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DOE OSTI2023

Department of Energy’s Atmospheric System Research (ASR) Program’s Workshop on the Future of Atmospheric Large Eddy Simulation (LES): Workshop Report

Large-eddy simulation (LES) is used as a tool to understand physical processes such as turbulence, aerosols, clouds, precipitation, radiation, the interactions among all these, and their interactions with the underlying surface. Over the next 10 years, LES will drive fundamental progress in open scientific questions in these areas as LES is increasingly used to gain understanding of complex interacting physical processes involving atmospheric turbulence. This growth will be driven both by scientific demand and the expansion of computational resources needed to conduct LES, and the form that the growth takes will largely be determined by how computational resources are leveraged for scientific gain. In particular, we suggest that computational resources are likely to be leveraged in two separate but not necessarily distinct ways. On one hand, growth in computational resources will allow LES to be made more routine, that is, performed more frequently, while on the other hand, the computational expense (measured in total floating point operations) afforded to individual LES will expand dramatically, allowing simulations to increase in both domain size and resolution as well as physical detail. Current U.S. Department of Energy (DOE) projects such as LES ARM Symbiotic Simulation and Observation Activity (LASSO) are leading the way in conducting routine LES, building large, public databases that are accessible for data science, sensitivity studies, and training for machine learning. LES will also become more routine as it becomes more accessible for individual researchers to address their scientific questions of interest. Scientific questions addressed by LES over the next 10 years are likely to include cloud organization and aggregation; aerosol cloud interactions and atmospheric chemistry (including geo-engineering); urban-scale LES; atmospheric extreme events, ranging from small-scale severe weather to wildfires; and ocean-wave-atmosphere interactions. Further LES-related research will likely grow significantly in areas related to societal impact studies of air quality and extreme weather events, applications to renewable energy forecasting and resource assessment, and aid in decision-making processes. The growth in the use of LES in atmospheric science research will drive the need for better physical process representations (e.g., cloud aerosol microphysics, radiation, and atmospheric chemistry) at the scales resolved by LES. To date, many of the process representations used by LES have been taken directly from coarser-resolution models. Promising methods for LES process representations include superdroplet and quadrature methods for microphysics, 3D approaches for radiation, and better representation of chemistry and aerosol processes. At LES resolution, land-atmosphere interactions for complex terrains, land cover/types, biogeochemistry, and plant canopy models are needed as an improvement beyond traditional and widely used Monin-Obuhkov similarity theory.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2023

Department of Energy’s Atmospheric System Research (ASR) Program’s Workshop on the Future of Atmospheric Large Eddy Simulation (LES) (Workshop Report)

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2026

Analysis of genomic signatures associated with Variovorax endosphere colonization

This repository contains the analysis code and supporting datasets associated with the study “Genomic signatures in Variovorax enabling colonization of the Populus endosphere.” Beals DG, Carper DL, Hochanadel LH, Jawdy SS, Klingeman DM, Piatkowski BT, Weston DJ, Doktycz MJ, Pelletier DA. 2026. Genomic signatures in Variovorax enabling colonization of the Populus endosphere. mSystems 11:e01605-25. https://doi.org/10.1128/msystems.01605-25 The scripts are organized sequentially (01–07) and document the workflows used for: Sequence-read alignment and feature counting Orthogroup and KEGG Ortholog annotation Count normalization Statistical analysis and aggregation Generation of manuscript figures and tables Repository contents The uncompressed files are the finalized, formatted datasets used to generate the figures and tables reported in the study, including the supplemental CSV files referenced in the manuscript. The accompanying ZIP archive contains the complete codebase and example data_input/ and data_output/ directories illustrating the organization and execution of the analytical workflow. Individual scripts identify the corresponding manuscript analyses and figure panels. Raw sequencing data Raw sequencing reads are available through the NCBI Sequence Read Archive under BioProject accession PRJNA1322484.

