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At least 1,459 records · Page 81

By Hand or Not By-Hand: A Case Study of Alternative Approaches to Parallelize CFD Applications

While parallel processing promises to speed up applications by several orders of magnitude, the performance achieved still depends upon several factors, including the multiprocessor architecture, system software, data distribution and alignment, as well as the methods used for partitioning the application and mapping its components onto the architecture. The existence of the Gorden Bell Prize given out at Supercomputing every year suggests that while good performance can be attained for real applications on general purpose multiprocessors, the large investment in man-power and time still has to be repeated for each application-machine combination. As applications and machine architectures become more complex, the cost and time-delays for obtaining performance by hand will become prohibitive. Computer users today can turn to three possible avenues for help: parallel libraries, parallel languages and compilers, interactive parallelization tools. The success of these methodologies, in turn, depends on proper application of data dependency analysis, program structure recognition and transformation, performance prediction as well as exploitation of user supplied knowledge. NASA has been developing multidisciplinary applications on highly parallel architectures under the High Performance Computing and Communications Program. Over the past six years, the transition of underlying hardware and system software have forced the scientists to spend a large effort to migrate and recede their applications. Various attempts to exploit software tools to automate the parallelization process have not produced favorable results. In this paper, we report our most recent experience with CAPTOOL, a package developed at Greenwich University. We have chosen CAPTOOL for three reasons: 1. CAPTOOL accepts a FORTRAN 77 program as input. This suggests its potential applicability to a large collection of legacy codes currently in use. 2. CAPTOOL employs domain decomposition to obtain parallelism. Although the fact that not all kinds of parallelism are handled may seem unappealing, many NASA applications in computational aerosciences as well as earth and space sciences are amenable to domain decomposition. 3. CAPTOOL generates code for a large variety of environments employed across NASA centers: MPI/PVM on network of workstations to the IBS/SP2 and CRAY/T3D.

Yan, Jerry C.↗

Data-driven Modeling for Grid Edge IBRs: A Digital Twin Perspective of User-Defined Models

Recent events in Odessa have brought attention to the challenges associated with the interaction between Inverter- Based Resources (IBRs) and the transmission and distribution system. The NERC event diagnosis report has highlighted sev- eral issues, emphasizing the need for continuous performance monitoring of these IBRs by system operators. Key areas of concern include the mismatch of control and protection perfor- mance of IBRs between the original equipment manufacturer (OEM)-provided models and field measurements. The inability to replicate the realistic response can result in incorrect reliability and resilience studies. In this paper, we developed an approach on how to emulate the behavior of an IBR using measurement data obtained for system operators to utilize in real-time and long- term planning. Two experiments are conducted in the phasor domain and electromagnetic transients (EMT) domain to emulate the behavior for grid forming and grid following inverters under various operating conditions and the effectiveness of the proposed model is demonstrated in terms of accuracy and ease of utilizing user-defined models (UDMs)

Mahapatra, Kaveri [BATTELLE (PACIFIC NW LAB)]↗

Accessorizing Building Science – A Web Platform to Support Multiple Market Transformation Programs

As demand for improved energy efficiency in homes increases, builders need information on the latest findings in building science, rapidly ramping-up energy codes, and technical requirements for labeling programs. The Building America Solution Center is a Department of Energy (DOE) website containing hundreds of expert guides designed to help residential builders install efficiency measures in new and existing homes. Builders can package measures with other media for customized content. Website content provides technical support to market transformation programs such as ENERGY STAR and has been cloned and adapted to provide content for the Better Buildings Residential Program. The Solution Center uses the Drupal open source content management platform to combine a variety of media in an interactive manner to make information easily accessible. Developers designed a unique taxonomy to organize and manage content. That taxonomy was translated into web-based modules that allow users to rapidly traverse structured content with related topics, and media. We will present information on the current design of the Solution Center and the underlying technology used to manage the content. The paper will explore development of features, such as “Field Kits” that allow users to bundle and save content for quick access, along with the ability to export PDF versions of content. Finally, we will discuss development of an Android based mobile application, and a visualization tool for interacting with Building Science Publications that allows the user to dynamically search the entire Building America Library.

