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At least 127 records · Page 7

Surrogate models to optimize plasma-assisted atomic layer deposition in high aspect ratio features

In this work, we explore surrogate models to optimize plasma enhanced atomic layer deposition (PEALD) in high aspect ratio features. In plasma-based processes such as PEALD and atomic layer etching (ALE), surface recombination can dominate the reactivity of plasma species with the surface, which can lead to unfeasibly long exposure times to achieve full conformality inside nanostructures like high aspect ratio vias. Using a synthetic dataset based on simulations of PEALD, we train artificial neural networks to predict saturation times based on cross section thickness data obtained for partially coated conditions. The results obtained show that just two experiments in undersaturated conditions contain enough information to predict saturation times within 10% of the ground truth. A surrogate model trained to determine whether surface recombination dominates the plasma–surface interactions in a PEALD process achieves 99% accuracy. This demonstrates that machine learning can provide a new pathway to accelerate the optimization of PEALD processes in areas such as microelectronics. Our approach can be easily extended to ALE and more complex structures.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

High-Fidelity Simulation of the Light-to-Dense Stratification Transient in the HiRJET Facility

Density stratification in a large enclosure is a crucial phenomenon to heat transfer and sustainable passive heat removal of a sodium fast reactor during reactivity transients. However, engineering turbulence models were identified to have unsatisfactory performance in predicting propagation of a stratified front. Yet, the scarcity of high-resolution data for stratification hampers the development of models. To explor e applications of leveraging direct numerical simulation (DNS) data to support turbulence model development, this work conducted DNS using NekRS to study a long stratification transient in the High-Resolution Jet (HiRJET) experimental facility. Here, this work considers an experiment run where light fluid is injected into a tank containing a denser fluid with a relative density difference of 1.5%. Formation of the stratified layer is identified as impingement of the buoyant jet promoting mixing of the two fluids. Based on the transient statistics, transport of the concentration can be characterized by regions with dominating effects of turbulent mixing, buoyant dissipation, and molecular diffusion, respectively, as moving away from the elevation of jet impingement. Concentration near the stratified front also exhibits oscillation at Brunt-Väisälä frequency. Preliminary validation of the simulation showed encouraging agreement of the concentration distribution with the reference experiment.

buoyant mixing↗

C3F: Collaborative Container-based Model Coupling Framework

Solving complex real-world grand challenge problems requires in-depth collaboration of researchers from multiple disciplines. Such collaboration often involves harnessing multiscale and multi-dimensional data and combining models from different fields to simulate systems. However, the progress on this front has been limited mainly due to significant gaps in domain knowledge and tools that are typically employed in silos of the domains. Researchers from different fields face considerable barriers to understanding and reusing each other’s data/models in order to collaborate effectively. For example, in solving the global sustainability problems, researchers from hydrology, climate science, agriculture, and economics need to run their respective models to study different components of the global and local food, energy and water systems while, at the same time, need to interact with other researchers and integrate the results of one model with another. Developing this kind of model coupling workflow calls for (1) a large amount of data being processed and exchanged across domains and organizations, (2) identifying and processing the output of one model to make it ready for integration into another model, (3) controlling the workflow dynamically so that it runs until a certain convergence condition or other criteria is met, and (4) close collaboration among the modelers to explore, tune, and test the configuration and data transformation needed to link the models. We have developed C3F, a flexible collaborative model coupling framework to help researchers accelerate their model integration and linking efforts by leveraging advanced cyberinfrastructure such as high-performance computing and virtual containers. In this paper, we describe our experience and lessons learned in developing this cyberinfrastructure solution to support the linking of Water Balance Model (WBM) and SIMPLE-G agricultural economic model in an NSF funded INFEWS project and a DOE-funded Program on Coupled Human and Earth Systems (PCHES) to study the implications of groundwater scarcity for food-energy-water systems. The C3F model coupling framework can be extended to facilitate other model linkages as well.

