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DOE OSTI2022

Bioimaging Science Program: 2022 Principal Investigator Meetings Proceedings

The mission of the U.S. Department of Energy’s (DOE) Biological and Environmental Research (BER) program’s Bioimaging Science Program (BSP) is to understand the translation of genomic information into the mechanisms that power living cells, communities of cells, and whole organisms. The goal of BSP is to develop new imaging and measurement technologies to visualize the spatial and temporal relationships of key metabolic processes governing phenotypic expression in plants and microbes. The extended goal of dynamic imaging is to functionally connect cellular components and interdependent organisms. Information about the time and place of chemical reactions in situ can identify causal relationships between biological activators and downstream effectors. BSP held its annual PI meeting virtually February 28–March 1. Contributing investigators are convened to review progress and current state-of-the-art bioimaging research. Holding the 2022 BSP meeting as part of the broader Genomic Science Program (GSP) PI meeting allowed researchers to interact with the extended GSP community. This convergence provided a platform for networking and exchange of ideas with experts in other technologies and in target BSP application areas, helping to forge new multidisciplinary collaborations among investigators from the sister programmatic areas within BER’s Biological Systems Science Division. An important highlight of the BSP meeting was the keynote presentation by Nobel Laureate Dr. Joachim Frank on Time-Resolved Macromolecular Imaging using Cryo-EM. He discussed microfluidic mixing and fast freezing to capture nonequilibrium intermediate states during molecular binding and conformational changes. The action of molecular machines can be captured at nanometer resolution and millisecond discrimination. BSP PIs made presentations describing their research focus and progress in plenary sessions on bioimaging science and on quantum-enabled bioimaging science research projects. BSP research at universities and DOE laboratories is presented in this report. A final discussion of the BSP was organized by meeting plenary session chairs, who prepared the following Executive Summary of current BSP research, research challenges, future opportunities, and potential ideas for expanding the BSP’s impact and interactions.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2022

Energy Equity and Environmental Justice Summit Report 2022

Pacific Northwest National Laboratory (PNNL) hosted a limited-engagement Energy Equity and Environmental Justice (EEEJ) Summit on September 28, 2022, with the Department of Energy (DOE) Office of Economic Impact and Diversity (DOE-ED) and DOE national laboratories: Argonne National Laboratory, Idaho National Laboratory, Lawrence Livermore National Laboratory, National Renewable Energy Laboratory, Oak Ridge National Laboratory, Sandia National Laboratories, and Savannah River National Laboratory. The goal of the Summit was for labs to highlight their capabilities in the EEEJ space and connect them to DOE-ED’s mission and goals as well as share lessons learned and best practices in our various programmatic spaces. The event commenced with an opening address from Director Shalanda Baker (DOE-ED), which included a call to action for the national labs. Three presentation panels followed, giving insights to the programs stewarded by national laboratories that are currently taking steps to enhance the way science is implemented through equity and justice lenses. A roundtable discussion concluded the Summit and highlighted lessons learned, gaps, challenges, opportunities, and future needs that will improve the impact and partnership of EEEJ work at DOE, national laboratories, at other agencies and institutions, and in other programmatic areas. Interest among participants to stay connected and coordinated and to partner on EEEJ work across labs was emphasized, including a suggestion to establish an intra-laboratory community of practice.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2023

Challenges and successes in establishing a multipurpose fuels and materials irradiation capsule [Slides]

This presentation discusses the challenges and success related to designing and fabricating multipurpose capsules for irradiation experiments for irradiation within the Advanced Test Reactor (ATR) to be presented at tje DEVICE-MTR irradiation experiment design working group meeting hosted by the Japanese Atomic Energy Agency (JAEA). The information herein is limited to the design of the capsules only and no programmatic information from any project supporting the design of the multipurpose capsule is discussed. The intent of the design team was establish a capsule design that could accommodate multiple different irradiation project needs for the irradiation of nuclear fuel and materials of interest in the nuclear field. The main points of the presentation are as follows: use of tin as a molten thermal bond material was selected for the fueled capsule design and was found to be inadequate as it would corrode the stainless steel at high temperatures, this capsule design has high sensitivity to manufacturing of the gas gap and control of the gas mixture, and the fueled capsule has experienced welding challenges with the inner capsule material 800H Incoloy.

