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At least 289 records · Page 16

IsoMatchMS : Open-Source Software for Automated Annotation and Visualization of High Resolution MALDI-MS Spectra

Due to its speed, accuracy, and adaptability to various sample types, matrix-assisted laser desorption/ionization mass spectrometry (MALDI-MS) has become a popular method to identify molecular isotope profiles from biological samples. Often MALDI-MS data do not include tandem MS fragmentation data, and thus the identification of compounds in samples requires external databases so that the accurate mass of detected signals can be matched to known molecular compounds. Most relevant MALDI-MS software tools developed to confirm compound identifications are focused on small molecules (e.g., metabolites, lipids) and cannot be easily adapted to protein data due to their more complex isotopic distributions. Here, we present an R package called IsoMatchMS for the automated annotation of MALDI-MS data for multiple datatypes: intact proteins, peptides, and glycans. This tool accepts already derived molecular formulas or, for proteomics applications, can derive molecular formulas from a list of input peptides or proteins including proteins with post-translational modifications. In conclusion, visualization of all matched isotopic profiles is provided in a highly accessible HTML format called a trelliscope display, which allows users to filter and sort by several parameters such as match scores and the number of peaks matched. IsoMatchMS simplifies the annotation and visualization of MALDI-MS data for downstream analyses.

47 OTHER INSTRUMENTATION↗

Das ist der HAMMER: consistent new physics interpretations of semileptonic decays

Abstract Precise measurements of $$b\rightarrow c\tau \bar{\nu }$$ b → c τ ν ¯ decays require large resource-intensive Monte Carlo (MC) samples, which incorporate detailed simulations of detector responses and physics backgrounds. Extracted parameters may be highly sensitive to the underlying theoretical models used in the MC generation. Because new physics (NP) can alter decay distributions and acceptances, the standard practice of fitting NP Wilson coefficients to SM-based measurements of the $$R(D^{(*)})$$ R ( D ( ∗ ) ) ratios can be biased. The newly developed software tool enables efficient reweighting of MC samples to arbitrary NP scenarios or to any hadronic matrix elements. We demonstrate how allows avoidance of biases through self-consistent fits directly to the NP Wilson coefficients. We also present example analyses that demonstrate the sizeable biases that can otherwise occur from naive NP interpretations of SM-based measurements. The library is presently interfaced with several existing experimental analysis frameworks and we provide an overview of its structure.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

AGGREGATE: dAta-driven modelinG preservinG contRollable dEr for outaGe mAnagemenT and rEsiliency (Report for Task 14: Model Verification/Validation Test Plan (Deliverable D10))

This report summarizes the technical progress and validation plan for each of AGGREGATE project modules, and integrated modules. The overall validation plan can be divided into two major parts. Firstly, it provides offline validation results of each module using the IEEE-123 node distribution system with certain modifications to support individual module results verification. The offline validation plan tentatively validated the usability and practicability of developed AGGREGATE tools. Secondly, the realworld test system - Seattle City Light (SCL) test feeder for verifying each module and the integrated modules using GE advanced distribution management system (ADMS) software.

42 ENGINEERING↗

So ware-Defined Network Solutions for Science Scenarios: Performance Testing Framework and Measurements

High-performance scientific work flows utilize supercomputers, scientific instruments, and large storage systems. Their executions require fast setup of a small number of dedicated network connections across the geographically distributed facility sites. We present Software-Defined Network (SDN) solutions consisting of site daemons that use dpctl, Floodlight, ONOS, or OpenDaylight controllers to set up these connections. The development of these SDN solutions could be quite disruptive to the infrastructure, while requiring a close coordination among multiple sites; in addition, the large number of possible controller and device combinations to investigate could make the infrastructure unavailable to regular users for extended periods of time. In response, we develop a Virtual Science Network Environment (VSNE) using virtual machines, Mininet, and custom scripts that support the development, testing, and evaluation of SDN solutions, without the constraints and expenses of multi-site physical infrastructures; furthermore, the chosen solutions can be directly transferred to production deployments. By complementing VSNE with a physical testbed, we conduct targeted performance tests of various SDN solutions to help choose the best candidates. In addition, we propose a switching response method to assess the setup times and throughput performances of different SDN solutions, and present experimental results that show their advantages and limitations.