containerization↗

HPC Analytics of Fused Thermal Plants Data to Optimize Operating Envelope

In this project, ORNL extensively reviewed the ORAP RAM data, and it guided us to develop machine learning models that can predict time to next failures and forecast failure trends, which will be useful for optimizing power plant operation strategies. More specifically, we trained multiple random forest models and evaluated the model accuracy to validate with 10+ years of historical data. In addition, we implemented a web-based graphical user interface system for the models to show how our models can be used in more intuitive ways. This proof of concept allowed exploration of model use with power plant operators in mind. Developed machine learning models will be helpful for managing risks, planning maintenance and operation, ultimately reducing the down time and increasing the service hours. For future work, there are several interesting research topics including but not limited to model enhancement, creating synergy with traditional failure modeling approaches, and data-driven actionable recommendation and suggestions.

20 FOSSIL-FUELED POWER PLANTS↗

Reprocessing Models for the Optical Light Curves of Hypervariable Quasars from the Sloan Digital Sky Survey Reverberation Mapping Project

We explore reprocessing models for a sample of 17 hypervariable quasars, taken from the Sloan Digital Sky Survey Reverberation Mapping project, which all show coordinated optical luminosity hypervariability with amplitudes of factors ≳2 between 2014 and 2020. We develop and apply reprocessing models for quasar light curves in simple geometries that are likely to be representative of quasar inner environments. In addition to the commonly investigated thin-disk model, we include the thick-disk and hemisphere geometries. The thick-disk geometry could, for instance, represent a magnetically elevated disk, whereas the hemisphere model can be interpreted as a first-order approximation for any optically thick out-of-plane material caused by outflows/winds, warped/tilted disks, and so on. Of the 17 quasars in our sample, 11 are best-fitted by a hemisphere geometry, five are classified as thick disks, and both models fail for just one object. We highlight the successes and shortcomings of our thermal reprocessing models in case studies of four quasars that are representative of the sample. While reprocessing is unlikely to explain all of the variability that we observe in quasars, we present our classification scheme as a starting point for revealing the likely geometries of reprocessing for quasars in our sample and hypervariable quasars in general.

79 ASTRONOMY AND ASTROPHYSICS↗

Lower Tropospheric Processes: A Control on the Global Mean Precipitation Rate

The spread in global mean precipitation among climate models is explored in two ensembles using the complementary perspectives of surface evaporation and energy budgets. Models with higher global mean precipitation have stronger oceanic evaporation, driven by drier near-surface air. The drier surface conditions occur alongside increases in near-surface temperature and moisture at 925 hPa, which point to stronger boundary layer mixing. Correlations suggest that the degree of lower tropospheric mixing explains 18%–49% of the intermodel precipitation variance. To test this hypothesis, the degree of mixing is indirectly varied in a single-model experiment by adjusting the relative humidity threshold that controls low-cloud fraction. Indeed, increasing lower tropospheric mixing results in more global mean precipitation. Energetically, increased precipitation rates are associated with more downwelling longwave radiation to the surface and weaker sensible heat fluxes. These results highlight how lower-tropospheric processes must be better constrained to reduce the precipitation discrepancy among climate models.

58 GEOSCIENCES↗

Climatic Controls on Soil Carbon Accumulation and Loss in a Dryland Ecosystems

Arid and semiarid ecosystems drive year-to-year variability in the strength of the terrestrial carbon (C) sink, yet there is uncertainty about how soil C gains and losses contribute to this variation. For this work, to address this knowledge gap, we embedded C-depleted soil mesocosms, containing litter or biocrust C inputs, within an in situ dryland ecosystem warming experiment. Over the course of one year, changes in microbial biomass and total soil organic C pools were monitored alongside hourly measurements of soil CO 2 flux. We also developed a biogeochemical model to explore the mechanisms that gave rise to observed soil C dynamics. Field data and model simulations demonstrated that water exerted much stronger control on soil biogeochemistry than temperature, with precipitation events triggering large CO 2 pulses and transport of litter- and biocrust-derived C into the soil profile. We expected leaching of organic matter would result in steady accumulation of C within the mineral soil over time. Instead, the size of the total organic C pool fluctuated throughout the year, largely in response to microbial growth: increases in the size of microbial biomass were negatively correlated with the quantity of C residing in the top 2 cm, where most biogeochemical changes were observed. Our data and models suggest that microbial responses to precipitation events trigger rapid metabolism of dissolved organic C inputs, which strongly limit accumulation of autotroph-derived C belowground. Accordingly, changes in the magnitude and/or frequency of precipitation events in this dryland ecosystem could have profound impacts on the strength of the soil C sink.

