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At least 1,225 records · Page 68

Direct Numerical Simulation of Hypersonic Turbulent Boundary Layer Flow using SPARC: Initial Evaluation

This report documents the initial testing of the Sandia Parallel Aerodynamics and Reentry Code (SPARC) to directly simulate hypersonic, turbulent boundary layer flow over a sharp 7- degree half-angle cone. This type of computation involves a tremendously large range of scales both in time and space, requiring a large number of grid cells and the efficient utilization of a large pool of resources. The goal of the simulation is to mimic and verify a wind tunnel experiment that seeks to measure the turbulent surface pressure fluctuations. These data are necessary for building a model to predict random vibration loading in the reentry flight environment. A low-dissipation flux scheme in SPARC is used on a 2.7 billion cell mesh to capture the turbulent fluctuations in the boundary layer flow. The grid is divided into 115200 partitions and simulated using the Knight's Landings (KNL) partition of the Trinity system. The parallel performance of SPARC is explored on the Trinity system, as well as some of the other new architectures. Extracting data from the simulation shows good agreement with the experiment as well as a colleague's simulation. The data provide a guide for which a new model can be built for better prediction of the reentry random vibration loads.

42 ENGINEERING↗

SIMULATIONS OF ENERGETIC PARTICLES INTERACTING WITH DYNAMICAL MAGNETIC TURBULENCE

We explore the transport of energetic particles in interplanetary space by using test-particle simulations. In previous work such simulations have been performed by using either magnetostatic turbulence or undamped propagating plasma waves. In the current paper we simulate for the first time particle transport in dynamical turbulence. To do so we employ two models, namely the damping model of dynamical turbulence and the random sweeping model. We compute parallel and perpendicular diffusion coefficients and compare our numerical findings with solar wind observations. We show that good agreement can be found between simulations and the Palmer consensus range for both dynamical turbulence models if the ratio of turbulent magnetic field and mean field is δB/B{sub 0} = 0.5.

79 ASTRONOMY AND ASTROPHYSICS↗

Injection of multiple shattered pellets for disruption mitigation in DIII-D

Plasma shutdown experiments in DIII-D have injected multiple shattered pellets at different toroidal locations for the first time, as is planned for the ITER disruption mitigation system. Systematically varying the relative timing of the two pellets suggests that simultaneously injected pellets may influence the assimilation of each other, altering the resulting disruption characteristics compared to a single pellet injecting similar neon quantities. Thermal quench (TQ) radiation measured near the injection location is reduced with the dual pellets, contrary to TQ radiation measured away from the injection ports, which does not show a clear difference between single or dual pellet injections. The mitigation of other disruption loads, such as the current quench (CQ) duration and divertor heat loads, decrease when the pellets enter the plasma simultaneously compared to single shattered pellet injections with similar neon quantities. This similar reduction in mitigation of CQ and conductive loads is consistent with the observed reduction in total TQ radiation. The time between initial pellet injection and the end of the TQ is shorter when both pellets are injected simultaneously compared to a single pellet. This lower cooling duration may limit the amount of the neon assimilated by the plasma prior to the end of the TQ, consistent with the observed reduction in radiation. The injected impurities spread primarily in the parallel direction, away from the source at the injection location. The addition of two shattered pellet injectors shows that the initial poloidal radiation is spread out into two distinct regions, cooling multiple flux tubes simultaneously, which may induce global MHD instabilities more rapidly than a single flux tube of impurities leading to a shorter cooling duration. The electron density increased by approximately a factor of two with the addition of multiple pellets, but is highly sensitive to the time between injections. Here, a maximum density increase is found when both pellets arrive at the plasma prior to the start of the TQ.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Semicoherent symmetric quantum processes: Theory and applications

Discovering pragmatic and efficient approaches to construct ε-approximations of quantum operators such as real (imaginary) time-evolution propagators in terms of the basic quantum operations (gates) is challenging. Prior ε-approximations are invaluable, in that they enable the compilation of classical and quantum algorithm modeling of, e.g., dynamical and thermodynamic quantum properties. In parallel, symmetries are powerful tools concisely describing the fundamental laws of nature; the symmetric underpinnings of physical laws have consistently provided profound insights and substantially increased predictive power. In this work, we consider the interplay between the ε-approximate processes and the exact symmetries in a semicoherent context—where measurements occur at each logical clock cycle. Here we draw inspiration from Pascual Jordan's groundbreaking formulation of nonassociative, but commutative, symmetric algebraic form. Our symmetrized formalism is then applied in various domains such as quantum random walks, real-time evolutions, variational algorithm ansatzes, and efficient entanglement verification. Our work paves the way for a deeper understanding and greater appreciation of how symmetries can be used to control quantum dynamics in settings where coherence is a limited resource.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