Beals, Delaney [ORNL] (ORCID:0000000306274574)↗

DOE OSTI2015

Deformation of forsterite polycrystals at mantle pressure: Comparison with Fe-bearing olivine and the effect of iron on its plasticity

Not Available

Bollinger, Caroline↗

DOE OSTI2019

Chain and Ion Dynamics in Precise Polyethylene Ionomers

In this paper, we analyze the dynamics from microsecond-long, atomistic molecular dynamics (MD) simulations of a series of precise poly(ethylene- co -acrylic acid) ionomers neutralized with lithium, with three different spacer lengths between acid groups on the ionomers and at two temperatures. At short times, the intermediate structure factor calculated from the MD simulations is in reasonable agreement with quasi-elastic neutron scattering data for partially neutralized ionomers. For ionomers that are 100% neutralized with lithium, the simulations reveal three dynamic processes in the chain dynamics. The fast process corresponds to hydration librations, the medium-time process corresponds to local conformational motions of the portions of the chains between ionic aggregates, and the long-time process corresponds to relaxation of the ionic aggregates. At 600 K, the dynamics are sufficiently fast to observe the early stages of lithium-ion motion and ionic aggregate rearrangements. In the partially neutralized ionomers with isolated ionic aggregates, the Li-ion-containing aggregates rearrange by a process of merging and breaking up, similar to what has been observed in coarse-grained (CG) simulations. In the 100% neutralized ionomers that contain percolated ionic aggregates, the chains remain pinned by the percolated aggregate at long times, but the lithium ions are able to move along the percolated aggregate. In this work, the ion dynamics are also qualitatively similar to those seen in previous CG simulations.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2024

Filtering higher-order datasets

Many complex systems often contain interactions between more than two nodes, known as higher-order interactions, which can change the structure of these systems in significant ways. Researchers often assume that all interactions paint a consistent picture of a higher-order dataset's structure. In contrast, the connection patterns of individuals or entities in empirical systems are often stratified by interaction size. Ignoring this fact can aggregate connection patterns that exist only at certain scales of interaction. To isolate these scale-dependent patterns, we present an approach for analyzing higher-order datasets by filtering interactions by their size. We apply this framework to several empirical datasets from three domains to demonstrate that data practitioners can gain valuable information from this approach.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2018

Temporal ensemble learning of univariate methods for short term load forecasting

Short term load forecasting (STLF) is a fundamental component of demand response programs in smart grids. Recent literature has focused on complex neural networks and deep learning models for solving STLF. While these models work well for load forecasting with complex non-linear relationships, they have been shown to be less effective than simpler univariate models for STLF problems with under a 6 hours horizon. Given the lack of multivariate data (such as temperature) in many practical datasets, we need better univariate prediction models for STLF. By partitioning the dataset by temporal features, we develop a novel ensemble learning method that exploits daily seasonality in electricity consumption data to improve accuracy of popular univariate models. We train an ensemble of models from the dataset partitions. We develop a variety of methods, including Ridge Regression, to increase the robustness of the ensemble prediction. To show the effectiveness of our approach, we perform detailed evaluation using an aggregated user electricity consumption dataset collected by the Los Angeles Department of Water and Power (LADWP). We select four popular prediction algorithms in literature for our experiments, including Kernel Regression (KR), Support Vector Regression (SVR) and neural network approaches. We compare the performance of these algorithms applying our ensemble approach to training only one single model. Our approach leads to an 11.2% decrease in mean absolute percentage error (MAPE) and 21.3% decrease in root mean squared error (RMSE) over the single model approach for KR, and a 30% and 32.4% decrease in MAPE and RMSE respectively for SVR. These ensemble models also outperform the neural network approaches.

