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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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DOE OSTI2024

Leveraging Artificial Intelligence to Expedite Antibody Design and Enhance Antibody–Antigen Interactions

This perspective sheds light on the transformative impact of recent computational advancements in the field of protein therapeutics, with a particular focus on the design and development of antibodies. Cutting-edge computational methods have revolutionized our understanding of protein–protein interactions (PPIs), enhancing the efficacy of protein therapeutics in preclinical and clinical settings. Central to these advancements is the application of machine learning and deep learning, which offers unprecedented insights into the intricate mechanisms of PPIs and facilitates precise control over protein functions. Despite these advancements, the complex structural nuances of antibodies pose ongoing challenges in their design and optimization. Our review provides a comprehensive exploration of the latest deep learning approaches, including language models and diffusion techniques, and their role in surmounting these challenges. We also present a critical analysis of these methods, offering insights to drive further progress in this rapidly evolving field. The paper includes practical recommendations for the application of these computational techniques, supplemented with independent benchmark studies. These studies focus on key performance metrics such as accuracy and the ease of program execution, providing a valuable resource for researchers engaged in antibody design and development. Through this detailed perspective, we aim to contribute to the advancement of antibody design, equipping researchers with the tools and knowledge to navigate the complexities of this field.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS1989

Benchmarking Ada tasking on tightly coupled multiprocessor architectures

The development of benchmarks and performance measures for parallel Ada tasking is reported with emphasis on the macroscopic behavior of the benchmark across a set of load parameters. The application chosen for the study was the NASREM model for telerobot control, relevant to many NASA missions. The results of the study demonstrate the potential of parallel Ada in accomplishing the task of developing a control system for a system such as the Flight Telerobotic Servicer using the NASREM framework.

Collard, Philippe↗

NASA NTRS1987

CFD activities at NASA. Marshall Space Flight Center (validation)

Computational fluid dynamics objectives are presented for Marshall Space Flight Center. Topics covered include: codes in use, applications to hardware development, and the Center's benchmark plan for the future. All results are presented in viewgraph format.

Schutzenhofer, Luke A.↗

NASA NTRS2000

Automatic Data Traffic Control on DSM Architecture

We study data traffic on distributed shared memory machines and conclude that data placement and grouping improve performance of scientific codes. We present several methods which user can employ to improve data traffic in his code. We report on implementation of a tool which detects the code fragments causing data congestions and advises user on improvements of data routing in these fragments. The capabilities of the tool include deduction of data alignment and affinity from the source code; detection of the code constructs having abnormally high cache or TLB misses; generation of data placement constructs. We demonstrate the capabilities of the tool on experiments with NAS parallel benchmarks and with a simple computational fluid dynamics application ARC3D.

Frumkin, Michael↗

NASA NTRS2000

Automatic Generation of OpenMP Directives and Its Application to Computational Fluid Dynamics Codes

The shared-memory programming model is a very effective way to achieve parallelism on shared memory parallel computers. As great progress was made in hardware and software technologies, performance of parallel programs with compiler directives has demonstrated large improvement. The introduction of OpenMP directives, the industrial standard for shared-memory programming, has minimized the issue of portability. In this study, we have extended CAPTools, a computer-aided parallelization toolkit, to automatically generate OpenMP-based parallel programs with nominal user assistance. We outline techniques used in the implementation of the tool and discuss the application of this tool on the NAS Parallel Benchmarks and several computational fluid dynamics codes. This work demonstrates the great potential of using the tool to quickly port parallel programs and also achieve good performance that exceeds some of the commercial tools.

Yan, Jerry↗

NASA NTRS2004

Evaluating the Information Power Grid using the NAS Grid Benchmarks

The NAS Grid Benchmarks (NGB) are a collection of synthetic distributed applications designed to rate the performance and functionality of computational grids. We compare several implementations of the NGB to determine programmability and efficiency of NASA's Information Power Grid (IPG), whose services are mostly based on the Globus Toolkit. We report on the overheads involved in porting existing NGB reference implementations to the IPG. No changes were made to the component tasks of the NGB can still be improved.