3D Coded SUMMA: Communication-Efficient and Robust Parallel Matrix Multiplication

In this paper, we propose a novel fault-tolerant parallel matrix multiplication algorithm called 3D Coded SUMMA that achieves higher failure-tolerance than replication-based schemes for the same amount of redundancy. This work bridges the gap between recent developments in coded computing and fault-tolerance in high-performance computing (HPC). The core idea of coded computing is the same as algorithm-based fault-tolerance (ABFT), which is weaving redundancy in the computation using error-correcting codes. In particular, we show that MatDot codes, an innovative code construction for parallel matrix multiplications, can be integrated into three-dimensional SUMMA (Scalable Universal Matrix Multiplication Algorithm [30]) in a communication-avoiding manner. To tolerate any two node failures, the proposed 3D Coded SUMMA requires ~50% less redundancy than replication, while the overhead in execution time is only about 5–10%.

97 MATHEMATICS AND COMPUTING↗

Measurement of Volatile Compounds for Real-Time Analysis of Soil Microbial Metabolic Response to Simulated Snowmelt

Snowmelt dynamics are a significant determinant of microbial metabolism in soil and regulate global biogeochemical cycles of carbon and nutrients by creating seasonal variations in soil redox and nutrient pools. With an increasing concern that climate change accelerates both snowmelt timing and rate, obtaining an accurate characterization of microbial response to snowmelt is important for understanding biogeochemical cycles intertwined with soil. However, observing microbial metabolism and its dynamics non-destructively remains a major challenge for systems such as soil. Microbial volatile compounds (mVCs) emitted from soil represent information-dense signatures and when assayed non-destructively using state-of-the-art instrumentation such as Proton Transfer Reaction-Time of Flight-Mass Spectrometry (PTR-TOF-MS) provide time resolved insights into the metabolism of active microbiomes. In this study, we used PTR-TOF-MS to investigate the metabolic trajectory of microbiomes from a subalpine forest soil, and their response to a simulated wet-up event akin to snowmelt. Using an information theory approach based on the partitioning of mutual information, we identified mVC metabolite pairs with robust interactions, including those that were non-linear and with time lags. The biological context for these mVC interactions was evaluated by projecting the connections onto the Kyoto Encyclopedia of Genes and Genomes (KEGG) network of known metabolic pathways. Simulated snowmelt resulted in a rapid increase in the production of trimethylamine (TMA) suggesting that anaerobic degradation of quaternary amine osmo/cryoprotectants, such as glycine betaine, may be important contributors to this resource pulse. Unique and synergistic connections between intermediates of methylotrophic pathways such as dimethylamine, formaldehyde and methanol were observed upon wet-up and indicate that the initial pulse of TMA was likely transformed into these intermediates by methylotrophs. Increases in ammonia oxidation signatures (transformation of hydroxylamine to nitrite) were observed in parallel, and while the relative role of nitrifiers or methylotrophs cannot be confirmed, the inferred connection to TMA oxidation suggests either a direct or indirect coupling between these processes. Overall, it appears that such mVC time-series from PTR-TOF-MS combined with causal inference represents an attractive approach to non-destructively observe soil microbial metabolism and its response to environmental perturbation.

59 BASIC BIOLOGICAL SCIENCES↗

Lagrangian displacement field estimators in cosmology

The late-time nonlinear Lagrangian displacement field is highly correlated with the initial field, so reconstructing it could enable us to extract primordial cosmological information. Our previous work carefully studied the displacement field reconstructed from the late-time density field using the iterative method proposed and found that it does not fully converge to the true, underlying displacement field (e.g., ~8 % offset at k ~ 0.2 h Mpc –1 at z = 0.6 ). We also constructed the Lagrangian perturbation theory model for the reconstructed field, but the model could not explain the discrepancy between the true and the reconstructed fields in the previous work. Here, the main sources of the discrepancy were speculated to be a numerical artifact in the displacement estimator due to the discreteness of the sample. In this paper, we develop two new estimators of the displacement fields to reduce such a numerical discreteness effect, the normalized momentum estimator and the rescaled resumed estimator. We show that the discrepancy reported is not due to the numerical artifacts. We conclude that the method cannot fully reconstruct the shape of the nonlinear displacement field at the redshift we studied, while it is still an efficient baryon acoustic oscillation reconstruction method. In parallel, by properly accounting for the UV-sensitive term in a reconstruction procedure with an effective field theory approach, we improve the theoretical model for the reconstructed displacement field, by almost 5 times, from ~15% to the level of a few percent at k ~ 0.2 h Mpc –1 at the redshift z = 0.6.