Madison, Michael C.↗

Oklahoma Mesonet Soil Moisture (OKMSOIL) Value-Added Product Report

Land surface and subsurface state characteristics (e.g., soil moisture) are critical measurements for ongoing weather and climate analyses of land-atmospheric interactions and processes. Knowledge of the variation in soil moisture across the U.S. Department of Energy Atmospheric Radiation Measurement (ARM) user facility’s Southern Great Plains (SGP) observatory domain is anticipated as a key quantity for assessing the potential impact of these interactions. This Oklahoma Mesonet Soil Moisture (OKMSOIL) value-added product (VAP) has been developed in response to growing demand for delivering a long-term measurement record of soil moisture (over an extended area) for such land-atmospheric studies. The Oklahoma Mesonet (OKM) started as a joint project between Oklahoma State University and the University of Oklahoma (Brock 1995). The OKM currently operates over 100 surface Mesonet stations across the state of Oklahoma, with an operational data record that extends into the early 1990s. This dense network of atmospheric and surface state instrumentation enables representation of land surface/subsurface conditions over this region and extended record. Algorithms introduced by previous Oklahoma Mesonet activities (e.g., Scott et al. 2013) are implemented in this documented OKMSOIL VAP to derive a key soil moisture quantity, the volumetric water content (volume of water per volume of soil in units, cm 3 /cm 3 ), from measurements of soil matric potential. These algorithms use a soil hydraulic parameter database (Meso-Soil Database) provided by the Oklahoma Mesonet scientists to estimate this quantity and several additional Mesonet station/sample details.

54 ENVIRONMENTAL SCIENCES↗

Oklahoma Mesonet Soil Moisture (OKMSOIL) Value-Added Product Report

Land surface and subsurface state characteristics (e.g., soil moisture) are critical measurements for ongoing weather and climate analyses of land-atmospheric interactions and processes. Knowledge of the variation in soil moisture across the U.S. Department of Energy Atmospheric Radiation Measurement (ARM) user facility’s Southern Great Plains (SGP) observatory domain is anticipated as a key quantity for assessing the potential impact of these interactions. This Oklahoma Mesonet Soil Moisture (OKMSOIL) value-added product (VAP) has been developed in response to growing demand for delivering a long-term measurement record of soil moisture (over an extended area) for such land-atmospheric studies. The Oklahoma Mesonet (OKM) started as a joint project between Oklahoma State University and the University of Oklahoma (Brock 1995). The OKM currently operates over 100 surface Mesonet stations across the state of Oklahoma, with an operational data record that extends into the early 1990s. This dense network of atmospheric and surface state instrumentation enables representation of land surface/subsurface conditions over this region and extended record. Algorithms introduced by previous Oklahoma Mesonet activities (e.g., Scott et al. 2013) are implemented in this documented OKMSOIL VAP to derive a key soil moisture quantity, the volumetric water content (volume of water per volume of soil in units, cm 3 /cm 3 ), from measurements of soil matric potential. These algorithms use a soil hydraulic parameter database (Meso-Soil Database) provided by the Oklahoma Mesonet scientists to estimate this quantity and several additional Mesonet station/sample details.

58 GEOSCIENCES↗

MSD CoP Webinar: "Advances in MSD-LIVE to Support the MSD Community of Practice"

Context: This webinar was hosted by the MultiSector Dynamics Community of Practice (MSD CoP; https://multisectordynamics.org). Advances in MSD-LIVE to Support the MSD Community of Practice Presenters: Casey Burleyson and Zoe Guillen (Pacific Northwest National Laboratory) Abstract: The MultiSector Dynamics Living, Intuitive, Value-adding, Environment (MSD-LIVE; msdlive.org) is a cloud-based data management system and advanced computing platform that enables MSD researchers to document and archive their data, run their models and analysis tools, and share their data, software, and workflows within the MSD Community of Practice. Recently, several high-profile datasets have attracted many new users to MSD-LIVE. This webinar has two goals: 1) To refamiliarize the MSD community and new users with the components of the platform (e.g., the data repository, model training notebooks, and data dashboards) and to highlight examples of how these components are advancing MSD science and 2) To demonstrate new features in v3 of the platform, released in late 2025. The main new feature in v3 is the ability to interactively explore data in MSD-LIVE without downloading it. MSD-LIVE users can now click a button in our data repository and launch a blank Jupyter notebook with access to the underlying data on AWS. Users can use the notebook to write analysis, visualization, or subsetting routines that process the data directly on the AWS cloud. We also added a GitHub integration feature that allows users to share analysis or visualization code they develop with the community of MSD-LIVE users. The webinar will wrap up with a look at what's coming next for MSD-LIVE in 2026. Moderator: Patrick M. Reed (MSD CoP Facilitation Team) This webinar was held on: May 12th, 2026 from 1-2 PM EST.

