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DOE OSTI2021

High-order algorithmic developments and optimizations for large-scale GPU-accelerated simulations (Milestone CEED-MS36)

The goal of this milestone was to improve the high-order software ecosystem for CEED-enabled ECP applications by making progress on efficient matrix-free kernels targeting forthcoming ECP architectures. These kernels included matrix-free preconditioning and the development of new set of CEED solver bake-off problems. As part of this milestone, we also released the next version of the CEED software stack, CEED-4.0, reported on results from several application collaborations, and documented the efforts of porting to AMD GPUs for Frontier and other modern architectures, such as Fugaku. The specific tasks addressed in this milestone were: (1) Port and run CEED benchmarks/miniapps on Frontier EA systems; (2) Demonstrate performant libCEED integration in MFEM, Nek and applications; (3) Matrix-free preconditioning of high-order operators; (4) Benchmark problems for fast high-order solvers on GPU platforms; and (5) Public release of CEED-4.0. The artifacts delivered include the next version of the CEED software stack, CEED-4.0, the next libCEED release, libCEED-0.8, and a number of developments integrated within applications to improve their GPU and CPU performance and capabilities. See the CEED website, https://ceed.exascaleproject.org and the CEED GitHub organization, https://github.com/ceed for more details.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2020

A methodology for generating reduced-order models for large-scale buildings using the Krylov subspace method

Developing a computationally efficient but accurate building energy simulation (BES) model is important for many purposes. Model order reduction (MOR) methods are attractive and much more reliable than identification approaches, since it directly extract a lower-dimensional model from a detailed physics-based model without any pre-simulations. However, because of computational and data storage requirements, there are challenges of applying these methods to a large-scale building. To overcome the problem, this work introduces the Krylov subspace method to the building science field. Technical issues of applying the method to building applications are addressed and a suitable algorithm that overcomes those challenges is presented. Furthermore, to demonstrate the reliability of the algorithm, comparisons between the resulted reduced-order model (ROM) and a high-fidelity model from a commercial BES software for a 60-zone case study building are provided. The ROM was a factor of 100 faster than the high fidelity model but with high accuracy.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

DOE OSTI2022

The SODA Approach: Leveraging High-Level Synthesis for Hardware/Software Co-design and Hardware Specialization: Invited

Novel "converged" applications combine phases of scientific simulation with data analysis and machine learning. Each computational phase can benefit from specialized accelerators. However, algorithms evolve so quickly that mapping them on existing accelerators is suboptimal or even impossible. This paper presents the SODA (Software Defined Accelerators) framework, a modular, multi-level, open-source, no-human-in-the-loop, hardware synthesizer that enables end-to-end generation of specialized accelerators. SODA is composed of SODA-Opt, a high-level frontend developed in MLIR that interfaces with domain-specific programming frameworks and allows performing system level design, and Bambu, a state-of-the-art high-level synthesis engine that can target different device technologies. The framework implements design space exploration as compiler optimization passes. We show how the modular, yet tight, integration of the high-level optimizer and lower-level HLS tools enables the generation of accelerators optimized for the computational patterns of converged applications. We then discuss some of the research opportunities that such a framework allows, including system-level design, profile driven optimization, and supporting new optimization metrics.

Bohm Agostini, Nicolas↗

DOE OSTI2024

nuclear-score-maximization v1.0

This software library presents efficient and multithreaded implementations of matrix low rank approximation via column selection in C++17 code. The algorithms are described in Fornace, Mark, and Michael Lindsey. "Column and row subset selection using nuclear scores: algorithms and theory for Nystro m approximation, CUR decomposition, and graph Laplacian reduction." arXiv preprint arXiv:2407.01698 (2024). The presented methods are by-and-large ver novel, have provable approximation guarantees, multiple use-cases, and exhibit higher quality approximations on a variety of studied examples.