42 ENGINEERING↗

DOE OSTI2024

The Compelling Need for a Mid-Scale Stellarator Facility

In the pursuit of the goal of commercial fusion as an abundant and safe source of energy, the stellarator is a leading concept with compelling attractiveness and demonstrated performance. A new mid-size stellarator is needed to retire risks and innovate towards a high performance, economically attractive, stellarator Fusion Pilot Plant. In this presentation we, as a community of US researchers from Universities, National Laboratories, and Private Industry, involved in studying the stellarator concept, lay out the programmatic and technical motivation for a new and modern mid-size stellarator research facility. A new mid-scale stellarator is needed to realize the potential predicted by a solid body of theory and simulation along with advances in computational tools for optimization and non-linear turbulence modeling. Notably, it is possible to combine the advantages of the stellarator (steady state, no current drive, no disruptions) with the good confinement regularly achieved in tokamaks. The top priorities for experimental work, and the motivation for a mid-scale stellarator experiment are: turbulence control, non-resonant divertor, MHD stability at large beta, confinement of fast particles, and coil simplification. A new mid-size quasi-symmetric stellarator, built as a user facility, would complement existing research at Wendelstein 7-X and LHD and strongly augment private industry. It would provide a program of innovative research, concept validation, theoretical advancement, and workforce development. Growing support and interest for stellarators by the fusion community and private industry affirms this rationale.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2021

Edge counts for the auxiliary pair graph within the graphical unitary group approach

Closed-form expressions are presented for the numbers of edges in the auxiliary pair graphs (APGs) associated with non spin-orbit and spin-orbit Shavitt graphs for full configuration interaction expansions. A Shavitt graph is a visual representation of a configuration state function expansion space constructed via the graphical unitary group approach (GUGA). An APG is an organisational aid and a programmatic tool generated from a Shavitt graph. The number of edges in an APG determines bounds on the computational scaling as a function of the total numbers of electrons, orbitals, and spin multiplicities. The edge counts extend a suite of Shavitt graph statistics based on these functional parameters. The derivation and the presentation of the formulas for the edge counts has been assisted by the bra-ket interchange symmetry and the particle-hole interchange symmetry in the GUGA formalism. Furthermore, these symmetry operators produce one-to-one correspondences between various sets of edges, and this yields identities among some edge count formulas. There are 208 possible edge types. Of these, some do not contribute to two-electron operators, some are related by bra-ket interchange symmetry, and some are related by particle-hole interchange symmetry. For the remaining unique edge types, explicit expressions are derived for the numbers of edges.

74 ATOMIC AND MOLECULAR PHYSICS↗

DOE OSTI2025

Monitoring Methods for Early Detection of Inadvertent Fission Product Release at the Advanced Test Reactor

Isotope effluent data obtained during three instances of experiment failures at the Advanced Test Reactor (ATR) are analyzed to provide an overview of the methods used to detect initial signs of unintended fission product release. The data is contextualized with the operational experience, including means of identification and subsequent mitigation strategies, gained during these events. General trends as well as variations in isotopic behavior between the three failures are explored. Background on the Real Time Monitor, a High Purity Germanium detector, and other fission product monitoring systems utilized at the Advanced Test Reactor is also provided. The presented analysis was used to establish administrative action levels which are currently utilized by ATR for early detection of experiment fission product release. Early identification provides time to make programmatic decisions before approaching safety and environmental limits.

21 - SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLAN↗

DOE OSTI2024

White paper on light sterile neutrino searches and related phenomenology

This white paper provides a comprehensive review of our present understanding of experimental neutrino anomalies that remain unresolved, charting the progress achieved over the last decade at the experimental and phenomenological level, and sets the stage for future programmatic prospects in addressing those anomalies. It is purposed to serve as a guiding and motivational "encyclopedic" reference, with emphasis on needs and options for future exploration that may lead to the ultimate resolution of the anomalies. We see the main experimental, analysis, and theory-driven thrusts that will be essential to achieving this goal being: 1) Cover all anomaly sectors -- given the unresolved nature of all four canonical anomalies, it is imperative to support all pillars of a diverse experimental portfolio, source, reactor, decay-at-rest, decay-in-flight, and other methods/sources, to provide complementary probes of and increased precision for new physics explanations; 2) Pursue diverse signatures -- it is imperative that experiments make design and analysis choices that maximize sensitivity to as broad an array of these potential new physics signatures as possible; 3) Deepen theoretical engagement -- priority in the theory community should be placed on development of standard and beyond standard models relevant to all four short-baseline anomalies and the development of tools for efficient tests of these models with existing and future experimental datasets; 4) Openly share data -- Fluid communication between the experimental and theory communities will be required, which implies that both experimental data releases and theoretical calculations should be publicly available; and 5) Apply robust analysis techniques -- Appropriate statistical treatment is crucial to assess the compatibility of data sets within the context of any given model.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

