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At least 289 records · Page 16

Accelerating and Parallelizing Lagrangian Simulations of Mixing-Limited Reactive Transport

Recent advances in random walk particle tracking have enabled direct simulation of mixing and reactions by allowing the particles to interact with each other using a multipoint mass transfer scheme. The mass transfer scheme allows separation of mixing and spreading processes, among other advantages, but it is computationally expensive because its speed depends on the number of interacting particle pairs. This note explores methods for relieving the computational bottleneck caused by the mass transfer step, and we use these algorithms to develop a new parallel, interacting particle model. The new model is a combination of a sparse search algorithm and a novel domain decomposition scheme, both of which offer significant speedup relative to the reference case—even when they are executed serially. We combine the strengths of these methods to create a parallel particle scheme that is highly accurate and efficient with run times that scale as 1/P for a fixed number of particles, where P is the number of computational cores (equivalently, subdomains, in this work) being used. Here, the new parallel model is a significant advance because it enables efficient simulation of large particle ensembles that are needed for environmental simulations and also because it can naturally pair with parallel geochemical solvers to create a practical Lagrangian tool for simulating mixing and reactions in complex chemical systems.

54 ENVIRONMENTAL SCIENCES↗

The FastEddy® Resident-GPU Accelerated Large-Eddy Simulation Framework: Moist Dynamics Extension, Validation and Sensitivities of Modeling Non-Precipitating Shallow Cumulus Clouds

Herein we describe the moist dynamics formulation implemented within the graphics processing unit-resident large-eddy simulation FastEddy® model, which includes a simple saturation adjustment scheme for condensation and evaporation processes. Two LES model intercomparison exercises for non-precipitating shallow cumulus clouds are simulated in order to validate this model extension, including a static forcing and a time-dependent forcing case. Overall, we find our dynamical, thermodynamical and microphysical quantities, along with turbulence variability and fluxes, to be commensurate with the corresponding model intercomparison results. In addition, sensitivities to specific model settings are investigated. Among these settings, it is shown that boundary layer and cloud layer structure and characteristics are sensitive to use of higher-order advection schemes impacting the vertical distribution of cloud content and associated turbulence statistics. Increasing the timescale of the saturation scheme leads to enhanced liquid water presence and decreases vertical velocity variance within the cloud deck. In some cases, these sensitivities agree with the model-to-model variability reported in the intercomparison exercises, highlighting the important role of specific model implementation choices in the context of shallow cumulus convection simulations. These analyses and findings also provide the basis for future extensions and applications of FastEddy® for modeling moist convection and precipitation scenarios.

54 ENVIRONMENTAL SCIENCES↗

Constraint methods that accelerate free-energy simulations of biomolecules

Atomistic molecular dynamics simulations of biomolecules are critical for generating narratives about biological mechanisms. The power of atomistic simulations is that these are physics-based methods that satisfy Boltzmann’s law, so they can be used to compute populations, dynamics, and mechanisms. But physical simulations are computationally intensive and do not scale well to the sizes of many important biomolecules. One way to speed up physical simulations is by coarse-graining the potential function. Another way is to harness structural knowledge, often by imposing spring-like restraints. But harnessing external knowledge in physical simulations is problematic because knowledge, data, or hunches have errors, noise, and combinatoric uncertainties. Here, we review recent principled methods for imposing restraints to speed up physics-based molecular simulations that promise to scale to larger biomolecules and motions.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Large Scale GPU Accelerated PPMLR-MHD Simulations for Space Weather Forecast

PPMLR-MHD is a new magnetohydrodynamics (MHD) model used to simulate the interactions of the solar wind with the magnetosphere, which has been proved to be the key element of the space weather cause-and-effect chain process from the Sun to Earth. Compared to existing MHD methods, PPMLR-MHD achieves the advantage of high order spatial accuracy and low numerical dissipation. However, the accuracy comes at a cost. On one hand, this method requires more intensive computation. On the other hand, more boundary data is subject to be transferred during the process of simulation. In this work, we present a parallel hybrid solution of the PPMLR-MHD model implemented using the computing capabilities of both CPUs and GPUs. We demonstrate that our optimized implementation alleviates the data transfer overhead by using GPU Direct technology and can scale up to 151 processes and achieve significant performance gains by distributing the workload among the CPUs and GPUs on Titan at Oak Ridge National Laboratory. The performance results show that our implementation is fast enough to carry out highly accurate MHD simulations in real time.

Computer Science↗

Accelerating Flash-X Simulations with Asynchronous I/O

Most high-fidelity physics simulation codes, such as Flash-X, need to save intermediate results (checkpoint files) to restart or gain insights into the evolution of the simulation. These simulation codes save such intermediate files synchronously, where computation is stalled while the data is written to storage. Depending on the problem size and computational requirements, this file write time can be a substantial portion of the total simulation time. In order to hide the I/O latency of checkpointing, asynchronous I/O methods have been introduced. These methods use background threads for performing I/O while the main threads continue with the simulation. The usage of background threads can compete for resources on the node as well as with communication. In this paper, we evaluate the overheads and the overall benefit of asynchronous I/O in HDF5 to simulations. Results from real-world high-fidelity simulations on the Summit supercomputer show that I/O operation is overlapped with application communication or computation or both, effectively hiding some or all of the I/O latency. Our evaluation shows that while using asynchronous I/O adds overhead to the application, the I/O time reduction is more significant, resulting in overall up to 1.5X performance speedup.

Jain, Rajeev↗

Modeling and Simulation Development Pathways to Accelerating KP-FHR Licensing (Final Report)

This project assembles a strong U.S. industry and national laboratory team to complete scope of work. Kairos Power (KP), headquartered in Alameda, CA, is the leader of this effort and has built an internal team of highly competent engineers and managers with extensive combined experience in nuclear power, conventional power, product development, and licensing. INL, ANL, and LANL bring unique capabilities in advanced reactor R&D and licensing. The project funding source is the result of FOA No. 0001817, U. S. Industry Opportunities for Advanced Nuclear Technology Development. There has been on-going work and this Access Cooperative Research and Development Agreement (CRADA) will cover the remaining work scope of FOA 0001817. KP is implementing innovative strategies that can reduce the cost and accelerate the initial demonstration of the Kairos Power Fluoride-salt-cooled, High-temperature Reactor (KP-FHR) to meet the needs of the U.S. electricity market by 2030. Licensing of the KP-FHR could be significantly accelerated using advanced computing methods with sufficient predictive capabilities to be able to extrapolate potential response of the structure in different scenarios. However, currently used computational methods heavily rely on empirical fits and cannot be used for extrapolation. The scope focuses on improving the modeling capability in the NEAMS Grizzly structural mechanics code and the NEAMS BISON fuel performance code and the NEAMS SAM systems analysis code. This work leverages the expertise and know-how gathered in three DOE National Laboratories – INL, ANL, and LANL.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