Settlemyer, Bradley↗

Incorporation of Thermal Hydraulic Models for Thermal Power Dispatch into a PWR Power Plant Simulator

This report describes the development, modeling, and results of a generic pressurized water reactor power plant simulator that incorporates coupled electrical and thermal power dispatch to an industrial process located approximately one kilometer from the nuclear power plant. The simulator is a commercial PWR simulator that has been modified to include thermal power dispatch as described in past milestone reports [ , ]. The commercial PWR simulator is a generic simulator available from GSE SYSTEMS® (Sykesville, MD, USA) that is built using RELAP5-HDTM Real-Time Solution and in-house software developed by GSE Systems. This generic PWR (GPWR) simulator performs real-time simulation of the complete power plant from the reactor neutronics to the electricity generation and distribution. All primary, secondary, and auxiliary systems are modeled including all control logic in order to provide the most accurate representation of actual nuclear power plant (NPP) operation, and the simulator results have been rigorously verified by an actual NPP operating at approximately 1 GWe. This report is a continuation of worked performed in previous years, and supplemental information from previous reports is included in the appendix for reference.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Software Quality Metrics for Geant4: An Initial Assessment - Paper 122

In the context of critical applications, such as shielding and radiation protection, ensuring the quality of simulation software they depend on is of utmost importance. The assessment of simulation software quality is crucial both to determine its adoption in experimental applications and to guarantee reproducibility of outcome over time. Geant4 is a simulation system used in a wide range of experimental applications, some of which, such as radiation protection and biomedical studies, may involve critical use cases and would especially profit from an objective assessment of the software quality. In this study, we present the first results from an ongoing analysis of Geant4 code based on established software metrics from the perspective of software engineering. The analysis evaluates the current status of the code to quantify its characteristics with respect to documented quality standards; further appraisals concern evolutions over a series of release distributions. The quantitative assessment of the software is initially focused on a subset of Geant4 packages, which play a key role in scientific applications and are representative of different software development processes. We describe the chosen software metrics that map the entities of a software system to numeric values through mathematical definitions, quantifying software attributes ranging from functionality to maintainability. To measure such metrics, we exploited a set of software metrics tools, i.e. programs that implement a set of software metrics definitions. They allow software engineers to assess a software system by extracting the required attributes from the software and providing the corresponding metric values. To correlate software metrics values in a well-defined way, we used software quality standard models, such as the ISO/IEC 9126 standard, which aggregate numerical values to aid quality analysis and assessment. With this work we aim to create a baseline for evaluating correlations between software quality embedded in the Geant4 development process and simulation observables produced by Geant4-based applications. Furthermore, we intend to highlight what metrics are most effective at evaluating radiation transport software quality. We are confident that the result will provide constructive guidance both to improve key software tools, such as Geant4, and to estimate their contribution in risk analysis concerning sensitive applications. The remainder of this paper is structured as follows. We first discuss the approach adopted to fulfil our assessment. Then, we present the setup of our experiments and the way we collected data. We provide an initial interpretation of a subset of data resulting from measurements made on the selected Geant4 packages. As the analysis is still ongoing at the time of submitting this abstract, some results will be documented in the final paper and in the conference presentation. With this work we aim to create a proper Geant4 data set for evaluating its software characteristics and identifying both strengths and weaknesses. In this initial study, we considered the geometry and processes packages, which play a major role in most simulation applications. The data analysis is in progress at the time of writing; its complexity is related to the differences among software metrics tools, to the large amount of data to be evaluated and to the pioneering character of this project. We are confident that the results will provide valuable indications for the Geant4 user community and constructive guidance to improve key Geant4 packages. Other Monte Carlo codes could profit from the methodology developed in this pilot project for similar assessments of their software quality. At the end of this study, we intend to create a baseline for evaluating correlations between software quality embedded in the Geant4 development process and simulation observables produced by Geant4-based applications. (authors)

61 RADIATION PROTECTION AND DOSIMETRY↗

LandScan Global 2023: Silver Edition

For a quarter of a century, the LandScan Global (LSG) project has annually released a global, high-resolution gridded population dataset representing the ambient or unwarned population at a 30 arcsecond resolution. LSG supports a range of applications such as emergency management, disaster response, and human health and security for understanding populations at risk. The 2023 release of LSG, the LandScan Silver Edition, represents a major methodological leap forward while also leveraging previous knowledge—the previous year was the baseline for the current annual update carrying forward valuable knowledge of the built environment for the past quarter century—to train the machine learning models. Compared with annual releases over the past 24years, multiple advancements were made to different aspects of the methodology to achieve reproducibility, transparency, and consistent global propagation of solutions to modeling or population distribution issues identified during the review process. These novel changes include incorporation of the latest available geospatial inputs across the globe, machine learning models instead of manual modifications, population feature importance analysis, open-source solutions vs. proprietary software, generation of multiple global versions, analytic validations, and human-in-the-loop revisions to produce the final version. Additionally, algorithms—such as anomaly detection—were introduced to quickly identify areas of focus to develop a new and robust systematic review. Significant changes in modeled population distributions were observed between the 2022 and 2023 releases, largely attributable to improvements in data and methods and discussed thoroughly within this report. In summation, the LandScan Silver Edition leverages the best of the past quarter century of LSG legacy knowledge and continues a tradition of applying cutting-edge enhancements to serve as a new benchmark for accurate, actionable gridded population data