79 ASTRONOMY AND ASTROPHYSICS↗

Measurement of the 240 Pu(n,f) Prompt Fission Neutron Spectra with Chi-Nu

The DOE Nuclear Criticality Safety Program has funded a multi-year effort to measure the 240 Pu(n,f) Prompt Fission Neutron Spectrum at Chi-Nu. This project is a joint LANL-LLNL effort, involving the preparation of 12 240 Pu foils and construction of a Parallel-Plate Avalanche Counter at LLNL, with subsequent measurements of the 240 Pu(n,f) PFNS at the Chi-Nu beamline at the Los Alamos Neutron Science Center’s Weapons Neutron Research facility (LANSCE/WNR). We expect the PPAC to be ready in time to perform the measurements this run cycle.

240Pu Foils↗

MO-F-CAMPUS-I-04: Characterization of Fan Beam Coded Aperture Coherent Scatter Spectral Imaging Methods for Differentiation of Normal and Neoplastic Breast Structures

Purpose: This study intends to characterize the spectral and spatial resolution limits of various fan beam geometries for differentiation of normal and neoplastic breast structures via coded aperture coherent scatter spectral imaging techniques. In previous studies, pencil beam raster scanning methods using coherent scatter computed tomography and selected volume tomography have yielded excellent results for tumor discrimination. However, these methods don’t readily conform to clinical constraints; primarily prolonged scan times and excessive dose to the patient. Here, we refine a fan beam coded aperture coherent scatter imaging system to characterize the tradeoffs between dose, scan time and image quality for breast tumor discrimination. Methods: An X-ray tube (125kVp, 400mAs) illuminated the sample with collimated fan beams of varying widths (3mm to 25mm). Scatter data was collected via two linear-array energy-sensitive detectors oriented parallel and perpendicular to the beam plane. An iterative reconstruction algorithm yields images of the sample’s spatial distribution and respective spectral data for each location. To model in-vivo tumor analysis, surgically resected breast tumor samples were used in conjunction with lard, which has a form factor comparable to adipose (fat). Results: Quantitative analysis with current setup geometry indicated optimal performance for beams up to 10mm wide, with wider beams producing poorer spatial resolution. Scan time for a fixed volume was reduced by a factor of 6 when scanned with a 10mm fan beam compared to a 1.5mm pencil beam. Conclusion: The study demonstrates the utility of fan beam coherent scatter spectral imaging for differentiation of normal and neoplastic breast tissues has successfully reduced dose and scan times whilst sufficiently preserving spectral and spatial resolution. Future work to alter the coded aperture and detector geometries could potentially allow the use of even wider fans, thereby making coded aperture coherent scatter imaging a clinically viable method for breast cancer detection. United States Department of Homeland Security; Duke University Medical Center - Department of Radiology; Carl E Ravin Advanced Imaging Laboratories; Duke University Medical Physics Graduate Program.

60 APPLIED LIFE SCIENCES↗

A multi-platform evaluation of the randomized CX low-rank matrix factorization in Spark

We investigate the performance and scalability of the randomized CX low-rank matrix factorization and demonstrate its applicability through the analysis of a 1TB mass spectrometry imaging (MSI) dataset, using Apache Spark on an Amazon EC2 cluster, a Cray XC40 system, and an experimental Cray cluster. We implemented this factorization both as a parallelized C implementation with hand-tuned optimizations and in Scala using the Apache Spark high-level cluster computing framework. We obtained consistent performance across the three platforms: using Spark we were able to process the 1TB size dataset in under 30 minutes with 960 cores on all systems, with the fastest times obtained on the experimental Cray cluster. In comparison, the C implementation was 21X faster on the Amazon EC2 system, due to careful cache optimizations, bandwidth-friendly access of matrices and vector computation using SIMD units. We report these results and their implications on the hardware and software issues arising in supporting data-centric workloads in parallel and distributed environments.