14 SOLAR ENERGY↗

DOE OSTI2019

Impacts of Lock-off Time on Virtual Battery Model from Thermostatically Controlled Loads

We test through simulation the influence of lock-off time on the aggregated flexibility of thermostatically controllable loads (TCLs), which is modeled by virtual battery (VB) models. The VB model provides a simple but effective way to quantify the aggregated flexibility of TCLs, but its efficacy is not clear when there is lock-off time for TCLs. TCLs cannot be turned on during the lock-off period, and so lock-off time imposes inevitable restrictions on not only the flexibility of individual TCLs but also the aggregated flexibility of a group of TCLs. We first test the influence of lock-off time on the efficacy of VB models with two artificial signals. One of the signal is of low frequency while the other is of high frequency. We then use real-world data to test the influence. One set of data is from a duck curve from CAISO while the other set of data is from AGC signals from PJM. The duck curve changes slowly while the AGC signals change rapidly over time. From both the artificial signals and real-word data, we find that lock-off time has a more significant impact on rapid signals than on slow signals.

Wang, Peng↗

DOE OSTI2014

The Impact of Uncertain Physical Parameters on HVAC Demand Response

HVAC units are currently one of the major resources providing demand response (DR) in residential buildings. Models of HVAC with DR function can improve understanding of its impact on power system operations and facilitate the deployment of DR technologies. This paper investigates the importance of various physical parameters and their distributions to the HVAC response to DR signals, which is a key step to the construction of HVAC models for a population of units with insufficient data. These parameters include the size of floors, insulation efficiency, the amount of solid mass in the house, and efficiency of the HVAC units. These parameters are usually assumed to follow Gaussian or Uniform distributions. We study the effect of uncertainty in the chosen parameter distributions on the aggregate HVAC response to DR signals, during transient phase and in steady state. We use a quasi-Monte Carlo sampling method with linear regression and Prony analysis to evaluate sensitivity of DR output to the uncertainty in the distribution parameters. The significance ranking on the uncertainty sources is given for future guidance in the modeling of HVAC demand response.

Sun, Yannan↗

DOE OSTI2017

Crystal structure of chlorinated mineral of cancrinite group with bystrite-type framework

The formula of chlorinated bystrite (rare mineral of cancrinite group) has been refined to Na{sub 7.22}Ca{sub 0.92}[Al{sub 6}Si{sub 6}O{sub 24}](S{sub 5}){sub 0.94}Cl{sub 1.01}. The X-ray diffraction data on the contents of chlorine and sulfur in this mineral are confirmed by the results of chemical analysis. The bystrite cage is found to contain a (S{sub 5}){sup 2}–cluster, which is elongated along the c axis and has a chain configuration. Different ways of aggregation of sulfur atoms lead to cis- and trans-configurations of chains. Columns of cancrinite cages contain–Ca–Cl–Ca–Cl–chains, which were observed previously in the structures of minerals of davyne subgroup, afghanite, and tounkite.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2022

Nepheline Crystallization Studies and the Structural Integrity of the Residual (SIR) - FY 2022 Study Glasses

In FY22 a set of 367 HLW glasses with compositions representative of the Waste Treatment and Immobilization Plant (WTP) processing region were aggregated and analyzed with the Structural Integrity of the Residual (SIR) model developed by the Savannah River National Laboratory (SRNL). An additional 12 glasses targeting 27 – 37 wt % alumina (in glass) and at waste loadings up to ~70 wt % were fabricated and added to the database. Collectively, this data set was analyzed with regression statistics and partitioning functions to reveal correlations between boron release and the chemical composition. FY22 results indicate that the SIR theoretical alkali-silicate precipitation term, Al 2 O 3 and B 2 O 3 concentration, and SIR computed non-bridging oxygen are significant predictors of chemical durability. A statistical model using the SIR parameters was shown to have greater overall accuracy than the nepheline discriminator model while maintaining false predictions of pour durability below 1%. In FY23, we will continue this work to focus on refining the SIR with glass compositions that challenge the SIR correlation terms, namely the theoretical crystalline precipitation and non-bridging oxygen terms.

