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At least 739 records · Page 41

Usability and Optimization Improvements in MOOSE

The Multiphysics Object-Oriented Simulation Environment (MOOSE) framework is a foundational capability used by the Nuclear Energy Advanced Modeling and Simulation (NEAMS) program to create over 15 different simulation tools for advanced nuclear reactors. Due to MOOSE’s broad use, improvements to the framework in support of modeling and simulation goals are critical to the program. Such improvements can take many forms, including optimization, improved user experience, streamlined application programming interfaces (APIs), parallelism, and new capabilities. The work described in this report was conducted in direct support of the simulation tools and has already been deployed. The capabilities were implemented in the same order as they are covered in this report: multiple nonlinear systems in the same input file, implementation of generic field transfers and other transfer system enhancements, support for stateful material property redistribution for adaptivity and distributed meshes, and dynamic linking and loading of individually compiled applications. These four additions are fundamental capabilities that will be leveraged by many NEAMS applications.

97 MATHEMATICS AND COMPUTING↗

Reusability First: Toward FAIR Workflows

The FAIR principles of open science (Findable, Accessible, Interoperable, and Reusable) have had transformative effects on modern large-scale computational science. In particular, they have encouraged more open access to and use of data, an important consideration as collaboration among teams of researchers accelerates and the use of workflows by those teams to solve problems increases. How best to apply the FAIR principles to workflows themselves, and software more generally, is not yet well understood. We argue that the software engineering concept of technical debt management provides a useful guide for application of those principles to workflows, and in particular that it implies reusability should be considered as ‘first among equals’. Moreover, our approach recognizes a continuum of reusability where we can make explicit and selectable the tradeoffs required in workflows for both their users and developers.To this end, we propose a new abstraction approach for reusable workflows, with demonstrations for both synthetic workloads and real-world computational biology workflows. Through application of novel systems and tools that are based on this abstraction, these experimental workflows are refactored to rightsize the granularity of workflow components to efficiently fill the gap between end-user simplicity and general customizability. Our work makes it easier to selectively reason about and automate the connections between trade-offs across user and developer concerns when exposing degrees of freedom for reuse. Additionally, by exposing fine-grained reusability abstractions we enable performance optimizations, as we demonstrate on both institutional-scale and leadership-class HPC resources.

Wolf, Matthew↗

CatMass : software for calculating optimal sample masses for X-ray absorption spectroscopy experiments involving complex sample compositions

This paper presents software for calculating the optimal mass of samples with complex compositions ( e.g. supported metal catalysts) for X-ray absorption spectroscopy (XAS) and scattering measurements. The ability to calculate the sample mass and other relevant parameters needed for an XAS measurement allows experimentalists to be better prepared in terms of detector selection, energy range of scan and overall time needed to complete the measurement, thus increasing efficiency. CatMass builds on existing sample mass calculators allowing users to determine the optimum sample preparation, collection geometry, usable energy range for a scan and approximate edge step of the absorption event. Visualization tools present the absorption calculation results in a format familiar to XAS experimentalists, with the added ability to save calculations and plots for future reference or recalculation. CatMass is a program broadly applicable in catalysis and is helpful for users with complex samples due to composition/stoichiometry or multiple competing elements.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

TripleGraph

RDF triplestores are great tools for online graph analytic processing (i.e., graph pattern query processing), but they do not provide graph mining capabilities (e.g., PageRank, connected-component analysis, node eccentricity, etc.). The software title “TripleGraph” is a graph analysis toolkit, which uses an RDF triplestore as its backend for creating, manipulating, mining, and programming with large scale property graphs. It allows users to run various graph mining algorithms easily. User can import edgelist-formatted (homogeneous graph) or JSON-formatted graph (property graph) into the RDF triplestore using the provided tool and perform various analysis such as (1) Node/edge retrieval and manipulation, (2) Pathfinding between two given nodes, (3) Running graph mining algorithms (PageRank/Personalized PageRank, Single Source Shortest Path/Multi-Source Shortest Path, Connected Component, Node Eccentricity, Peer Pressure Clustering). It supports standard graph data format and works with a standard SPARQL endpoint like Jena Fuseki. It allows users to perform online graph analytic processing and graph mining on the same platform (a triplestore).