DOE OSTI2023

Phenopacket-tools: Building and validating GA4GH Phenopackets

The Global Alliance for Genomics and Health (GA4GH) is a standards-setting organization that is developing a suite of coordinated standards for genomics. The GA4GH Phenopacket Schema is a standard for sharing disease and phenotype information that characterizes an individual person or biosample. The Phenopacket Schema is flexible and can represent clinical data for any kind of human disease including rare disease, complex disease, and cancer. It also allows consortia or databases to apply additional constraints to ensure uniform data collection for specific goals. We present phenopacket-tools, an open-source Java library and command-line application for construction, conversion, and validation of phenopackets. Phenopacket-tools simplifies construction of phenopackets by providing concise builders, programmatic shortcuts, and predefined building blocks (ontology classes) for concepts such as anatomical organs, age of onset, biospecimen type, and clinical modifiers. Phenopacket-tools can be used to validate the syntax and semantics of phenopackets as well as to assess adherence to additional user-defined requirements. The documentation includes examples showing how to use the Java library and the command-line tool to create and validate phenopackets. We demonstrate how to create, convert, and validate phenopackets using the library or the command-line application. Source code, API documentation, comprehensive user guide and a tutorial can be found at https://github.com/phenopackets/phenopacket-tools. The library can be installed from the public Maven Central artifact repository and the application is available as a standalone archive. The phenopacket-tools library helps developers implement and standardize the collection and exchange of phenotypic and other clinical data for use in phenotype-driven genomic diagnostics, translational research, and precision medicine applications.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2021

Field validation of an actuated convergent-beam acoustic Doppler profiler for high resolution flow mapping

Abstract Energetic river and tidal flow environments feature complex hydrodynamic conditions. Conventional acoustic Doppler profiling instrumentation typically requires assumptions of flow homogeneity over the spatial scales of the divergent beam separation. This removes the ability to measure spatio-temporal variability within the flow. However, velocity variability within these spatial scales is often important in the design of structures and devices exposed to such flow, informing dynamic and peak hydrodynamic load predictions. The research presented outlines the development and testing of a flow measurement instrument consisting of multiple spatially-separated single beam acoustic Doppler profilers converging on a remote focal point, the location of which can be programmatically adjusted through actuation. This increases the spatial resolution at which remote field measurements can be made in energetic flow environments. Field testing of the instrument was conducted in a tidal channel at Sequim Bay Inlet, WA, USA. Results are compared with independent reference measurements made by a co-located, motion-corrected acoustic Doppler velocimeter. This comparison, across tidal velocities of 0.4–0.7 m s −1 , showed a mean velocity error of 0.5%–13.2% across nine sample locations within a 3.00 m × 2.25 m plane. To the authors’ knowledge, this is the first publication of flow velocity results from non-intrusive acoustic measurements at an off-axis, focal point location that features 3D positional control.

13 HYDRO ENERGY↗

DOE OSTI2023

Packaging Plan for Mark-18A Plutonium Oxide

Mark-18A (Mk-18A) targets were irradiated at the Savannah River Site and have been in wet storage at the site since the 1970s. The Mk-18A Target Material Recovery Program has been established to recover the 244 Pu and heavy curium (≥50% 246 Cm and 248 Cm) in the targets at the Savannah River National Laboratory (SRNL) and ship the materials to Oak Ridge National Laboratory’s (ORNL’s) Radiochemical Engineering Development Center for programmatic use. Two products will be recovered from the Mk- 18A targets for shipment from SRNL to ORNL: a plutonium oxide stream and an oxide material that will contain the americium, curium, and lanthanides. This document presents the plan for packaging of the plutonium oxide material for shipment and storage at ORNL.