Fornace, Mark↗

DOE OSTI2022

Analysis of Microwave Resonant Cavity Transducer Degradation Mechanisms

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

DOE OSTI2022

Second Annual Report on Development of Microwave Resonant Cavity Transducer for Fluid Flow Sensing

We are investigating a microwave resonant cavity transducer for flow sensing in the vessel of a high temperature fluid advanced reactor (AR), such as a molten salt cooled reactor (MSCR) or a sodium fast reactor (SFR). This transducer is a hollow metallic cylindrical cavity, with the flat wall of the cylinder flexible enough to undergo microscopic deflection due to dynamic fluid pressure. Membrane deflection leads to a shift in the resonant frequency, which can be detected with a spectrum analyzer. Because the transducer is intended for immersion in a high temperature corrosive fluid, understanding of material degradation is crucial for estimation of transducer performance lifetime, and development of measurement interpretation algorithms. We conducted a preliminary computational investigation of relevant damage mechanisms of a stainless steel 316 cylindrical resonator in FLiBe salt. The two main damage mechanisms, creep and corrosion, were modeled using multiphysics COMSOL software. Degradation was modeled for a temperature range 500°C to 700°C. Coupling of the damage mechanisms was not considered. These models predict significant inelastic deformation at most temperatures due to creep, and qualitatively predict chromium depletion both along the liquid/solid interface and along the grain boundaries. An algorithmic approach for compensation of these degradation effects during fluid flow measurements will be developed in the future work. To validate sensor physics, we have performed proof-of-principle test of flow sensing in water. For this test, we have developed a cylindrical resonator for K-band, which was machined from brass. The cavity was excited through WR-42 waveguide through a subwavelength hole on the side of the wall of the cylinder. To increase the spectral signal visibility, we developed a signal processing method for baseline subtraction. A flow loop for proof-of-principle test of transducer performance in water was assembled. A commercial flow meter was installed in the loop for reference measurements. Cylindrical cavity was excited in the TE 011 mode with resonant frequency f ≈ 17.8GHz. Frequency shift of cavity spectral response was obtained by gradually increasing water flow rate from 0 to 60gpm. Corresponding monotonic increase of resonant frequency shift by several MHz was observed. Approximate figure of merit of sensitivity to flow rate is 100KHz/GPM. In addition, we have identified an existing liquid sodium experimental setup for demonstration of flow sensing in environment similar to that of an advanced reactor. The setup consists of a cylindrical vessel and center feed line, where transducer inserted through the lid will measure velocity of the impinging liquid jet. As a calibration experiment, we have assembled a water vessel with center feed with the same dimensions as those of the liquid sodium setup. We have also developed and insertion probe consisting of a 50cm brass waveguide enclosed in protective SS316 tube. Using the water loop, we have demonstrated feasibility of sensing the impinging liquid jet in the vessel.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

DOE OSTI2023

Demonstration of ACCERT Software for Nuclear Power Plant Techno-Economics

In the past few years, there has been a renewed interest in the deployment of nuclear power for decarbonizing the electricity grid as well as a range of industrial applications. As the demonstrations of advanced nuclear power plants start to begin, there will likely be a further increase in this interest. As nuclear is being considered as a part of the energy mix, understanding the cost of nuclear energy becomes increasingly important for all stakeholders including advanced reactor vendors (for making design decisions and marketing their designs), users of nuclear energy (e.g., to estimate the cost of decarbonization of other industries using nuclear), and government (e.g., in capacity expansion models that are used in framing policy). In this summary, we demonstrate a software tool called ACCERT that is currently being developed with funding from the Systems Analysis and Integration (SA&I) program under the Department of Energy’s Office of Nuclear Energy (DOE NE). ACCERT is a cost estimation and techno-economics tool for nuclear power plant applications that includes a database of (a) cost estimates of various ‘reference’ nuclear power plant designs gathered from existing literature, and (b) algorithms developed from these costs that can be used extrapolate the existing costs and perform a bottom-up cost estimation of other designs. A companion summary describes the software and its design in more detail and this summary presents a demonstration for four different nuclear power plant designs: a pressurized water reactor (PWR), high-temperature gas reactor (HTGR), sodium fast reactor (SFR), and a heat-pipe microreactor. The demonstrations include the reference cost estimates and the cost estimates of a modified design for each reference case.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

DOE OSTI2023

Comparing Top-Down Proteoform Identification: Deconvolution, PrSM Overlap, and PTM Detection