VanderWijngaartm Rob F.↗

NASA NTRS2018

A Linear-Elasticity Solver for Higher-Order Space-Time Mesh Deformation

A linear-elasticity approach is presented for the generation of meshes appropriate for a higher-order space-time discontinuous finite-element method. The equations of linear-elasticity are discretized using a higher-order, spatially-continuous, finite-element method. Given an initial finite-element mesh, and a specified boundary displacement, we solve for the mesh displacements to obtain a higher-order curvilinear mesh. Alternatively, for moving-domain problems we use the linear-elasticity approach to solve for a temporally discontinuous mesh velocity on each time-slab and recover a continuous mesh deformation by integrating the velocity. The applicability of this methodology is presented for several benchmark test cases.

higher-order↗

DOE OSTI2015

Platinum adlayered ruthenium nanoparticles, method for preparing, and uses thereof

A superior, industrially scalable one-pot ethylene glycol-based wet chemistry method to prepare platinum-adlayered ruthenium nanoparticles has been developed that offers an exquisite control of the platinum packing density of the adlayers and effectively prevents sintering of the nanoparticles during the deposition process. The wet chemistry based method for the controlled deposition of submonolayer platinum is advantageous in terms of processing and maximizing the use of platinum and can, in principle, be scaled up straightforwardly to an industrial level. The reactivity of the Pt(31)-Ru sample was about 150% higher than that of the industrial benchmark PtRu (1:1) alloy sample but with 3.5 times less platinum loading. Using the Pt(31)-Ru nanoparticles would lower the electrode material cost compared to using the industrial benchmark alloy nanoparticles for direct methanol fuel cell applications.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2021

A prediction interval method for uncertainty quantification of regression models

This paper considers calculation of prediction intervals (PIs) by neural networks (NNs) for quantifying uncertainty in regression tasks, so as to provide fast, accurate and robust emulators to accelerate scientific simulations. We propose a novel method to learn lower and upper bounds of the PI using independent NNs without defining an exclusive loss. Our method requires no distributional assumption, does not introduce extra hyper-parameters, and can effectively identify out-of-distribution samples and quantify their uncertainty. We demonstrate advantages of our method using a benchmark problem and two real-world scientific applications.

Zhang, Pei↗

DOE OSTI2022

Simulation of Peach Bottom turbine trip transients TT1, TT2 and TT3 with SIMULATE-3K

The Peach Bottom 2 Turbine Trip transients tests TT1, TT2 and TT3 are simulated with SIMULATE-3K. This work provides the initial basis for evaluation of the capabilities and accuracy of coupled 3D neutronics/thermal hydraulics best estimate calculations for support of safety analysis. Selected results, obtained with SIMULATE-3K, are compared to available measurements and benchmark results. The comparisons are analyzed and the application of SIMULATE-3K for best estimate analysis approach within the safety analysis methodology is discussed. (authors)

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

DOE OSTI2022

Simulation of Peach Bottom turbine trip transient with RETRAN-3D using BXFGEN

The Peach Bottom 2 Turbine Trip transient is used to evaluate the capabilities and accuracy of coupled 3-D neutronics/thermal hydraulics best estimate calculations for support of safety analysis. Selected results, obtained with RETRAN-3D, are compared to available measurements and benchmark results. The comparisons are analyzed and the application of RETRAN-3D for a best estimate analysis approach within the safety analysis methodology is discussed. Overall, both the thermal-hydraulic and neutronic results show a good comparison to the experimental data, and the model is considered to accurately predict test data. In particular, the initial acoustic response of the main steam line and the subsequent main pressurization stages are well-predicted. During the main pressurization stage, the timing and magnitude of the in-core local pressurization and associated void compression are properly predicted based upon the agreement between local power range monitors (LPRM) predictions upwards, but the shift is slightly underpredicted. This indicates the methodology is well-posed for simulating this class of transient response.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

DOE OSTI2022

Analysis of SCALE Criticality and Sensitivity Calculations for Reflected HEU Cylinders [Slides]

