical stellar surfaces in iterative methods for binary neutron stars. A stellar surface changes throughout the course of an iterative solution, potentially stalling the convergence. Our method affords low-complexity updates of the relevant subdomain preconditioners, thereby avoiding such stalling. Unlike current collocation (or nodal) approaches for treating surfaces (which rely on coordinate transformations to ensure that stellar surfaces arise at subdomain boundaries), our approach requires no regridding or nontrivial Jacobians. For polytropes with an equation of state specified by an integer polytropic index, our method delivers exponential accuracy with increased truncation, although for “stiff” equations of state (e.g. fractional) it suffers from the same accuracy loss as current methods. We have presented an outline of our approach before, but here present details with numerical tests.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

An adaptive Hessian approximated stochastic gradient MCMC method

Bayesian approaches have been successfully integrated into training deep neural networks. One popular family is stochastic gradient Markov chain Monte Carlo methods (SG-MCMC), which have gained increasing interest due to their ability to handle large datasets and the potential to avoid overfitting. Although standard SG-MCMC methods have shown great performance in a variety of problems, they may be inefficient when the random variables in the target posterior densities have scale differences or are highly correlated. Here, we present an adaptive Hessian approximated stochastic gradient MCMC method to incorporate local geometric information while sampling from the posterior. The idea is to apply stochastic approximation (SA) to sequentially update a preconditioning matrix at each iteration. The preconditioner possesses second-order information and can guide the random walk of a sampler efficiently. Instead of computing and saving the full Hessian of the log posterior, we use limited memory of the samples and their stochastic gradients to approximate the inverse Hessian-vector multiplication in the updating formula. Moreover, by smoothly optimizing the preconditioning matrix via SA, our proposed algorithm can asymptotically converge to the target distribution with a controllable bias under mild conditions. To reduce the training and testing computational burden, we adopt a magnitude-based weight pruning method to enforce the sparsity of the network. Our method is user-friendly and demonstrates better learning results compared to standard SG-MCMC updating rules. The approximation of inverse Hessian alleviates storage and computational complexities for large dimensional models. Numerical experiments are performed on several problems, including sampling from 2D correlated distribution, synthetic regression problems, and learning the numerical solutions of heterogeneous elliptic PDE. The numerical results demonstrate great improvement in both the convergence rate and accuracy.

97 MATHEMATICS AND COMPUTING↗