Lebakula, Viswadeep↗

Metrics for Interzonal Dispersion Assessment of Airborne SARS-CoV-2 Within Office Buildings

High ventilation rate is increasingly considered as a mitigation strategy in the rapid spread of COVID-19 in existing buildings in addition to other options like UVGI and added filtration. However, this and other similar measures may also impact energy use and the efficiency of the buildings in which they are installed. Without concrete metrics, the impact of all these potential changes to the system cannot be properly assessed relative to the other impacts the measures might have, including additional energy use, added operation and maintenance costs, and reduced system life. Multizone airflow and contaminant transport simulations involving parameters such as infiltration rate, system configuration, and level of occupancy can provide critical information on relative risk distribution within a building. In this study, prototype airflow models are used to assess the degree to which ventilation-related measures can mitigate the spread of a virus like SARS-CoV-2 in a similar way that prototype energy models are used to study energy efficiency measures. A new detailed medium-sized office building prototype model is developed using the CONTAM software to represent contaminant transport in buildings like those modeled by the U.S. Department of Energy’s detailed medium office prototype model. The goal of this study is to generate a set of suitable metrics that will give a whole-building picture of airborne SARS-CoV-2 virus distributions across the different zones of the building under different parameters and scenarios.

DeGraw, Jason↗

Enhancement of EM Pump Performance through Modeling and Testing

Liquid sodium has seen development as a nuclear reactor coolant in the United States for over 50 years. While sodium has many desirable characteristics as a heat transfer fluid, its reactivity poses numerous engineering challenges for even the most basic plant components like pumps. Despite the challenges, mechanical pumps have seen success in sodium service albeit at the expense of simplicity and flexibility. In fact, significant failures of these pumps have been recorded which can be attributed to their complexity. Notwithstanding the complexity, mechanical pumps are still widely proposed for the main circuit pump of sodium cooled reactors. However, an alternative to mechanical pumps are Electromagnetic Induction Pumps (EMIPs) which use the principle of the Lorentz Force. EMIPs avoid mechanically moving parts in contact with sodium which simplifies the design by avoiding mechanical wear and seals. Therefore, these pumps are generally safer and more reliable than their mechanical counterparts. That being said, EMIPs suffer from relatively low efficiencies that range from 5% to 45%. Some of the inefficiencies are inherent to the EMIPs pumps; namely, inefficiencies arise in the form of resistive heating losses in the fluid itself. However, other inefficiencies arise from Edge Effects which include Finite Length and Finite Width effects. Due to the significant safety advantages EMIPs have compared to mechanical pumps, there is a strong motivation to integrate these technologies into the design of Generation IV liquid-metal-cooled nuclear power plants. However, EMIPs have low efficiencies partly attributed to Edge Effects. Much of the literature focusing on Edge Effects is dated or simply does not exist in the public domain. More recently, numerical models of EMIPs have shown promising results. However, these models are often custom solvers or use complex software suits which limit their application. This report describes the work completed to understand Edge Effects in two EMIPs designs. These designs are the Annular Linear Induction Pump (ALIP) and Permanent Magnet Induction Pump (PMIP) also known as a Moving Magnet Pump (MMP). The methodology developed during this project aim at measuring key performance parameters (pressure-flowrate and efficiency-slip performance) using high temperature liquid-sodium. Baseline experimental measurements were then used to verify the accuracy of numerical models developed in the software suit ANSYS/FLUENT. On the experimental side, instrumentation was developed to characterize the pressure-flowrate and efficiency-slip performance of both the ALIP and PMIP in high-temperature liquid-sodium. Additionally, instrumentation was developed to measure potential output pressure pulsations and the magnetic field distributions. Moreover, a specialized ALIP was constructed to study the impacts magnetic field tapering, also known as coil grading, on the Finite Length Effect. Lastly, experimental performance curves of the PMIP were collected at 300 oC and 600 oC and compared to analytical theory which accounted for Finite Width Effects. These results showed that the Finite Width Effect and non-uniform magnetic field in a PMIP impact the performance. On the numerical side, models were developed using the software suit FLUENT/ANSYS. These methods were initially compared against a simple MHD flow in a Permanent Magnet Electromagnet Flowmeter (PMEMFM). The results were significant in that they showed agreeance between the numerical model and demonstrated that PMEMFM’s could be calibrated numerically. These modeling methods were then applied to a prototypic PMIP. Results showed that this simple model provided reasonably accurate results of the PMIP p-Q performance.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