36 MATERIALS SCIENCE↗

DOE OSTI2024

Elucidating the formation mechanisms of zeolites using data-driven modelling and in-situ characterization

Zeolites are the main solid catalysts used by the chemical industry. The use of zeolites in separations and as shape selective catalysts requires control of the width and connectivity of their pores. 235 distinct zeolite frameworks have been synthesized to date, of over 2 million that have been proposed. Recent work indicates that the limitation is in large part kinetic: new synthetic pathways are required to access new zeolites. Organic cations are used to direct the synthesis towards specific zeolites. However, the molecular mechanisms by which cations direct the nucleation towards specific zeolites is not known. Elucidating these mechanisms is key to realize new zeolites for catalysis and separations, and is the focus of this project. This project developed and implemented a synergistic, data-driven computational and experimental approach to resolve the molecular pathways of nucleation, growth, and polymorph selection of zeolites and the role of organic cations in directing their formation. The project developed computationally efficient and accurate models for the study of the nucleation and growth of pure silica zeolites in molecular simulations, using machine learning with data from experiments. Simulations with these models were integrated with scanning tunneling electron microscopy, computer vision, and deep learning to unveil the molecular pathways of formation of a zeolite. Of particular interest in this project was to elucidate the role of amorphous precursors in the nucleation of the zeolite. Previous experiments indicate that zeolites are born within non-crystalline aggregates in which the silicates and organic cations have local and medium range order similar to that of the zeolite. The organic cations that direct the formation of zeolites and those that direct the formation of ordered mesoporous silicas are similar. We hypothesized that the frustrated attraction that for large organic cations leads to the formation of stable mesophases that direct the synthesis of mesoporous silicas, could promote the formation of metastable mesophases that can assist in the nucleation and polymorph selection of zeolites. The simulations resolved how structure directing agents build crystalline order and showed that mesoscopic pre-ordering occurs is not required to facilitate the nucleation of zeolites, because the synthesis occurs at high driving forces, where the barriers for nucleation are negligible. This project unveiled that polymorph selection in zeolite synthesis occurs after nucleation, opening a distinct area of control through the kinetics of growth and not through nucleation barriers.

36 MATERIALS SCIENCE↗

DOE OSTI2017

Efficient Machine Learning Approach for Optimizing Scientific Computing Applications on Emerging HPC Architectures

Efficient parallel implementations of scientific applications on multi-core CPUs with accelerators such as GPUs and Xeon Phis is challenging. This requires - exploiting the data parallel architecture of the accelerator along with the vector pipelines of modern x86 CPU architectures, load balancing, and efficient memory transfer between different devices. It is relatively easy to meet these requirements for highly structured scientific applications. In contrast, a number of scientific and engineering applications are unstructured. Getting performance on accelerators for these applications is extremely challenging because many of these applications employ irregular algorithms which exhibit data-dependent control-ow and irregular memory accesses. Furthermore, these applications are often iterative with dependency between steps, and thus making it hard to parallelize across steps. As a result, parallelism in these applications is often limited to a single step. Numerical simulation of charged particles beam dynamics is one such application where the distribution of work and memory access pattern at each time step is irregular. Applications with these properties tend to present significant branch and memory divergence, load imbalance between different processor cores, and poor compute and memory utilization. Prior research on parallelizing such irregular applications have been focused around optimizing the irregular, data-dependent memory accesses and control-ow during a single step of the application independent of the other steps, with the assumption that these patterns are completely unpredictable. We observed that the structure of computation leading to control-ow divergence and irregular memory accesses in one step is similar to that in the next step. It is possible to predict this structure in the current step by observing the computation structure of previous steps. In this dissertation, we present novel machine learning based optimization techniques to address the parallel implementation challenges of such irregular applications on different HPC architectures. In particular, we use supervised learning to predict the computation structure and use it to address the control-ow and memory access irregularities in the parallel implementation of such applications on GPUs, Xeon Phis, and heterogeneous architectures composed of multi-core CPUs with GPUs or Xeon Phis. We use numerical simulation of charged particles beam dynamics simulation as a motivating example throughout the dissertation to present our new approach, though they should be equally applicable to a wide range of irregular applications. The machine learning approach presented here use predictive analytics and forecasting techniques to adaptively model and track the irregular memory access pattern at each time step of the simulation to anticipate the future memory access pattern. Access pattern forecasts can then be used to formulate optimization decisions during application execution which improves the performance of the application at a future time step based on the observations from earlier time steps. In heterogeneous architectures, forecasts can also be used to improve the memory performance and resource utilization of all the processing units to deliver a good aggregate performance. We used these optimization techniques and anticipation strategy to design a cache-aware, memory efficient parallel algorithm to address the irregularities in the parallel implementation of charged particles beam dynamics simulation on different HPC architectures. Experimental result using a diverse mix of HPC architectures shows that our approach in using anticipation strategy is effective in maximizing data reuse, ensuring workload balance, minimizing branch and memory divergence, and in improving resource utilization.