Gittens, Alex↗

Enhanced Shuffling and Fuel Management Capability in PHISICS code

PHISICS (Parallel and Highly Innovative Simulation for the INL Code System) code is a reactor physics package, under development at the Idaho National Laboratory since few years ago. This package is aimed to provide a modern analysis and design tool for reactor physics investigation. It has been designed with the idea to maximize accuracy for a given availability of computational resources and to give state of the art tools and advanced solutions to the nuclear engineer. This is obtained through the implementation of several different solution algorithms and meshing approaches among which the user will be able to choose, in order to balance his computational resources and accuracy needs. PHISICS has been coded following an object-oriented mindset, evolving in a complete modular design; this determines remarkable simplifications in the development of modules by different teams and future maintenance. The different modules currently available in the PHISICS package are a nodal and semi-structured transport core solver (INSTANT), a depletion and burn-up module (MRTAU), a time-dependent solver (Time Integrator), a cross section interpolation and manipulation framework (MIXER), a criticality search module (Criticality) and a fuel management and shuffling component (Shuffle), which is the subject of this paper, having been recently redesigned and improved. PHISICS is fully parallelized to take advantage of multi-core workstations and High Performance Computing systems (4 to 500 cores). In addition, the package is coupled with the system safety analysis code RELAP5-3D. Using the coupling between PHISICS and RELAP5-3D is possible to drive a accurate dynamic analysis switching between a steady state and time-dependent calculations. The main purpose of this paper is to present the redesigned module Shuffle, within the PHISICS tool-kit. All the functionality limitations of the old design have been faced and resolved. The functionality of the module has been fully tested and represented a key development in order to face a challenging problems, such as the revision of the requirements in 10 CFR 50.46C rules, focused on the ECCS rule in LOCA scenarios. The renovated Shuffle module is now completed and represents a key feature of the PHISICS for fuel cycle studies and optimization. Currently it is possible to perform multi-cycle full core analysis including accounting for the thermal-hydraulic feedback by the coupling with RELAP-5. (authors)

97 MATHEMATICS AND COMPUTING↗

Exploring temporal community evolution: algorithmic approaches and parallel optimization for dynamic community detection

Abstract Dynamic (temporal) graphs are a convenient mathematical abstraction for many practical complex systems including social contacts, business transactions, and computer communications. Community discovery is an extensively used graph analysis kernel with rich literature for static graphs. However, community discovery in a dynamic setting is challenging for two specific reasons. Firstly, the notion of temporal community lacks a widely accepted formalization, and only limited work exists on understanding how communities emerge over time. Secondly, the added temporal dimension along with the sheer size of modern graph data necessitates new scalable algorithms. In this paper, we investigate how communities evolve over time based on several graph metrics under a temporal formalization. We compare six different algorithmic approaches for dynamic community detection for their quality and runtime. We identify that a vertex-centric (local) optimization method works as efficiently as the classical modularity-based methods. To its advantage, such local computation allows for the efficient design of parallel algorithms without incurring a significant parallel overhead. Based on this insight, we design a shared-memory parallel algorithm DyComPar , which demonstrates between 4 and 18 fold speed-up on a multi-core machine with 20 threads, for several real-world and synthetic graphs from different domains.

97 MATHEMATICS AND COMPUTING↗

Communication Lower Bounds and Optimal Algorithms for Multiple Tensor-Times-Matrix Computation

Multiple tensor-times-matrix (Multi-TTM) is a key computation in algorithms for computing and operating with the Tucker tensor decomposition, which is frequently used in multidimensional data analysis. Here, we establish communication lower bounds that determine how much data movement is required (under mild conditions) to perform the Multi-TTM computation in parallel. The crux of the proof relies on analytically solving a constrained, nonlinear optimization problem. We also present a parallel algorithm to perform this computation that organizes the processors into a logical grid with twice as many modes as the input tensor. We show that, with correct choices of grid dimensions, the communication cost of the algorithm attains the lower bounds and is therefore communication optimal. Finally, we show that our algorithm can significantly reduce communication compared to the straightforward approach of expressing the computation as a sequence of tensor-times-matrix operations when the input and output tensors vary greatly in size.