54 ENVIRONMENTAL SCIENCES↗

Standard model Higgs inflation supplemented by minimal dark matter

Renormalization group analysis with the present measurements of the top quark mass m t = 172.69 ± 0.30 GeV [1] indicates that the Standard Model (SM) Higgs potential becomes unstable at energy scales ∼ 10 10 GeV . This may be interpreted as hinting at new particles at high energy. The minimal extension of the SM that can avoid this instability while leaving the SM Higgs as the sole scalar particle of the theory is obtained by adding suitable fermions to the SM. These fermions are good dark matter candidates and the model is known as the minimal dark matter model. We revisit the inflationary scenario based on the minimal dark matter model, taking into account updated parameter constraints and recent understanding of reheating dynamics. We explore the model with different values of the right-handed neutrino mass and find that the cosmological prediction is insensitive to such details. We obtained a spectral index of the cosmic microwave background n s = 0.9672 and a tensor-to-scalar ratio r = 0.0031 as a robust prediction of this scenario. Published by the American Physical Society 2024

Astronomy & Astrophysics↗

Accelerating Traction Motor Optimization Design with AI Surrogate Models

The advancement of artificial intelligence systems enables the use of data-driven physics-based surrogate models to explore design spaces rapidly and deeply for engineering projects. This work presents a surrogate model workflow that accelerates electric traction motor design optimization by replacing finite element analysis (FEA) with an artificial neural network (ANN) and using this model in a genetic algorithm for design optimization. A baseline interior permanent-magnet motor is parameterized and sampled to generate FEA-labeled training data, after which a feed-forward ANN predicts key outputs (e.g., loss components and weight). The validated surrogate enables genetic-algorithm optimization and deep search over the design space without new FEA runs, producing Pareto-optimal trade-offs between weight and losses and set of optimized designs for rapid downselection of manufacturable motor designs.

Ribeiro, Pedro [ORNL] (ORCID:0009000921026641)↗

Field Sensitivity Analysis of Turbulence Model Parameters for Flow Over a Wing

Reynolds-averaged-Navier-Stokes (RANS) turbulence models are a critical tool in computational-fluid-dynamics simulations of aerodynamic systems, but simulation results can be highly sensitive to RANS-model parameter choices. Sensitivity analysis can be used to quantify these impacts, and the objective of this study is to demonstrate field sensitivity analysis with respect to ten parameters in the 2003 Menter shear-stress-transport (SST) turbulence model. Here, the analysis is demonstrated for an application relevant to wind energy, namely, flow over a NACA 0015 wing at 12 degree angle of attack and a Reynolds number of 1.5 x 10 6 . We quantify sensitivity using Sobol indices and the mean-squared gradient, which are estimated using polynomial chaos and active subspace models, respectively. Our results indicate that there are substantial spatial variations in parameter sensitivities, with different sets of most-sensitive parameters near the wing, as well as in the downstream wake, consistent with the physical interpretations of the turbulence model inputs. We show that, for this particular turbulence model and flow, simultaneous dimension reduction is possible across all quantities of interest, enabling efficient exploration of model outcomes. Ultimately, this analysis provides new insights into turbulence model parameter sensitivities in incompressible flows, and also demonstrates the implementation of field sensitivity analysis for applications relevant to aerodynamics simulations.