Arumugam, Kamesh↗

DOE OSTI2014

Evidence for Radiation-Induced Disseminated Intravascular Coagulation as a Major Cause of Radiation-Induced Death in Ferrets

Purpose: The studies reported here were performed as part of a program in space radiation biology in which proton radiation like that present in solar particle events, as well as conventional gamma radiation, were being evaluated in terms of the ability to affect hemostasis. Methods and Materials: Ferrets were exposed to 0 to 2 Gy of whole-body proton or gamma radiation and monitored for 30 days. Blood was analyzed for blood cell counts, platelet clumping, thromboelastometry, and fibrin clot formation. Results: The lethal dose of radiation to 50% of the population (LD{sub 50}) of the ferrets was established at ∼1.5 Gy, with 100% mortality at 2 Gy. Hypocoagulability was present as early as day 7 postirradiation, with animals unable to generate a stable clot and exhibiting signs of platelet aggregation, thrombocytopenia, and fibrin clots in blood vessels of organs. Platelet counts were at normal levels during the early time points postirradiation when coagulopathies were present and becoming progressively more severe; platelet counts were greatly reduced at the time of the white blood cell nadir of 13 days. Conclusions: Data presented here provide evidence that death at the LD{sub 50} in ferrets is most likely due to disseminated intravascular coagulation (DIC). These data question the current hypothesis that death at relatively low doses of radiation is due solely to the cell-killing effects of hematopoietic cells. The recognition that radiation-induced DIC is the most likely mechanism of death in ferrets raises the question of whether DIC is a contributing mechanism to radiation-induced death at relatively low doses in large mammals.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

DOE OSTI2022

The Age of Evapotranspiration: Lower‐Bound Constraints From Distributed Water Fluxes Across the Continental United States

Abstract Unlike streamflow, which can be sampled in aggregate at the catchment outlet, evapotranspiration (ET) is spatially dispersed, challenging large‐scale age estimation. Here, we introduce an approach for constraining the age of ET via mass balance and present the minimum flux‐weighted age of ET across the continental United States using distributed, publicly available water flux data sets. The lower‐bound constraint on ET age can be calculated by assuming that ET is preferentially sourced from the most recent precipitation through a last‐in, first‐out algorithm. From 2012 to 2017, ET was at least several months old across large areas of the western continental United States, including in Mediterranean and (semi‐)arid climate zones and shrub and evergreen needleleaf plant communities. The primary limitation of this approach is that it provides only a minimum flux‐weighted average age to satisfy the mass balance of outgoing fluxes; true ET fluxes are composed of distributions of ages and may be composed of much older water. The primary advantage of the approach is that flux time series of precipitation and ET are sufficient to constrain ET age, and model parameterization is unnecessary. ET ages can be used to validate tracer‐aided and modeling approaches and inform studies of biogeochemistry, water‐rock interactions, and plant water sourcing under drought.

