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At least 343 records · Page 19

libwfa: Wavefunction analysis tools for excited and open‐shell electronic states

Abstract An open‐source software library for wavefunction analysis, libwfa, provides a comprehensive and flexible toolbox for post‐processing excited‐state calculations, featuring a hierarchy of interconnected visual and quantitative analysis methods. These tools afford compact graphical representations of various excited‐state processes, provide detailed insight into electronic structure, and are suitable for automated processing of large data sets. The analysis is based on reduced quantities, such as state and transition density matrices (DMs), and allows one to distill simple molecular orbital pictures of physical phenomena from intricate correlated wavefunctions. The implemented descriptors provide a rigorous link between many‐body wavefunctions and intuitive physical and chemical models, for example, exciton binding, double excitations, orbital relaxation, and polyradical character. A broad range of quantum‐chemical methods is interfaced with libwfa via a uniform interface layer in the form of DMs. This contribution reviews the structure of libwfa and highlights its capabilities by several representative use cases. This article is categorized under: Software > Quantum Chemistry Theoretical and Physical Chemistry > Spectroscopy

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

TXM-Sandbox : an open-source software for transmission X-ray microscopy data analysis

A transmission X-ray microscope (TXM) can investigate morphological and chemical information of a tens to hundred micrometre-thick specimen on a length scale of tens to hundreds of nanometres. It has broad applications in material sciences and battery research. TXM data processing is composed of multiple steps. A workflow software has been developed that integrates all the tools required for general TXM data processing and visualization. The software is written in Python and has a graphic user interface in Jupyter Notebook . Users have access to the intermediate analysis results within Jupyter Notebook and have options to insert extra data processing steps in addition to those that are integrated in the software. The software seamlessly integrates ImageJ as its primary image viewer, providing rich image visualization and processing routines. As a guide for users, several TXM specific data analysis issues and examples are also presented.

36 MATERIALS SCIENCE↗

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↗

Energy-Storing Cryogenic Carbon Capture™ for Utility and Industrial-scale Processes (Final Report)

This project leverages work completed under funding from previous U.S. Department of Energy (DOE) projects and other sources of funding around the Cryogenic Carbon Capture Process™ (CCC). The purpose of this project is to further develop a perturbation of the CCC process that stores energy called the Cryogenic Carbon Capture™ Energy Storing (CCC-ES) process. The successful completion of the tasks in this project has prepared the CCC-ES process for scaling and developed initial plans and a feasibility analysis for an engineering-scale or small-commercial scale system that can store at least 10 MWh of energy. The specific areas of work in this project are: (1) Develop a conceptual, site-specific integrated process flow diagram: Sustainable Energy Solutions (SES) developed a conceptual, site-specific plan including a process flow diagram for integrating CCC-ES at a specific location. The proposed system was based on a typical engineering-scale CCC system designed to capture 30-50 metric tonnes of CO 2 per day (TPD), with modifications and additional changes and equipment put in place to add the energy storage element to the system. The 30-50 TPD scale corresponds to the required 10 MWh of stored energy. This task includes updating simulation software for transient analysis. SES also coordinated with the Jim Bridger Power Plant in Point of Rocks, Wyoming to get site-specific data. Using these data, SES completed site-specific preliminary process flow diagrams, estimated capital and operating costs for the CCC-ES system, and used the upgraded software package to estimate the primary figures of merit. (2) Complete a technoeconomic analysis (TEA): SES completed a full-scale TEA of the CCC-ES system to meet specific success criteria. This TEA used process information from the host site selected above. (3) Technology and data gap assessment for the CCC-ES process: As part of the technology gap assessment, SES performed an assessment of the best alternative energy storage solutions including figures of merit and operational strengths and weaknesses. SES then compared the proposed system with a discussion of how it addresses the weaknesses of alternative systems, showing for example a cost of stored energy at less than $50/MWh and with a roundtrip efficiency of greater than 95%. This assessment includes technical and other risk analyses and technology gaps with research and development needs to commercialize the process by 2030. Finally, work includes a commercialization roadmap/development pathway outlining the major milestones to move to a commercially operating CCC-ES system. (4) Phase II pre-FEED project plan: SES completed a project plan for the Phase II pre-FEED analysis using the same host site as in the Phase I conceptual study.