IEEE 1547-2018 Based Interoperable PV Inverter with Advanced Grid-Support Functions

Grid integration of photovoltaic (PV) inverters has been increasing in the past decade. As a result of the uncertainties introduced with high penetrations of PV, better monitoring and control of the PV inverters becomes crucial for improving overall system stability. This paper focuses on the communications capability of the inverter controller and on enabling interoperability. Multiple standards are available to enable interoperability in PV inverters. In this paper, an interoperable controller, enabled by Distributed Network Protocol 3 (DNP3) communications protocols, is developed for a grid-connected, three-phase PV inverter. The DNP3 server for the PV inverter is programmed on the real-time layer of the field-programmable gate array (FPGA)-based inverter controller. Set points for advanced inverter control functions, such as volt/VAr curves, ride-through curves, are sent from a DNP3 client, a simulated distribution management system application, to the PV inverter through DNP3. This communications capability of the inverter controller is validated using a controller-hardware-in-the-loop experimental setup. The code developed to achieve the interoperability is available in the public domain through open-source software licensing. This interoperability will enable smoother grid integration of smart PV inverters with advanced grid-support functions as well as allow better monitoring and control of PV inverters for grid stability.

14 SOLAR ENERGY↗

A Reference Implementation for a Quantum Message Passing Interface

Practical applications of quantum computing are currently limited by the number of qubits that can be set with reasonable fidelities for each system. Therefore, a distributed quantum computing system with multiple quantum computers coherently connected is highly demanding. To realize the internode communication of quantum information, the software interface, Quantum Message Passing Interface (QMPI), leveraging the framework built for classical MPI but taking advantage of quantum teleportation to communicate between different quantum nodes was proposed. In this project, we develop the QMPI with point-to-point and collective operations in Qiskit and characterize its performance by demonstrating the application implementations. Moreover, we developed a new technique for optimizing collective communication of the distributed quantum programs with Multi-Controlled Toffoli gates. This technique beats the state-of-the-art in terms of fidelity and the number of remote EPR pairs consumed in both simulations and experiments.

Shi, Yue↗

A Thermodynamic Model Toward the Comprehension of Ferrous Burden Softening and Melting Using FactSage Macro-Processing

The softening and melting properties of iron-bearing materials play a decisive role in the formation of the cohesive zone, which greatly affects blast furnace gas flow distribution and heat-transfer efficiency. To improve the understanding regarding the evolution of condensed phases during reduction, softening, and melting, a thermodynamic model has been developed using FactSage™ thermodynamic software and macro-processing. The model was constructed using a series of equilibrium stages and splitters to determine flow directions of streams and to consider kinetic inhibitions. For all iron-bearing materials studied, the methodology proposed for modeling was capable of obtaining reduction degrees in very good agreement to its experimental data. The evolution of solid phases was qualitatively comparable to the available literature, with Fayalite, Kirschsteinite, Melilite, and FeO as the main solid phases in equilibrium before slag formation. The comparison between the profiles of the calculated slag mass fraction and the experimental pressure drop showed a close relation between these properties. Moreover, the level of heterogeneity of each raw material may play a significant role in the interpretation of its results.

36 MATERIALS SCIENCE↗

Impact of control blade insertion on the deformation behavior of SiC-SiC channel boxes in BWRs

This article describes the analysis of distortion of a silicon carbide fiber-reinforced, silicon carbide matrix (SiC-SiC) composite channel box under in-reactor conditions of a boiling water reactor (BWR). The BWR core has significant gradients in the fast neutron flux across the channel box due to the presence of water rods within the fuel assemblies, and these gradients increase further with the insertion of control blades. As a result of the temperature and neutron flux dependent irradiation-induced swelling of SiC, the SiC-SiC composite channel box can undergo distortion. In this work, we evaluate the SiC-SiC channel box distortion for three different control blade positions. This analysis is based on the neutron flux and temperature distributions in the BWR core calculated using the neutronics code MPACT and thermal-hydraulics code CTF. This calculation is coupled through temperature feedback. Subsequently, we have performed structural analysis based on the calculated neutron flux and temperature distributions to determine the deformation and stress development in the channel box. The structural analysis was performed using the fuel performance modeling code BISON and the commercial finite element analysis software Abaqus. The results indicate that large gradients in fast neutron flux (up to 35–40% across a single axial level) will develop across the channel box. Due to these gradients, the channel box will undergo time-dependent bending for all the control blade positions in the assembly. The time-dependent bowing behavior is dominated by the transient swelling of SiC-SiC material under non-uniform neutron flux, and changes with variation in the control blade position. The bending will cause temporary interference between the channel box and control blade, and the interference is expected to be most severe for the fully inserted control blade position. The developed stresses due to differential swelling in the channel box exceed the proportional limit stress of the material, which may cause matrix microcracking in the channel box. However, the stresses remain below the tensile strength of the material, and therefore, development of a full, through-thickness crack in the channel box is not expected. Finally, further work is recommended to explore and evaluate the mitigation strategies.