98 NUCLEAR DISARMAMENT, SAFEGUARDS, AND PHYSICAL P↗

DOE OSTI2023

ERSAP: Toward Better NP Data-Stream Analytics With Flow-Based Programming

This paper presents an reactive, actor-model and FBP paradigm based framework that we develop to design data-stream processing applications for HEP and NP. This framework encourages a functional decomposition of the overall data processing application into small mono-functional artifacts. Artifacts that are easy to understand, develop, deploy and debug. The fact that these artifacts (actors) are programmatically independent they can be scaled and optimized independently, which is impossible to do for components of the monolithic application. One of the important advantages of this approach is fault tolerance where independent actors can come and go on the data-stream without forcing the entire application to crash. Furthermore, it also makes it is easy to locate the faulty actor in the data pipeline. Due the fact that the actors are loosely coupled, and that the data (inevitably) carries the context, they can run on heterogeneous environments, utilizing different accelerators. This paper describes the main design concepts of the framework and presents a ?proof of concept? application design and deployment results obtain processing on-beam calorimeter streaming data.

Gyurjyan, V.↗

DOE OSTI2020

Prospects for fundamental physics with LISA

In this paper, which is of programmatic rather than quantitative nature, we aim to further delineate and sharpen the future potential of the LISA mission in the area of fundamental physics. Given the very broad range of topics that might be relevant to LISA,we present here a sample of what we view as particularly promising fundamental physics directions. We organize these directions through a “science-first” approach that allows us to classify how LISA data can inform theoretical physics in a variety of areas. For each of these theoretical physics classes, we identify the sources that are currently expected to provide the principal contribution to our knowledge, and the areas that need further development. Overall, the classification presented here should not be thought of as cast in stone, but rather as a fluid framework that is amenable to change with the flow of new insights in theoretical physics.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2022

Simulating Energy and Security Interactions in Semiconductor Manufacturing: Insights from the Intel Minifab Model

Semiconductor manufacturing is a highly complex. Fabrication plants must deal with re-entrant flows to support multiple types of wafers being produced simultaneously, each with their own deadlines and specifications. The manufacturing process itself depends upon the ability to control and programmatically adjust a variety of environmental conditions including temperature, humidity, and air quality. In addition, wafer fabrication consumes large amounts of electricity. Emerging technologies may help reduce the energy footprint of such facilities but can introduce cybersecurity risks. Therefore, this paper presents a modeling and simulation framework to quantify tradeoffs between operational measures of performance, energy consumption, and cybersecurity controls. We augment the Intel Minifab model, with the Purdue Enterprise Reference Architecture (PERA) for cybersecurity as well as tool-level energy consumption data from a real-world semiconductor manufacturing testbed. In this manner, we intend to provide stakeholders with a systematic, data-driven approach to evaluate emerging risks within the manufacturing process.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

DOE OSTI2024

Summary of Developing a Hanford Grout Modeling Framework Initial Workshop

The “Development of the Hanford Grout Modeling Framework” project as part of the Network of National Laboratories for Environmental Management and Stewardship (NNLEMS) funding program is underway. An initial project team workshop was held in Richland, WA on June 4 and 5, 2024 with participants from PNNL, SRNL, SNL, WRPS and CRESP (VU and UCF). The workshop covered an overview of the current state of the art in grout modeling tools provided by the team. Based on a focus on liquid waste immobilization grout and encapsulation grout for solid wastes and tank closure grout at Hanford, the team identified preliminary conceptual models for these three applications which will be used to form the basis of the Hanford Grout Modeling Framework. The key processes that can drive mechanisms impacting the grout performance were identified for each test case. The programmatic plan was also identified with five core Themes being selected that will form the focus of the project. Within each theme, individual tasks for Year 1 were planned in support of the development of an updated Hanford Grout Modeling Framework. This report presents a summary of the information presented during the workshop.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

DOE OSTI2021

Demonstrating SolarPILOT’s Python API Through Heliostat Optimal Aimpoint Strategy Use Case