Generating top-down tandem mass spectra (MS/MS) for complex mixtures of proteoforms has become possible through improvements in fractionation, on-line separation, dissociation, and mass analysis. The algorithms to match tandem mass spectra to sequences have undergone a parallel evolution, with both spectral alignment and peak matching being paired with diverse methods for scoring proteoform-spectral matches (PrSMs). This study assesses state-of-the-art algorithms for top-down identification through three distinct challenges. The first is identifying a large yield of PrSMs while controlling false discovery rate (FDR) in identifying thousands of proteoforms from complex cell lysates via four software workflows: ProSight Proteome Discoverer, TopPIC, Informed Proteomics, and pTop. The second is the deconvolution of data from both Thermo Orbitrap-class and Bruker maXis Q-TOF instruments to produce consistent precursor charge and mass determinations while generating fragment mass lists to optimize identification. The third attempts to detect diverse post-translational modifications (PTMs) in proteoforms from cow milk and human ovarian tissue. The data demonstrate that existing software suites produce admirable sensitivity, in some cases identifying a third of collected tandem mass spectra with FDR controlled below 2%; the overlap in these PrSMs, however, illustrates real value in searching data with multiple search engines. Differences among identification workflows seem to result from each search algorithm incorporating its own deconvolution algorithm. By transmitting deconvolution data from multiple deconvolution routes (Thermo Xtract, Bruker Auto MSn, Mascot Distiller, TopFD, and FLASHDeconv) to the downstream TopPIC search algorithm, we were able to detect common causes of deconvolution disagreement. The detection of PTMs was very inconsistent among search algorithms, with some workflows suggesting as little as 1% of PrSMs from cow’s milk were singly-phosphorylated while other workflows found that 18% of PrSMs were singly-phosphorylated. Taken together, these results make a strong argument for top-down researchers to adopt a standard practice of analyzing each MS/MS experiment with at least two different search engines.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2024

T RI M E ++: Multi-threaded triangular meshing in two dimensions

We present T RI M E ++, a multi-threaded software library designed for generating two-dimensional meshes for intricate geometric shapes using the Delaunay triangulation. Multi-threaded parallel computing is implemented throughout the meshing procedure, making it suitable for fast generation of large-scale meshes. Three iterative meshing algorithms are implemented: the DistMesh algorithm, the centroidal Voronoi diagram meshing, and a hybrid of the two. We compare the performance of the three meshing methods in T RI M E ++, and show that the hybrid method retains the advantages of the other two. The software library achieves significant parallel speedup when generating large-scale meshes containing between 10 4 to 10 7 points. T RI M E ++ can handle complicated geometries and generates adaptive meshes of high quality.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2022

Combining Physics and Machine Learning for the Next Generation of Molecular Simulation

Simulating molecules and atomic systems at quantum accuracy is a grand challenge for science in the 21 st century. Quantum-accurate simulations would enable the design of new medicines and the discovery of new materials. The defining problem in this challenge is that quantum calculations on large molecules, like proteins or DNA, are fundamentally impossible with current algorithms. In this work, we explore a range of different methods that aim to make large, quantum-accurate simulations possible. We show that using advanced classical models, we can accurately simulate ion channels, an important biomolecular system. We show how advanced classical models can be implemented in an exascale-ready software package. Lastly, we show how machine learning can learn the laws of quantum mechanics from data and enable quantum electronic structure calculations on thousands of atoms, a feat that is impossible for current algorithms. Altogether, this work shows that combining advances in physics models, computing, and machine learning, we are moving closer to the reality of accurately simulating our molecular world.

74 ATOMIC AND MOLECULAR PHYSICS↗

DOE OSTI2022

EQ_phase_detection

The EQ_phase_detection software is designed to scan continuous daily waveforms to detect earthquake phase arrivals from local to regional (150 km) events. The detections are made with a deep learning encoder-decoder model. When the model detects an earthquake in the waveforms, a second model is implemented to classify the first arriving motions. Both deep learning models are trained with the Tensorflow package using publicly available benchmark data sets. The software input is a path to a directory that contains waveforms in mseed format and the associated response files in xml format. The output is a data table of time stamped detections, signal amplitude, signal-to-noise ratio, and softmax probability of the detection in a generic format applicable to post-processing association algorithms for event locations. Additionally, the p-wave and s-wave waveforms are saved in a data table for rapid access when producing improved locations using correlation-based techniques. The software is designed for multiprocessing with multiple GPU’s for rapid processing of large data sets. The configuration file provides flexibility in the trained models implemented and allows access to multiple models trained for different sampling rates or input dimensions. This is particularly useful for regions with multiple networks that do not have the same data parameters.