42 ENGINEERING↗

Water Network Tool for Resilience Version 0.1

Water utilities are vulnerable to a wide variety of human-caused and natural disasters. These disruptive events can result in loss of water service, contaminated water, pipe breaks, and failed equipment. Furthermore, long term changes in water supply and customer demand can have a large impact on the operating conditions of the network. The ability to maintain drinking water service during and following these types of events is critical. Simulation and analysis tools can help water utilities explore how their network will respond to disruptive events and plan effective mitigation strategies. The U.S. Environmental Protection Agency and Sandia National Laboratories are developing new software tools to meet this need. The Water Network Tool for Resilience (WNTR, pronounced winter) is a Python package designed to help water utilities investigate resilience of water distribution systems over a wide range of hazardous scenarios and to evaluate resilience-enhancing actions. The following documentation includes installation instructions and examples, description of software features, and software license. It is assumed that the reader is familiar with the Python Programming Language.

42 ENGINEERING↗

Impact of Control Blade Insertion on the Deformation Behavior of SiC-SiC Channel Boxes in Boiling Water Reactors

This report describes the analysis of distortion of a Silicon carbide fiber-reinforced silicon carbide matrix (SiC-SiC) composite channel box under in-reactor conditions of a boiling water reactor (BWR). The BWR core has significant gradients in the fast neutron flux across the channel box due to the presence of water rods within the fuel assemblies, and these gradients increase further with the insertion of control blades. As a result of temperature and neutron flux dependent irradiation induced swelling of SiC, the SiC-SiC composite channel box can undergo significant distortion. In this work, we evaluate the SiC-SiC channel box distortion for three different control blade positions. This analysis is based on the neutron flux and temperature distributions in the BWR core calculated using the neutronics code MPACT and thermalhydraulics code CTF. This calculation is coupled through temperature feedback. Subsequently, we have performed structural analysis based on the calculated neutron flux and temperature distributions, to determine the deformation and stress development in the channel box. The structural analysis was performed using the fuel performance modeling code BISON and the commercial finite element analysis software Abaqus. The results indicate that the channel box will undergo time dependent lateral bowing for all the control blade positions in the assembly. The bowing behavior is dominated by the swelling of SiC-SiC material under non-uniform neutron flux, and changes with variation in the control blade position. The lateral bending will cause a temporary interference between the channel box and the control blade. The developed stresses exceed the proportional limit stress of the material, which may cause matrix microcracking in the channel box. However, the stresses remain below the ultimate tensile strength of the material, and therefore, development of a full, through thickness crack in the channel box is not expected.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Controllers for Distributed Grid Support for Power Systems using Hybrid DER plants with Electrolyzers [SWR-20-06]

This software presents the design and control for a hybrid DER site with integrated dispatchable electrolyzers. It is a comprehensive solution for regulating the dispatch of electrolyzer demand to support the grid using the respective control functions. Multiple control functions (ramp control, frequency support control, dispatch prioritization) are developed to integrate the proposed site for multiple services around load, voltage and frequency control. This allows the site owners to participate in both distribution and bulk system energy markets for grid ancillary services.

Jain, Rishabh↗

Mochi: Composing Data Services for High-Performance Computing Environments

Technology enhancements and the growing breadth of application workflows running on high-performance computing (HPC) platforms drive the development of new data services that provide high performance on these new platforms, provide capable and productive interfaces and abstractions for a variety of applications, and are readily adapted when new technologies are deployed. The Mochi framework enables composition of specialized distributed data services from a collection of connectable modules and subservices. Rather than forcing all applications to use a one-size-fits-all data staging and I/O software configuration, Mochi allows each application to use a data service specialized to its needs and access patterns. This paper introduces the Mochi framework and methodology. The Mochi core components and microservices are described. Examples of the application of the Mochi methodology to the development of four specialized services are detailed. Finally, a performance evaluation of a Mochi core component, a Mochi microservice, and a composed service providing an object model is performed. The paper concludes by positioning Mochi relative to related work in the HPC space and indicating directions for future work.

97 MATHEMATICS AND COMPUTING↗