03 NATURAL GAS↗

CHMMPP: A c++ library for constrained Hidden Markov Models

SAND2024-13027O The CHMMPP: A c++ Library for Constrained Hidden Markov Models (HMM) software supports the analysis of multivariate time series data to detect patterns using HMM. Many applications involve the detection and characterization of hidden or latent states in a complex system using observable states and variables. This software supports inference of latent states integrating both an HMM and application-specific constraints that reflect known relationships in hidden states. The CHMMPP software supports application-specific and generic methods for constrained inference. This includes a framework for customized Viterbi methods, constrained inference of hidden states with A* and integer programming methods, and various constraint-informed methods for learning HMM model parameters. CHMMPP focuses on supporting generic methods that enable the agile expression of complex sets of constraints that naturally arise in many real-world applications.

Hart, William↗

Wind Turbine Airfoil Design Tools

SAND2025-11738O Wind Turbine Airfoil Design Tools is a software tool that connects existing open-source airfoil analysis tools with optimization software to produce modern airfoil design for wind turbine applications. 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.

Maniaci, David↗

Abbreviated Report for 25-FS-011: Switch and Stitch Similar Subgraph Synthesizer

Government institutions utilize software from a wide array of development sources, including those written by large software companies, government contractors, and open-source repositories. Avoiding installation of malicious software components is an important national security endeavor. Automated analysis of previously unseen software is an active research area, and there is much research in the design of systems that compare new software artifacts to a large set of previously seen software records organized by various behaviors they contain. One attractive approach is to turn each compiled software binary into a graph representation and apply a graph similarity model that scores pairs of binaries by their relative similarity. When a pair is deemed similar, it is useful to know why, in the sense of providing explanations to security analysts regarding which portions of the software they should look into further.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗

ReactionMechanismSimulator.jl: A modern approach to chemical kinetic mechanism simulation and analysis

Abstract We present ReactionMechanismSimulator.jl (RMS), a modern differentiable software for the simulation and analysis of chemical kinetic mechanisms, including multiphase systems. RMS has already been applied to problems in combustion, pyrolysis, polymers, pharmaceuticals, catalysis, and electrocatalysis. RMS is written in Julia, making it easy to develop and allowing it to take advantage of Julia's extensive numerical computing ecosystem. In addition to its extensive library of optimized analytic Jacobians, RMS can generate and use Jacobians computed using automatic differentiation and symbolically generated analytic Jacobians. RMS is demonstrated to be faster than Cantera and Chemkin in several benchmarks. RMS also implements an extensive set of features for analyzing chemical mechanisms, including a library of easy‐to‐call plotting functions, molecular structure resolved flux diagram generation, crash analysis, traditional sensitivity analysis, transitory sensitivity analysis, and an automatic mechanism analysis toolkit. RMS implements efficient adjoint and parallel forward sensitivity analyses. We also demonstrate the ease of adding new features to RMS.

Johnson, Matthew S.↗

Nucleus++ : a new tool bridging AME and NUBASE for advancing nuclear data analysis

The newly developed software, Nucleus++ , is an advanced tool for displaying basic nuclear physics properties from NUBASE and integrating comprehensive mass information for each nuclide from Atomic Mass Evaluation. Additionally, it allows users to compare experimental nuclear masses with predictions from different mass models. Building on the success and learning experiences of its predecessor, Nucleus , this enhanced tool introduces improved functionality and compatibility. With its user-friendly interface, Nucleus++ was designed as a valuable tool for scholars and practitioners in the field of nuclear science. Finally, this article offers an in-depth description of Nucleus++ , highlighting its main features and anticipated impacts on nuclear science research.