17 WIND ENERGY↗

Meta Biome: a multiscale model integrating agent-based and metabolic networks to reveal spatial regulation in gut mucosal microbial communities

ABSTRACT Mucosal microbial communities (MMCs) are complex ecosystems near the mucosal layers of the gut essential for maintaining health and modulating disease states. Despite advances in high-throughput omics technologies, current methodologies struggle to capture the dynamic metabolic interactions and spatiotemporal variations within MMCs. In this work, we presentMetaBiome, a multiscale model integrating agent-based modeling (ABM), finite volume methods, and constraint-based models to explore the metabolic interactions within these communities. Integrating ABM allows for the detailed representation of individual microbial agents each governed by rules that dictate cell growth, division, and interactions with their surroundings. Through a layered approach—encompassing microenvironmental conditions, agent information, and metabolic pathways—we simulated different communities to showcase the potential of the model. Using ourin-silicoplatform, we explored the dynamics and spatiotemporal patterns of MMCs in the proximal small intestine and the cecum, simulating the physiological conditions of the two gut regions. Our findings revealed how specific microbes adapt their metabolic processes based on substrate availability and local environmental conditions, shedding light on spatial metabolite regulation and informing targeted therapies for localized gut diseases.MetaBiome provides a detailed representation of microbial agents and their interactions, surpassing the limitations of traditional grid-based systems. This work marks a significant advancement in microbial ecology, as it offers new insights into predicting and analyzing microbial communities. IMPORTANCE Our study presents a novel multiscale model that combines agent-based modeling, finite volume methods, and genome-scale metabolic models to simulate the complex dynamics of mucosal microbial communities in the gut. This integrated approach allows us to capture spatial and temporal variations in microbial interactions and metabolism that are difficult to study experimentally. Key findings from our model include the following: (i) prediction of metabolic cross-feeding and spatial organization in multi-species communities, (ii) insights into how oxygen gradients and nutrient availability shape community composition in different gut regions, and (iii) identification of spatiallyregulated metabolic pathways and enzymes inE. coli. We believe this work represents a significant advance in computational modeling of microbial communities and provides new insights into the spatial regulation of gut microbiome metabolism. The multiscale modeling approach we have developed could be broadly applicable for studying other complex microbial ecosystems.

Microbiology↗

The dark energy survey supernova program: investigating beyond-ΛCDM

We report constraints on a variety of non-standard cosmological models using the full 5-yr photometrically classified type Ia supernova sample from the Dark Energy Survey (DES-SN5YR). Both Akaike Information Criterion (AIC) and Suspiciousness calculations find no strong evidence for or against any of the non-standard models we explore. When combined with external probes, the AIC and Suspiciousness agree that 11 of the 15 models are moderately preferred over Flat-|$\Lambda$|CDM suggesting additional flexibility in our cosmological models may be required beyond the cosmological constant. We also provide a detailed discussion of all cosmological assumptions that appear in the DES supernova cosmology analyses, evaluate their impact, and provide guidance on using the DES Hubble diagram to test non-standard models. An approximate cosmological model, used to perform bias corrections to the data holds the biggest potential for harbouring cosmological assumptions. We show that even if the approximate cosmological model is constructed with a matter density shifted by |$\Delta \Omega _{\rm m}\sim 0.2$| from the true matter density of a simulated data set the bias that arises is subdominant to statistical uncertainties. Nevertheless, we present and validate a methodology to reduce this bias.