HBL-inequalities↗

Unraveling the excitation mechanisms of highly oblique lower-band chorus waves

Excitation mechanisms of highly oblique, quasi-electrostatic lower band chorus waves are investigated using Van Allen Probes observations near the equator of the Earth's magnetosphere. Linear growth rates are evaluated based on in situ, measured electron velocity distributions and plasma conditions and compared with simultaneously observed wave frequency spectra and wave normal angles. Accordingly, two distinct excitation mechanisms of highly oblique lower band chorus have been clearly identified for the first time. The first mechanism relies on cyclotron resonance with electrons possessing both a realistic temperature anisotropy at keV energies and a plateau at 100–500 eV in the parallel velocity distribution. The second mechanism corresponds to Landau resonance with a 100–500 eV beam. In both cases, a small low-energy beam-like component is necessary for suppressing an otherwise dominating Landau damping. In conclusion, our new findings suggest that small variations in the electron distribution could have important impacts on energetic electron dynamics.

58 GEOSCIENCES↗

A provably stable numerical method for the anisotropic diffusion equation in confined magnetic fields

We present a novel numerical method for solving the anisotropic diffusion equation in magnetic fields confined to a periodic box which is accurate and provably stable. We derive energy estimates of the solution of the continuous initial boundary value problem. A discrete formulation is presented using operator splitting in time with the summation by parts finite difference approximation of spatial derivatives for the perpendicular diffusion operator. Weak penalty procedures are derived for implementing both boundary conditions and parallel diffusion operator obtained by field line tracing. We prove that the fully-discrete approximation is unconditionally stable. Discrete energy estimates are shown to match the continuous energy estimate given the correct choice of penalty parameters. A nonlinear penalty parameter is shown to provide an effective method for tuning the parallel diffusion penalty and significantly minimises rounding errors. Several numerical experiments, using manufactured solutions, the “NIMROD benchmark” problem and a single island problem, are presented to verify numerical accuracy, convergence, and asymptotic preserving properties of the method. Finally, we present a magnetic field with chaotic regions and islands and show the contours of the anisotropic diffusion equation reproduce key features in the field.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Porting hypre to heterogeneous computer architectures: Strategies and experiences

We report that linear systems are occurring in many applications, and solving them can take a large amount of the total simulation time. The high performance library hypre provides a variety of interfaces and linear solvers, including various multigrid methods, that have achieved good scalability on a variety of homogeneous parallel computer architectures. Heterogeneous architectures with nodes that have both CPUs and accelerators provide new challenges, since they require more fine-grained parallelism and reduced data movement between different memories on a single node as well as across nodes. We will discuss our experiences and strategies to port hypre to heterogeneous computers with accelerators, including the design of a new memory model, the use of abstractions, the BoxLoop macros in the structured and semi-structured interfaces, and the restructuring of algebraic multigrid (AMG) into modular components. We present numerical experiments comparing CPU and GPU performance for several test problems.

97 MATHEMATICS AND COMPUTING↗

Self-Trapped-Exciton Radiative Recombination in β–Ga 2 O 3 : Impact of Two Concurrent Nonradiative Auger Processes

The peculiarities of radiative and nonradiative processes associated with self-trapped intrinsic eXcitons in the excited β-Ga 2 O 3 crystals are studied via time-resolved techniques of induced absorption, transient grating, and photoluminescence (PL) at room temperature. The excitation above the bandgap is produced by laser pulses with linear light polarization parallel and orthogonal in the (–201) and (001) planes. We elucidate that the nonradiative recombination rate occurring in the eXciton prevails over its radiative emission rate in a wide range of free carrier concentration composed of excited and equilibrium electrons. Hence, the nonradiative recombination has no effect on the strong anisotropy and the shape of the eXciton emission band. However, we find out that the conventional ABC model of electron effective lifetime is insufficient for explanation of the excitation dependences. Inclusion of two nonradiative Auger mechanisms in a modified ABC formula provides excellent agreement of these dependences. We conclude that the trap-assisted Auger process is in proportion to the free electron density with coefficient B = 1.1 × 10 –11 cm 3 /s and appears at low/intermediate excitation, while the triple-particle Auger process is in proportion to Δn 2 with coefficient C = 8 × 10 –30 cm 6 /s and appears at high excitation conditions. The transition between two Auger mechanisms is accompanied by a rise of the eXciton diffusivity in preferred crystallographic directions where the radiative PL intensity is maximal. The diffusion length LD in these directions can reach values ~300 nm, but, at high excitations, LD becomes limited by Auger lifetimes. These findings pave the way for the implementation of self-trapped eXcitons into specific optoelectronic devices.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