Johnson, Christopher↗

DOE OSTI2021

Non-Adiabatic Excited State Molecular Dynamics Methodologies: comparison and convergence

Direct atomistic simulation of nonadiabatic molecular dynamics is a challenging goal that allows important insights into fundamental physical phenomena. A variety of frameworks, ranging from fully quantum treatment of nuclei to semiclassical and mixed quantum–classical approaches, were developed. These algorithms are then coupled to specific electronic structure techniques. Such diversity and lack of standardized implementation make it difficult to compare the performance of different methodologies when treating realistic systems. Here, we compare three popular methods for large chromophores: Ehrenfest, surface hopping, and multiconfigurational Ehrenfest with ab initio multiple cloning (MCE-AIMC). These approaches are implemented in the NEXMD software, which features a common computational chemistry model. The resulting comparisons reveal the method performance for population relaxation and coherent vibronic dynamics. Finally, we study the numerical convergence of MCE-AIMC algorithms by considering the number of trajectories, cloning thresholds, and Gaussian wavepacket width. Our results provide helpful reference data for selecting an optimal methodology for simulating excited-state molecular dynamics.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2024

Tusqh

SAND2025-00675O Tusqh is a software tool that generates cubical meshes in 2D and 3D and computes the homology of these meshes using persistent homology. It includes a grid cell in the output if its volume-fraction is above a selectable threshold, estimated by sampling points within the cell. Tusqh incorporates anti-aliasing algorithms to mitigate grid orientation and scale effects. It is designed for creating finite element meshes for simulations and can be used in various applications such as heat diffusion, mechanical simulations, and computer graphics rendering. The software outputs meshes in an open format compatible with downstream software. Sandia National Laboratories is a multimission laboratory managed and operated by National Technology & Engineering Solutions of Sandia, LLC, a wholly owned subsidiary of Honeywell International Inc., for the U.S. Department of Energy’s National Nuclear Security Administration under contract DE-NA0003525.

SciDAC↗

DOE OSTI2024

Hot, cold, or just right? An infrared biometric sensor to improve occupant comfort and reduce overcooling in buildings via closed-loop control

To improve occupant comfort and save energy in buildings, we have developed a closed-loop air conditioning (AC) sensor-controller that predicts occupant thermal sensation from the thermographic measurement of skin temperature distribution, then uses this information to reduce overcooling (cooling-energy overuse that discomforts occupants) by regulating AC output. Taking measures to protect privacy, it combines thermal-infrared (TIR) and color (visible spectrum) cameras with machine vision to measure the skin-surface temperature profile. Since the human thermoregulation system uses skin blood flow to maintain thermoneutrality, the distribution of skin temperature can be used to predict warm, neutral, and cool thermal states. We conducted a series of human-subject thermal-sensation trials in cold-to-hot environments, measuring skin temperatures and recording thermal sensation votes. We then trained random-forest classification machine-learning models (classifiers) to estimate thermal sensation from skin temperatures or skin-temperature differences. The estimated thermal sensation was input to a proportional integral (PI) control algorithm for the AC, targeting a sensation level between neutral and warm. Our sensor-controller includes a sensor assembly, server software, and client software. The server software orients the cameras and transmits images to the client software, which in turn assesses occupant skin temperature distribution, estimates occupant thermal sensation, and controls AC operation. A demonstration conducted in a conference room in an office building near Houston, TX showed that our system reduced overcooling, decreasing AC load by 42% when the room was occupied while improving occupant comfort (fraction of “comfortable” votes) by 15 percentage points.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