Sangkeun, MattLee↗

The UCLA Cosmochemistry Database

Abstract The UCLA Cosmochemistry Database was initiated as part of a data-rescue and -storage project aimed at archiving a variety of cosmochemical data acquired at University of California, Los Angeles (UCLA). The data collection includes elemental compositions of extraterrestrial materials analyzed by UCLA cosmochemists over the last five decades. The analytical techniques include atomic absorption spectrometry (AAS) and neutron activation analysis (NAA) at UCLA. The data collection is stored on the Astromaterials Data System (Astromat). We provide both interactive tables and downloadable datasheets for users to access all data. The UCLA Cosmochemistry Database archives cosmochemical data that are essential tools for increasing our understanding of the nature and origin of extraterrestrial materials. Future studies can reference the data collection in the examination, analysis, and classification of newly acquired extraterrestrial samples.

Science & Technology - Other Topics↗

Design and performance of AI agents interfacing with an atomic layer deposition tool

In this work, we introduce the design of an atomic layer deposition (ALD) reactor augmented with an AI interface for autonomous materials synthesis. Our modular design encapsulates the particularities of the hardware behind a Python interface that communicates with the ALD control software via transmission control protocol. This interface is compatible with model context protocol interfaces used in agentic frameworks. We have integrated our tool with a simple AI agent that leverages a large language model to transform user-supplied queries into ALD processes that are then run in our reactor. Our approach uses a JavaScript object notation schema to encode ALD processes. Our experimental results show that the AI interface does not impose a significant overhead to our control software, at least within our fastest 10 ms scale. We also carried out a detailed evaluation of the agent performance using leading models in two classes of tasks: basic instruction and process discovery tasks, where the agent is presented with a target material and needs to identify the correct ALD process compatible with the reactor configuration. Despite the simplicity of our agent design, we observed that most of the advanced models excelled at the instruction tasks. However, only recent models, such as o1, o3, GPT-5, and Claude Opus 4, performed well in process discovery tasks. We also observed significant variability in the response for the hardest challenges. While the results obtained are promising, we identify areas where AI research could improve the performance of agents for ALD.

47 OTHER INSTRUMENTATION↗

SCC (Step characteristics calculator) [SWR-21-80]

The SCC software calculates the step response characteristics based on the data collected from the plant. The tools available to characterize the step response needs a plant model. Our tool calculates the characteristics based on the data captured from the plant. This prevents the user from building a plant model and directly calculates the response.

Prabakar, Kumaraguru↗

SPAROW: Stochastic Programming and Related Optimization Workflows

SAND2026-16703O SPAROW: Stochastic Programming and Related Optimization Workflows is a Python library tool that facilitates the development and solution of stochastic programming problems. It provides a user-friendly class structure for defining stochastic programs through scenario-based representations of uncertainties. SPAROW incorporates multiple optimization strategies, including integer programming with all scenarios, progressive hedging, Benders decomposition, and Snoglode, a novel technique developed by Carnegie Mellon University. It also features interfaces to external solvers and functions that are commonly used in analysis workflows, making it applicable to a wide range of scientific and engineering design challenges, particularly in power grid planning. 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.

Hart, William [Sandia National Lab. (SNL-NM), Albu↗

New capabilities of the MORET 6 Monte Carlo neutron transport code

The MORET code is a simulation tool that solves the transport equation for neutrons using the Monte Carlo method. It allows users to model complex three-dimensional geometrical configurations in a user-friendly way. New features have been introduced to extend the application field of MORET beyond the usual criticality calculations for which it has been initially designed. The most important change is the addition of an analog fixed source mode which allows studies of systems of any reactivity combined with very flexible outputs. Other useful improvements have been added concerning the geometric part, the fission matrix, the multigroup sensitivity coefficients and the outputs. This paper presents an overview of these new features. (authors)

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

NEAMS Workbench Workflows

Modeling and simulation efforts frequently involve loosely coupled workflows. Automation of workflows, data exchanges, and simulation software execution is a productive and often desired feature or improvement for enhancing consistency of results and productivity of the analyst. It facilitates cross-collaboration of different analysts of multidisciplinary simulation by streamlining data exchange processes across local and high performance computing resources. This report proposes a high-level, extensible workflow module to enable consistent and efficient use of tools integrated into the Nuclear Energy Advanced Modeling and Simulation (NEAMS) Workbench with as little user intervention as possible.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Developing a GUI for the Robotic Test Stand

The introduction of this poster explains the technology behind DUNE’s far and near detectors and how passing neutrinos generate electrons that drift into a wire grid. I then explain how 3 ASICs manage signals received from electron interception. Next, the poster states how COLDATA chips are undergoing quality control by a Robotic Test Stand using a state machine. I further explained how earlier tests were done via a command line script and the necessity to implement a user-friendly Graphical User Interface with new features a command line can’t implement. For the implementation section, tools and methods for implementation are listed such as Python, tkinter, and GitHub as well as how multithreading and queue implementation was necessary for GUI functionality. Then, I elaborated on the GUIs new features. Finally, I explain how the GUI will be distributed across multiple institutions and future changes planned for the GUI. Photos of the RTS, far detector cave, diagram of anode assembly plane, COLDATA chips, set up tab, result tab, and legacy command line interface are shown.