79 ASTRONOMY AND ASTROPHYSICS↗

Dynamical Large Deviations of Two-Dimensional Kinetically Constrained Models Using a Neural-Network State Ansatz

We use a neural-network ansatz originally designed for the variational optimization of quantum systems to study dynamical large deviations in classical ones. We use recurrent neural networks to describe the large deviations of the dynamical activity of model glasses, kinetically constrained models in two dimensions. We present the first finite size-scaling analysis of the large-deviation functions of the two-dimensional Fredrickson-Andersen model, and explore the spatial structure of the high-activity sector of the South-or-East model. These results provide a new route to the study of dynamical large-deviation functions, and highlight the broad applicability of the neural-network state ansatz across domains in physics.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Sparse Deep Neural Network Inference using different Programming Models

Sparse deep neural networks have gained increasing attention recently in achieving speedups on inference with reduced memory footprints. However, the real-world applications are little shown with specialized optimizations, yet a wide variety of DNN tasks remain dense without exploiting the advantages of sparsity in networks. Recent work presented by MIT/IEEE/Amazon GraphChallenge has demonstrated significant speedups and various techniques. Still, we find that there is limited investigation of the impact of various Python and C\slash C++ based programming models to explore new opportunities in general cases. In this work, we provide performance evaluation through different programming models using CuPy, cuSPARSE, and OpenMP to discuss the advantages and disadvantages of our sparse implementations on single-GPU and multiple GPUs of NVIDIA DGX-A100 40GB/80GB platforms.

machine learning, HPC↗

Mechanistic understanding of pH effects on the oxygen evolution reaction

The oxygen-evolution reaction (OER) is pivotal in many energy-conversion technologies as it is an important counter reaction to others that convert stable chemicals to higher-value products using electrochemistry. The local microenvironment and pH for the anode OER can vary from acidic to neutral to alkaline depending on the system being explored, making definitive mechanistic insights difficult. In this paper, we couple experiments, first-principles calculations based on density functional theory, microkinetics, and transport modeling to explore the entire pH range of the OER. At low current densities, neutral pH values unexpectedly perform better than the acidic and alkaline conditions, and this trend is reversed at higher current densities (> 20 mA cm -2 ). Using multiscale modeling, this switch is rationalized by a change from a dual-reaction mechanism to a single rate-determining step. The model also shows how the alkaline reaction rates dominate in the middle to high pH range. Furthermore, we explore that the local pH for near-neutral conditions is much different (e.g., 2.4 at the reaction surface vs. 9 in the bulk) than the pH extremes, demonstrating the criticality that transport phenomena plays in kinetic activity.

36 MATERIALS SCIENCE↗

Modeling inter‐reader variability in clinical target volume delineation for soft tissue sarcomas using diffusion model

Abstract Background Accurate delineation of the clinical target volume (CTV) is essential in the radiotherapy treatment of soft tissue sarcomas. However, this process is subject to inter‐reader variability due to the need for clinical assessment of risk and extent of potential microscopic spread. This can lead to inconsistencies in treatment planning, potentially impacting treatment outcomes. Most existing automatic CTV delineation methods do not account for this variability and can only generate a single CTV for each case. Purpose This study aims to develop a deep learning‐based technique to generate multiple CTV contours for each case, simulating the inter‐reader variability in the clinical practice. Methods We employed a publicly available dataset consisting of fluorodeoxyglucose positron emission tomography (FDG‐PET), x‐ray computed tomography (CT), and pre‐contrast T1‐weighted magnetic resonance imaging (MRI) scans from 51 patients with soft tissue sarcoma, along with an independent validation set containing five additional patients. An experienced reader drew a contour of the gross tumor volume (GTV) for each patient based on multi‐modality images. Subsequently, two additional readers, together with the first one, were responsible for contouring three CTVs in total based on the GTV. We developed a diffusion model‐based deep learning method that is capable of generating arbitrary number of different and plausible CTVs to mimic the inter‐reader variability in CTV delineation. The proposed model incorporates a separate encoder to extract features from the GTV masks, leveraging the critical role of GTV information in accurate CTV delineation. Results The proposed diffusion model demonstrated superior performance with the highest Dice Index (0.902 compared to values below 0.881 for state‐of‐the‐art models) and the best generalized energy distance (GED) (0.209 compared to values exceeding 0.221 for state‐of‐the‐art models). It also achieved the second‐highest recall and precision metrics among the compared ambiguous image segmentation models. Results from both datasets exhibited consistent trends, reinforcing the reliability of our findings. Additionally, ablation studies exploring different model structures and input configurations highlighted the significance of incorporating prior GTV information for accurate CTV delineation. Conclusions The proposed diffusion model successfully generates multiple plausible CTV contours for soft tissue sarcomas, effectively capturing inter‐reader variability in CTV delineation.