The SCALE code package offers multiple nuclear data libraries supporting Monte Carlo transport, with sensitivity and uncertainty methods derived from MC transport solutions. Several libraries are multigroup, which introduce bias differing by system. Previous work has shown poor S/U results in several reflector materials: ICSBEP benchmark HMF-084 was selected to analyze biases and S/U method applicability to a variety of reflectors. Prior and ongoing work found inaccuracies in CSAS and TSUNAMI results, which were further investigated utilizing the HEU-MET-FAST-084 ICSBEP critical benchmark, chosen for its geometrical simplicity and variety of reflector materials. Perturbation of reflector thickness across various reflector materials allowed for an assortment of materials is to be tested swiftly for each sequence and method. Observation was an increasing bias of MG $k_{eff}$ relative to CE, in both direction and magnitude. IFP produced extremely reliable results. >85% of CLUTCH cases were found satisfactory.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

NASA NTRS2002

Memory-Intensive Benchmarks: IRAM vs. Cache-Based Machines

The increasing gap between processor and memory performance has lead to new architectural models for memory-intensive applications. In this paper, we explore the performance of a set of memory-intensive benchmarks and use them to compare the performance of conventional cache-based microprocessors to a mixed logic and DRAM processor called VIRAM. The benchmarks are based on problem statements, rather than specific implementations, and in each case we explore the fundamental hardware requirements of the problem, as well as alternative algorithms and data structures that can help expose fine-grained parallelism or simplify memory access patterns. The benchmarks are characterized by their memory access patterns, their basic control structures, and the ratio of computation to memory operation.

Biswas, Rupak↗

DOE OSTI2013

Toward a New Metric for Ranking High Performance Computing Systems

The High Performance Linpack (HPL), or Top 500, benchmark is the most widely recognized and discussed metric for ranking high performance computing systems. However, HPL is increasingly unreliable as a true measure of system performance for a growing collection of important science and engineering applications. In this paper we describe a new high performance conjugate gradient (HPCG) benchmark. HPCG is composed of computations and data access patterns more commonly found in applications. Using HPCG we strive for a better correlation to real scientific application performance and expect to drive computer system design and implementation in directions that will better impact performance improvement.

Heroux, Michael Allen↗

DOE OSTI2019

iez: Resource Contention Aware Load Balancing for Large-Scale Parallel File Systems

Parallel I/O performance is crucial to sustaining scientific applications on large-scale High-Performance Computing (HPC) systems. However, I/O load imbalance in the underlying distributed and shared storage systems can significantly reduce overall application performance. There are two conflicting challenges to mitigate this load imbalance: (i) optimizing systemwide data placement to maximize the bandwidth advantages of distributed storage servers, i.e., allocating I/O resources efficiently across applications and job runs; and (ii) optimizing client-centric data movement to minimize I/O load request latency between clients and servers, i.e., allocating I/O resources efficiently in service to a single application and job run. Moreover, existing approaches that require application changes limit wide-spread adoption in commercial or proprietary deployments. We propose iez, an “end-to-end control plane” where clients transparently and adaptively write to a set of selected I/O servers to achieve balanced data placement. Our control plane leverages realtime load information for distributed storage server global data placement while our design model leverages trace-based optimization techniques to minimize I/O load request latency between clients and servers. We evaluate our proposed system on an experimental cluster for two common use cases: synthetic I/O benchmark IOR for large sequential writes and a scientific application I/O kernel, HACC-I/O. Results show read and write performance improvements of up to 34% and 32%, respectively, compared to the state of the art.

Wadhwa, Bharti↗

DOE OSTI2019

Benchmarking of alignment-free sequence comparison methods

Background: Alignment-free (AF) sequence comparison is attracting persistent interest driven by data-intensive applications. Hence, many AF procedures have been proposed in recent years, but a lack of a clearly defined benchmarking consensus hampers their performance assessment. Results: Here, we present a community resource (http://afproject.org) to establish standards for comparing alignment-free approaches across different areas of sequence-based research. We characterize 74 AF methods available in 24 software tools for five research applications, namely, protein sequence classification, gene tree inference, regulatory element detection, genome-based phylogenetic inference, and reconstruction of species trees under horizontal gene transfer and recombination events. Conclusion: The interactive web service allows researchers to explore the performance of alignment-free tools relevant to their data types and analytical goals. It also allows method developers to assess their own algorithms and compare them with current state-of-the-art tools, accelerating the development of new, more accurate AF solutions