Hahm, W. J.↗

DOE OSTI2022

Verification, Validation, and Uncertainty Quantification in Thermal Hydraulics, Freeman Scholar Lecture (2019)

Engineering problems are generally solved by analytical models or computer codes. These models, in addition to conservation equations, also include many empirical relationships and approximate numerical methods. Each of these components contributes to the uncertainty in the prediction. A systematic approach to judge the applicability of the code to the intended application is needed. It starts from verification of implementation of formulation in the code, identification of important phenomena, finding relevant tests with quantified uncertainty for these phenomena, and validation of the code by comparing predictions with the relevant test data. The relevant tests must address phenomena as expected in the intended application. In case of small size or limited condition tests, the scaling analyses are needed to assess the relevancy of the tests. Finally, a statement of uncertainty in the prediction is needed. Systematic approaches are described to aggregate uncertainties from different components of the code for intended application. Here, verification, validation, and uncertainty quantifications (VVUQs) are briefly described.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

DOE OSTI2024

Evaluation of Physical Microphysical Property Retrieval Algorithms During the 2020 IMPACTS Field Campaign

The NASA Investigation of Microphysics and Precipitation for Atlantic Coast Threatening Snowstorms (IMPACTS) field campaign provides high-quality, high-altitude aircraft lidar (532 nm), radar (W-band) and in-cloud microphysical aircraft data taken during wintertime storm events impacting the United States. This study evaluates two mass-dimensional relationships (Brown and Francis (1995, BF95); Heymsfield (2014, H14) and two lidar-radar microphysical retrieval algorithms (Cloudsat and CALIPSO Ice Cloud Property Product (2C-ICE); VarPy (a variational method derived from the satellite lidar-radar data community)) to estimate aircraft-retrieved volume extinction coefficient (σ), ice water content (IWC), and effective radius (r e ) during the 2020 IMPACTS deployment. BF95 and H14 have a close 1:1 correlation (R 2 = 0.98) with in-situ observations of σ. However, only BF95 displays a linear, consistent, and almost temperature-independent low bias for IWC and r e , which likely arises from the environmental conditions used to determine each. Unlike the field-campaign-derived BF95 and H14 relationships, VarPy and 2C-ICE directly ingest the aircraft-based lidar and radar data to simulate σ, IWC, and r e . For all three microphysical parameters, VarPy and 2C-ICE retrieval errors became notably more pronounced around the dendritic growth zone (-15°C to -10°C) and near freezing (≥-5°C), which suggests that both algorithms experience difficulty addressing riming and aggregation processes and with larger particles (dendrites and plates) due in part to their simplified ice particle assumptions. However, the mean-melt diameter ice-particle assumption did yield more accurate IWC estimates, which led to slightly better overall results for VarPy.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2024

Increasing aggregate size reduces single-cell organic carbon incorporation by hydrogel-embedded wetland microbes

Abstract Microbial degradation of organic carbon in sediments is impacted by the availability of oxygen and substrates for growth. To better understand how particle size and redox zonation impact microbial organic carbon incorporation, techniques that maintain spatial information are necessary to quantify elemental cycling at the microscale. In this study, we produced hydrogel microspheres of various diameters (100, 250, and 500 μm) and inoculated them with an aerobic heterotrophic bacterium isolated from a freshwater wetland (Flavobacterium sp.), and in a second experiment with a microbial community from an urban lacustrine wetland. The hydrogel-embedded microbial populations were incubated with 13C-labeled substrates to quantify organic carbon incorporation into biomass via nanoSIMS. Additionally, luminescent nanosensors enabled spatially explicit measurements of oxygen concentrations inside the microspheres. The experimental data were then incorporated into a reactive-transport model to project long-term steady-state conditions. Smaller (100 μm) particles exhibited the highest microbial cell-specific growth per volume, but also showed higher absolute activity near the surface compared to the larger particles (250 and 500 μm). The experimental results and computational models demonstrate that organic carbon availability was not high enough to allow steep oxygen gradients and as a result, all particle sizes remained well-oxygenated. Our study provides a foundational framework for future studies investigating spatially dependent microbial activity in aggregates using isotopically labeled substrates to quantify growth.

59 BASIC BIOLOGICAL SCIENCES↗