AME↗

Synthetic Biology PacBio/JAWS QC Analysis (PBJ) v3.0

This software was designed as a sequence validation tool for the assembly of synthetic constructs. It analyzes FASTQ files against a list of reference sequences, combining the results from eight sequencing libraries to generate a summary, and the files needed to view the results in the Integrative Genomics Viewer (IGV) application for manual verification. This was developed for FASTQ files generated by PacBio sequencing, but could be used on any FASTQ files that do not have paired end reads. It can be used to analyze one - eight libraries at a time, and assumes that each construct sequence in the reference will be in each pool, however, this is not a requirement. This is used to identify which libraries of pooled sequences contains a perfect match, or fixable match to the reference file. This pipeline uses many freely available open source libraries, the value added is that in our application the steps of the pipeline are defined in Workflow Description Language (WDL) and run through the Cromwell workflow engine in Docker containers, for easy distribution and set up, as well as the user friendly html summary that is generated.

Simirenko, Lisa↗

Prefeasibility Assessment for Solar PV and Storage for Critical Community Facilities in Chernihiv, Ukraine [Slides]

A prefeasibility analysis is performed for integrating solar photovoltaics and battery energy storage at four critical facilities in Chernihiv, Ukraine. The facilities were identified by Chernihiv city officials and include Hospital No. 2, the Maternity Hospital, Secondary School No. 11, and Preschool No. 4. The analyses were performed using NREL's REopt decision-support software tool. The analysis identifies potential capacities for PV and battery energy storage to provide both economic and resilience benefits. The conceptual architecture and estimates of key summary financial and performance metrics are presented.

14 SOLAR ENERGY↗

Catalyst: Fast and flexible modeling of reaction networks

We introduce Catalyst.jl, a flexible and feature-filled Julia library for modeling and high-performance simulation of chemical reaction networks (CRNs). Catalyst supports simulating stochastic chemical kinetics (jump process), chemical Langevin equation (stochastic differential equation), and reaction rate equation (ordinary differential equation) representations for CRNs. Through comprehensive benchmarks, we demonstrate that Catalyst simulation runtimes are often one to two orders of magnitude faster than other popular tools. More broadly, Catalyst acts as both a domain-specific language and an intermediate representation for symbolically encoding CRN models as Julia-native objects. This enables a pipeline of symbolically specifying, analyzing, and modifying CRNs; converting Catalyst models to symbolic representations of concrete mathematical models; and generating compiled code for numerical solvers. Leveraging ModelingToolkit.jl and Symbolics.jl, Catalyst models can be analyzed, simplified, and compiled into optimized representations for use in numerical solvers. Finally, we demonstrate Catalyst’s broad extensibility and composability by highlighting how it can compose with a variety of Julia libraries, and how existing open-source biological modeling projects have extended its intermediate representation.

59 BASIC BIOLOGICAL SCIENCES↗

Transportation analysis and related design optimization of the Fermilab high-beta 650 MHz cryomodule

The Proton Improvement Plan-II (PIP-II) at Fermi National Accelerator Laboratory (FNAL) will create a new and vastly improved accelerator, which will be the source of high-energy particles for the experiments taking place at FNAL. The new linear accelerator (LINAC) contains several types of cryomodules, which are individual particle accelerators. The last cryomodule in the LINAC will be the High-Beta 650 (HB650), which will operate at 650 MHz. Each module is approximately 15 meters in length and 1.5 meters wide, weighs 13 tonnes, and shares many design features with three of the other cryomodules. The HB650 consists of two primary sections, the outer vacuum vessel and the components that reside within it, which will be cooled to cryogenic temperatures – the cold mass. Once assembly is complete at FNAL, it will be transported to one of three places: another location at FNAL, another national laboratory within the continental United States, or to a scientific partner in Europe. Any excitation the module experiences, such as going over rough roads when on a semitrailer, can create high stresses in components and cause failure if severe enough. Additionally, any delicate components with low resonant frequencies that match the excitation spectrum could achieve resonance, potentially causing a fatigue failure by repeated flexing. To ensure the successful transportation of the HB650, a transport analysis utilizing ANSYS simulation software has been performed on major subassemblies, as well as analysis of the subassemblies as a combined system. The optimization of components, design of support structures, and overall increasing of the lowest resonant frequencies have resulted in a cryomodule that will be better equipped to handle transportation and any large impact loads that come with it.

43 PARTICLE ACCELERATORS↗