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2017

Additions to the ICSBEP AND IRPHEP Handbooks Since NCSD 2013

Innumerable experiments have been performed worldwide to support criticality safety activities. Those experiments represent significant investments in cost, expertise, and infrastructure; as such, they represent valuable assets as the basis for recording, development, and validation of methods and nuclear data vital for modern and future criticality safety needs. Preservation and evaluation of these experimental data as benchmarks serves to provide for the best interest of the nuclear criticality safety community. High-quality integral benchmark experiments have always been a priority. There is ever growing interest in developing integral benchmark data to increasingly quantify and reduce calculational uncertainties to meet the demands of future criticality safety needs supporting next generation reactors and advanced fuel cycle concepts. The importance of drawing upon existing benchmark data is becoming more apparent be-cause of dwindling availability of critical facilities worldwide and the high cost of per-forming new experiments. Integral benchmark data from the International Handbook of Evaluated Criticality Safety Benchmark Experiments (ICSBEP Handbook) and the International Handbook of Reactor Physics Benchmark Experiments (IRPhEP Handbook) are widely utilized. Significant benchmark data have been added to those two handbooks since the last Nuclear Criticality Safety Division Topical Meeting in Wilmingt on, North Carolina (September-October 2013). This paper highlights those additions. The 2016 edition of the ICSBEP Handbook now includes data for 570 evaluations containing benchmark specifications for 4,913 critical, subcritical, or near-critical configurations, representing contributions from over 20 countries. There are a total of 7 criticality-alarm-placement/shielding evaluations containing a total of 45 benchmark configurations, and 8 fundamental physics benchmark evaluations containing a total of 215 measurements relevant to criticality safety applications. The IRPhEP Handbook now includes data from 151 experimental series (representing 50 reactor facilities) and also represents contributions from over 20 countries. Of the 151 benchmarks, five are draft contributions. Both the ICSBEP and IRPhEP are collaborative efforts that involve numerous scientists, engineers, and administrative support personnel worldwide. Continued contribution to these handbooks is expected to further provide the high-quality benchmark data necessary to compliment criticality safety activities going forward.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

DOE OSTI2017

Additions to the ICSBEP and IRPHEP handbooks since NCSD 2013

Innumerable experiments have been performed worldwide to support criticality safety activities. Those experiments represent significant investments in cost, expertise, and infrastructure; as such, they represent valuable assets as the basis for recording, development, and validation of methods and nuclear data vital for modern and future criticality safety needs. Preservation and evaluation of these experimental data as benchmarks serves to provide for the best interest of the nuclear criticality safety community. High-quality integral benchmark experiments have always been a priority. There is ever growing interest in developing integral benchmark data to increasingly quantify and reduce calculational uncertainties to meet the demands of future criticality safety needs supporting next generation reactors and advanced fuel cycle concepts. The importance of drawing upon existing benchmark data is becoming more apparent because of dwindling availability of critical facilities worldwide and the high cost of performing new experiments. Integral benchmark data from the International Handbook of Evaluated Criticality Safety Benchmark Experiments (ICSBEP Handbook) and the International Handbook of Reactor Physics Benchmark Experiments (IRPhEP Handbook) are widely utilized. Significant benchmark data have been added to those two handbooks since the last Nuclear Criticality Safety Division Topical Meeting in Wilmington, North Carolina (September-October 2013). This paper highlights those additions. The 2016 edition of the ICSBEP Handbook now includes data for 570 evaluations containing benchmark specifications for 4913 critical, subcritical, or near-critical configurations, representing contributions from over 20 countries. There are a total of seven criticality-alarm-placement/shielding evaluations containing a total of 45 benchmark configurations, and eight fundamental physics benchmark evaluations containing a total of 215 measurements relevant to criticality safety applications. The IRPhEP Handbook now includes data from 151 experimental series (representing 50 reactor facilities) and also represents contributions from over 20 countries. Of the 151 benchmarks, five are draft contributions. Both the ICSBEP and IRPhEP are collaborative efforts that involve numerous scientists, engineers, and administrative support personnel worldwide. Continued contribution to these handbooks is expected to further provide the high-quality benchmark data necessary to compliment criticality safety activities going forward. (authors)

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