DOE OSTI2022

Accelerating error correction in tomographic reconstruction

Abstract Spurred by recent advances in detector technology and X-ray optics, upgrades to scanning-probe-based tomographic imaging have led to an exponential growth in the amount and complexity of experimental data and have created a clear opportunity for tomographic imaging to approach single-atom sensitivity. The improved spatial resolution, however, is highly susceptible to systematic and random experimental errors, such as center of rotation drifts, which may lead to imaging artifacts and prevent reliable data extraction. Here, we present a model-based approach that simultaneously optimizes the reconstructed specimen and sinogram alignment as a single optimization problem for tomographic reconstruction with center of rotation error correction. Our algorithm utilizes an adaptive regularizer that is dynamically adjusted at each alternating iteration step. Furthermore, we describe its implementation in a software package targeting high-throughput workflows for execution on distributed-memory clusters. We demonstrate the performance of our solver on large-scale synthetic problems and show that it is robust to a wide range of noise and experimental drifts with near-ideal throughput.

Ali, Sajid (ORCID:0000000321864636)↗

DOE OSTI2025

Cyberattack Detection and Mitigation on Central Volt‐VAr Using Circuit Law and Machine Learning

ABSTRACT In a distribution grid, voltage is maintained within a nominal range through a Volt‐VAr function that controls capacitor banks, reactive power of distributed energy resources (DER), and on‐load tap changers (OLTC). Availability of communications helps with the implementation of central Volt‐VAr control; however, it also opens the system to cyberattacks, causing voltage disturbances. Previous work has shown the adverse impacts of false data injection (FDI) on the central Volt‐VAr control; however, very few works have studied methods to detect and mitigate FDI on Volt‐VAr control. This paper addresses gaps in the detection and mitigation of FDI on the measurement packets of a central Volt‐VAr control. This work uses a two‐stage algorithm for cyberattack detection since the accuracy of a single‐stage machine learning (ML)–based detection method decreases while dealing with unseen data. The first stage is based on the verification of measurements against circuit laws, and the second stage utilizes a tree search algorithm and an ML method to detect the falsified data. This paper compares long short‐term memory (LSTM) and bidirectional LSTM (BiLSTM) as the employed ML algorithms. Finally, the mitigation algorithm replaces the falsified data with the estimated output of the ML algorithm. The effectiveness of the proposed method is tested for several cases using the IEEE 13‐bus test system in PSCAD software.

Beikbabaei, Milad [Bradley Department of Electrica↗

DOE OSTI2024

Device Feasibility Analysis of Multi-level FeFETs for Neuromorphic Computing

As an emerging non-volatile memory device technology, Ferroelectric Field-Effect Transistors (FeFETs) can enable low-power, adaptive intelligent system design. However, device dimension and operating voltage dependent reliability issues of scaled FeFETs can ultimately lead to degraded performance in solving machine learning tasks. In this article, detailed experimental characterization of FeFET devices of different dimensions have been carried out to explicitly evaluate the non-ideal behavior in device conductance programming properties like number of programming states, cycle-to-cycle (C2C) variations, device-to-device (D2D) variations, and state retention. A hardware-aware software simulation approach has been adopted to capture the adversarial effects of the non-idealities on recognition accuracy through algorithm-level performance assessment by including them in NeuroSim, a popular neural network hardware simulator, to execute a neural network model considering all other hardware constraints. With the added non-idealities, significant accuracy degradation has been observed compared to the ideal scenarios where D2D variations play the most critical role. Thereafter, feasibility of a variation-aware training method has been evaluated to tackle the accuracy drop.

42 ENGINEERING↗

DOE OSTI2021

Integrated Models for Electrical Distribution Network Planning and District-Scale Building Energy Use

The increase of greenhouse emissions caused by a rise in global energy consumption is pushing the scientific community to develop tools that address key environmental, techno-economic and social issues. One specific area of focus is to create tools that enable the design of high-performance energy districts, including grid-interactive efficient buildings and electrical distribution infrastructure. This paper outlines the approach of integrating a synthetic distribution network tool (RNM-US) with URBANopt™, a modular and customizable software development kit for thermal and electrical modelling of buildings and energy systems at a district scale. First, we describe the algorithms implemented to integrate RNM-US with URBANopt to automatically generate the distribution network for the district considered. Following, we present a case study for the potential uses of the RNM-US integrations with URBANopt, highlighting the capabilities for economic and technical analysis of the distribution network built in relation to the electricity needs of the modelled buildings.

30 DIRECT ENERGY CONVERSION↗