Dong, Yafei [Yale Biomedical Imaging Institute Yal↗

Simulating Mixed‐Phase Open Cellular Clouds Observed During COMBLE: Evaluation of Parameterized Turbulence Closure

Marine cold-air outbreaks, or CAOs, are airmass transformations whereby relatively cold boundary layer (BL) air is transported over relatively warm water. To more deeply understand BL and mixed-phase cloud properties during CAO conditions, the Cold-Air Outbreaks in the Marine Boundary Layer Experiment (COMBLE) took place from late 2019 into early 2020. During COMBLE, the U.S. Department of Energy's first Atmospheric Radiation Measurement Mobile Facility (AMF1) was deployed to Andenes, Norway, far downstream (~1,000 km) from the Arctic pack ice. This study examines the two most intense CAOs sampled at the AMF1 site. The observed BL structures are open cellular with high (~3–5 km) and cold (–30 to –50 °C) cloud tops, and they often have pockets of high liquid water paths (LWPs; up to ~1,000 g m –2 ) associated with strong updrafts and enhanced turbulence. We use a high-resolution mesoscale model to explore how well four turbulence closure methods represent open cellular clouds. After applying a radar simulator to model outputs for direct evaluation, cloud top properties agree well with AMF1 observations (within ~10%), but radar reflectivity and LWP agreement is more variable. Results suggest that the turbulent Prandtl number may play an important role for the simulated BL and cloud properties. All simulations produce enhanced precipitation rates that are well-correlated with a cloud transition. Finally, the eddy-diffusivity/mass-flux approach produces the deepest cloud layer and therefore the largest and most coherent cellular structures. Furthermore, we recommend the use of a non-local turbulence closure approach to better capture turbulent processes in intense CAOs.

54 ENVIRONMENTAL SCIENCES↗

FutureTense

Protective vaccines and reliable diagnostics are essential tools for controlling viral diseases. However, the efficacy of these tools can be diminished by mutations in viral genomes. The delay between the emergence of new viral strains and the redesign of vaccines and diagnostics allows for continued viral transmission. Is it possible to address this challenge by computationally predicting viral genome sequence evolution? Can we “future-proof” vaccines and diagnostics by targeting both current and anticipated future sequence variants? While predicting viral evolution is still an unsolved, “grand challenge” problem in biology, the large, and rapidly growing, number of SARS-CoV-2 genome sequences provide an opportunity to quantify the ability of machine learning to predict viral genome sequence evolution. Towards this end, we have developed a simple computational model for predicting viral evolution at the level of individual nucleotides. The key metric for quantifying the per-base, prediction accuracy for viral evolution is the Mann-Whitney U statistic (or, equivalently, the area under the receiver operator curve). Since the Mann-Whitney U statistic is not a differentiable function, existing deep leaning packages (like Pytorch and Keras/TensorFlow) are not useful, as they require that the accuracy metric/objective function be analytically differentiable with respect to the model parameters. To overcome this challenge, we have implemented custom software, “FutureTense”, that can train a machine learning model by maximizing the non-differentiable Mann-Whitney U statistic. This software trains a machine learning model by exploring along the direction of the discrete gradient of the Mann-Whitney U statistic in the model parameter space. Parallel computing and genome sequence-specific optimizations are used to accelerate model training. The resulting machine learning model learns the observed high C->U mutation rates in the SARS-CoV-2 genome (which are potentially induced by host defenses) and provides prediction accuracies that are significantly better than one would expect from random chance. While predicting viral evolution is still quite far from a solved problem, the surprising performance of this simple model gives hope that the accuracy of predicting viral genome evolution can be further increased by more sophisticated approaches.

Gans, Jason↗