SolarPILOT is a software package that generates solar field layouts and characterizes the optical performance of concentrating solar power (CSP) tower systems. SolarPILOT was developed by the National Renewable Energy Laboratory (NREL) as a stand-alone desktop application but has also been incorporated into NREL’s1 System Advisor Model (SAM) in a simplified format. Prior means for user interaction with SolarPILOT have included the application’s graphical interface, the SAM routines with limited configurability, and through a built-in scripting language called “LK.” This paper presents a new, full-featured, Python-based application programmable interface (API) for SolarPILOT, which we hereafter refer to as CoPylot. CoPylot provides access to all SolarPILOT’s capabilities to generate and characterize power tower CSP systems seamlessly through Python. Supported capabilities include (i) creating and destroying a model instance with message reporting tools; (ii) accessing and setting any SolarPILOT variable including custom land boundaries for field layouts; (iii) programmatically managing receiver and heliostat objects with varied attributes for systems with multiple receiver or heliostat types; (iv) generating, assigning, and modifying solar field layouts including the ability to set individual heliostat locations, aimpoints, soiling rates, and reflectivity levels; (v) simulating solar field performance; (vi) returning detailed results describing performance of individual heliostats, the aggregate field, and receiver flux distribution; and, (vii) exporting Python-based model instances to multiple file formats. CoPylot enables Python users to perform detailed CSP tower analysis utilizing either the Hermite expansion technique (analytical) or the SolTrace ray-tracing engine. In addition to CoPylot’s functionality, Python users have access to the over 100,000 open-source libraries to develop, analyze, optimize, and visualize power tower CSP research. This enables CSP researchers to perform analysis that was previously not possible through SolarPILOT’s existing interfaces. This paper discusses the capabilities of CoPylot and presents a use case wherein we demonstrate optimal solar field aiming strategies.

41 EE - Solar Energy Technologies Office (EE-4S)↗

DOE OSTI2026

Agentic framework for programmatic crystal structure generation using a fine-tuned worker–supervisor large language model

Platinum group metals (PGMs) underpin many catalytic technologies but face severe supply constraints, motivating the search for alternative materials and computational methods to accelerate discovery. While atomistic simulation tools such as Pymatgen and ASE have streamlined structure manipulation, they require detailed inputs, limiting accessibility for experimentalists and slowing early-stage exploration. Here, in this study, we present an AI-driven agentic framework that orchestrates worker–supervisor large language models (LLMs). The worker translates natural-language prompts of varying abstraction into valid crystallographic structures using a compact LLM fine-tuned with low-rank adaptation on a curated text–code–CIF dataset, emphasizing energy-efficient training. Benchmarking against the baseline CodeGen-350M-mono model shows that fine-tuning reduces hallucination rates from 100% to as low as 5% and improves structural match accuracy to up to 82% for fully specified inputs. Accuracy declines with decreasing prompt detail but remains nontrivial even when only stoichiometry and space group are provided, underscoring the LLM’s capacity for crystallographic inference. The supervisor Claude LLM evaluates the outputs and triggers iterative refinement through the worker’s built-in structure manipulation capabilities (e.g., supercell scaling, strain, vacancy, and substitution operations). We further demonstrate use cases for technologically relevant catalysts, including IrO 2 , pyrochlore Pb 2 Ir 2 O 7 , Ni 2 FeO 4 , and Ni 3 Mo, where the framework generates physically consistent structures that can be refined via geometry optimization. This work introduces a low-energy, language-driven pathway for integrating human and machine intelligence in materials design, paving the way for AI-assisted synthesis planning and high-throughput screening of complex oxides.

AI agent↗

DOE OSTI2020

Parallel-in-Time Multigrid Methods for Hyperbolic Problems, with a Focus on the Shallow Water Equations

The coming massive parallelism of exascale computing presents a pressing challenge for the many DOE simulations of time-dependent partial differential equations, which typically use traditional sequential time stepping methods. Since this traditional approach is inherently serial, it presents a sequential bottleneck when moving to exascale computing, because future performance gains will come through greater concurrency, not faster clock speeds. Thus, the goal of this work is to research parallelism in time, i.e., methods that compute multiple time values simultaneously, not sequentially. The focus will be on hyperbolic problems of programmatic interest to DOE, with the goal of enabling scalable simulations of time-dependent hyperbolic problems on future architectures. The difficulty lies in the fact that hyperbolic problems are well-known to be difficult for parallel-in-time methods, with the most common parallel-in-time method, Parareal, diverging in many cases. Here, the chosen methodology for scalably solving these hyperbolic space-time equations is multigrid-reductionin-time (MGRIT), because multigrid (when it works) is a powerful, optimal, and scalable solver for discretized PDEs. To further research in this area, this project will explore a model hyperbolic problem (the shallow water equations) in the context of recent advances (e.g., by Wingate and Haut) in constructing improved coarse time-grid time-propagators by using the slow asymptotic structure of the equations. In particular, we will investigate if such coarse time-propagators offer significant advantages in an MGRIT setting, and explore any broader insights gained into parallel-in-time for hyperbolic problems.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2021

Parallel Multigrid in Time and Space for Extreme-Scale Computational Science

97 MATHEMATICS AND COMPUTING↗