Gutierrez Villanueva, Jaziel [DuPage Coll.]↗

An Exploratory Approach Using Regression and Machine Learning in the Analysis of Mass Absorption Cross Section of Black Carbon Aerosols: Model Development and Evaluation

Mass absorption cross-section of black carbon (MAC BC ) describes the absorptive cross-section per unit mass of black carbon, and is, thus, an essential parameter to estimate the radiative forcing of black carbon. Many studies have sought to estimate MAC BC from a theoretical perspective, but these studies require the knowledge of a set of aerosol properties, which are difficult and/or labor-intensive to measure. We therefore investigate the ability of seven data analytical approaches (including different multivariate regressions, support vector machine, and neural networks) in predicting MAC BC for both ambient and biomass burning measurements. Our model utilizes multi-wavelength light absorption and scattering as well as the aerosol size distributions as input variables to predict MAC BC across different wavelengths. We assessed the applicability of the proposed approaches in estimating MAC BC using different statistical metrics (such as coefficient of determination (R 2 ), mean square error (MSE), fractional error, and fractional bias). Overall, the approaches used in this study can estimate MAC BC appropriately, but the prediction performance varies across approaches and atmospheric environments. Based on an uncertainty evaluation of our models and the empirical and theoretical approaches to predict MAC BC , we preliminarily put forth support vector machine (SVM) as a recommended data analytical technique for use. We provide an operational tool built with the approaches presented in this paper to facilitate this procedure for future users.

54 ENVIRONMENTAL SCIENCES↗

Energy I-Corps 2023: Distributed Wind Energy Toolkit

This presentation covers the purpose and scope of an Energy I-Corps project focused on refining a suite of analytical tools designed to support distributed wind deployment. These tools - the Distributed Generation Market Demand (dGen), Distributed Wind Tools Assessing Performance (TAP), and the Hybrid Optimization and Performance Platform (HOPP) - combine to provide users with the ability to simulate consumer purchasing behavior, accurately assess wind resource to better predict turbine performance, and effectively design and optimize hybrid systems that include distributed wind.

deployment↗

An Integrated Testbed for Trojans in Printed Circuit Boards with Fuzzing Capabilities

This paper showcases an all-in-one testing environment that combines Trojan detection and fuzzing capabilities for printed circuit boards using the OpenPLC “NYU Trojan Edition” and a dedicated Trojan detection framework. The demo system is self-contained and equipped with two OpenPLC-based boards (one with a Trojan and one without), and automated tools for inserting the Trojan and collecting side-channel data. We developed a graphical user interface for interactive Trojan selection, data visualization, and anomaly detection analysis.

Trojan detection, anomaly detection, PCB, timing l↗

CRISPR-COPIES: Web Tool

CRISPR/Cas system has emerged as a powerful genome-editing tool for metabolic engineering and human gene therapy. However, the conundrum of where to integrate heterologous genes on the chromosome using the CRISPR/Cas system remains an open question. Selecting a site for gene integration requires incorporation of complex criteria such as factors involved in CRISPR/Cas-mediated integration, genetic stability, and gene expression and therefore, usually requires strenuous characterization of sites on particular or different chromosomal locations. To address these issues, we developed CRISPR-COPIES, a COmputational Pipeline for the Identification of CRISPR/Cas-facilitated intEgration Sites. The tool applies ScaNN, a state-of-the-art model on the embedding-based nearest neighbor search for fast and accurate off-target search and can identify genome-wide intergenic sites for most bacterial and fungal genomes within minutes. This submission contains the code we developed to create a user-friendly web interface for CRISPR-COPIES (https://biofoundry.web.illinois.edu/copies/). We anticipate CRISPR-COPIES will serve as a useful tool for targeted DNA integration and aid in the characterization of synthetic biology toolkits, rapid strain construction to produce valuable biochemicals, and human gene and cell therapy.

Bioinformatics↗

Mapping Support for Targeted Critical Minerals Exploration and Extraction

The United States’ dependency on imported minerals poses significant risks to economic stability and national security due to potential supply disruptions. Recognizing the strategic importance of critical minerals, the Department of Energy (DOE) emphasizes the need for a secure and resilient supply chain to support emissions reduction, technology development, and capitalization on clean energy opportunities. The DOE’s Office of Manufacturing and Energy Supply Chains (MESC), in collaboration with the Office of Policy (OP), addresses these vulnerabilities by focusing on upstream domestic critical minerals production, balancing extraction with social and environmental goals, including conservation, environmental justice, and respect for Tribal sovereignty. This report showcases a collaborative effort involving Idaho National Laboratory (INL), Argonne National Laboratory (Argonne), National Renewable Energy Laboratory (NREL), and the U.S. Geological Survey (USGS) to map mineral development potential along with key social and environmental datasets. A geographical information system (GIS)-based web map application was developed as a preliminary tool for environmental analysis, integrating 158 geospatial data layers such as critical habitat, land ownership, economic indicators, and environmental concerns. Data were sourced from agencies like the Bureau of Land Management (BLM) and USGS and processed using GIS technology to enhance visualization and analysis. The proposed analysis framework categorizes areas into high, mid, and low concern based on withdrawn lands, special status species, the Economic Development Capacity Index (EDCI) Mining Composite Index, and the Climate and Economic Justice Screening Tool (CEJST). While the application provides broad visualizations, it is not a substitute for detailed environmental reviews required under the National Environmental Policy Act (NEPA). Users must conduct further analyses and engage with tribal entities and other stakeholders for comprehensive planning. A case study of the Idaho Cobalt Belt (ICB) in Lemhi County, Idaho, has been provided in the report to illustrate the tool's practical use. This report introduces a GIS application and framework to support stakeholders in identifying and prioritizing areas for critical mineral exploration, promoting secure supply chains, and advancing the nation's energy independence through responsible resource stewardship.

54 ENVIRONMENTAL SCIENCES↗

Fisher Forecasting for the DESC with $\texttt{Augur}$

The Vera C. Rubin Observatory Legacy Survey of Space and Time (LSST) has begun its ten-year survey of the entire visible southern hemisphere. To ensure robust cosmological measurements, computationally inexpensive investigations of modeling choices must be made to gauge the performance of proposed cosmological analyses. In this paper, we introduce the $\texttt{Augur}$ tool of the Dark Energy Science Collaboration (DESC), which provides Fisher forecasts for cosmological inference for the LSST using software frameworks designed for DESC science. We test the pipeline by comparing it to forecasts produced by external code and direct sampling of the posterior via nested sampling methods, finding good agreement between all methods. We additionally investigate a range of modeling and hyperparameter choices for a 3$\times$2pt investigation in harmonic space, providing users with diagnostics to obtain reliable forecasts. $\texttt{Augur}$ will be continually updated to be compatible with the other tools in the DESC software ecosystem as additional probes and functionality become available.

Rogozenski, Paul [Carnegie Mellon U.; Arizona U.] ↗

Automated Energy-Dispersive X-ray Spectroscopy Analysis for Multi-Modal Few-Shot Learning

Scanning transmission electron microscopy (STEM) is a powerful tool that allows for the atomic-scale analysis of a materials’ structure, chemistry, and defect domains (Akers et al. 2021). The current generation of microscopes generate vast amounts of data, surpassing the limits of effective manual analysis traditionally performed by domain experts (Spurgeon et al. 2021). While recent strides in machine learning have significantly enhanced the processing of large and intricate datasets acquired through electron microscopy, the prevalent use of proprietary software packages for initial data collection poses a challenge. In many cases, these software packages act as a ‘black box’, constraining user functionality and hindering the output of data in a format that is conducive to seamless integration into machine learning models. This work addresses these challenges by adapting HyperSpy, an open-source Python library, for the analysis and quantification of raw energy dispersive spectroscopy (EDS) data acquired through STEM. The modified HyperSpy code successfully facilitates user-defined segmentation of the data, enabling the integration of atomic %, weight %, and raw EDS spectra for each segmented region into an existing few-shot machine learning model. While initial results reveal discrepancies in quantified atomic and weight percentages when compared to proprietary software, ongoing efforts aim to rectify this issue by refining the fit of the HyperSpy model to the EDS spectra. Overall, this research underscores the potential of open-source tools like HyperSpy to enhance the accessibility of analytical tools, fostering a transparent and user-friendly environment for seamlessly incorporating electron microscopy data into machine learning models.

36 MATERIALS SCIENCE↗