Open Science↗

PTM‐Psi : A python package to facilitate the computational investigation of p ost‐ t ranslational m odification on p rotein s tructures and their i mpacts on dynamics and functions

Abstract Post‐translational modification (PTM) of a protein occurs after it has been synthesized from its genetic template, and involves chemical modifications of the protein's specific amino acid residues. Despite of the central role played by PTM in regulating molecular interactions, particularly those driven by reversible redox reactions, it remains challenging to interpret PTMs in terms of protein dynamics and function because there are numerous combinatorially enormous means for modifying amino acids in response to changes in the protein environment. In this study, we provide a workflow that allows users to interpret how perturbations caused by PTMs affect a protein's properties, dynamics, and interactions with its binding partners based on inferred or experimentally determined protein structure. This Python‐based workflow, called PTM‐Psi , integrates several established open‐source software packages, thereby enabling the user to infer protein structure from sequence, develop force fields for non‐standard amino acids using quantum mechanics, calculate free energy perturbations through molecular dynamics simulations, and score the bound complexes via docking algorithms. Using the S ‐nitrosylation of several cysteines on the GAP2 protein as an example, we demonstrated the utility of PTM‐Psi for interpreting sequence–structure–function relationships derived from thiol redox proteomics data. We demonstrate that the S ‐nitrosylated cysteine that is exposed to the solvent indirectly affects the catalytic reaction of another buried cysteine over a distance in GAP2 protein through the movement of the two ligands. Our workflow tracks the PTMs on residues that are responsive to changes in the redox environment and lays the foundation for the automation of molecular and systems biology modeling.

59 BASIC BIOLOGICAL SCIENCES↗

User interface and payload command and control

Two tasks comprise this overall effort. The first is concerned with developing a modular, machine independent workstation design, science operations interface language and interaction techniques. Design concepts and prototype demonstration of a state of the art prototype workstation are to be based on defining user requirements by determining user interface modes, reflecting needs in space and on ground. The second task aims at generating a command and control system design concept for supporting telescience - a concept for independent science user operations within an operations envelope.

Source record↗

Virtual Design Studio (VDS) - Development of an Integrated Computer Simulation Environment for Performance Based Design of Very-Low Energy and High IEQ Buildings

Executive Summary The objective of this study was to develop a “Virtual Design Studio (VDS)”: a software platform for integrated, coordinated and optimized design of green building systems with low energy consumption, high indoor environmental quality (IEQ), and high level of sustainability. This VDS is intended to assist collaborating architects, engineers and project management team members throughout from the early phases to the detailed building design stages. It can be used to plan design tasks and workflow, and evaluate the potential impacts of various green building strategies on the building performance by using the state of the art simulation tools as well as industrial/professional standards and guidelines for green building system design. Engaged in the development of VDS was a multi-disciplinary research team that included architects, engineers, and software developers. Based on the review and analysis of how existing professional practices in building systems design operate, particularly those used in the U.S., Germany and UK, a generic process for performance-based building design, construction and operation was proposed. It distinguishes the whole process into five distinct stages: Assess, Define, Design, Apply, and Monitoring (ADDAM). The current VDS is focused on the first three stages. The VDS considers building design as a multi-dimensional process, involving multiple design teams, design factors, and design stages. The intersection among these three dimensions defines a specific design task in terms of “who”, “what” and “when”. It also considers building design as a multi-objective process that aims to enhance the five aspects of performance for green building systems: site sustainability, materials and resource efficiency, water utilization efficiency, energy efficiency and impacts to the atmospheric environment, and IEQ. The current VDS development has been limited to energy efficiency and IEQ performance, with particular focus on evaluating thermal performance, air quality and lighting environmental quality because of their strong interaction with the energy performance of buildings. The VDS software framework contains four major functions: 1) Design coordination: It enables users to define tasks using the Input-Process-Output flow approach, which specifies the anticipated activities (i.e., the process), required input and output information, and anticipated interactions with other tasks. It also allows task scheduling to define the work flow, and sharing of the design data and information via the internet. 2) Modeling and simulation: It enables users to perform building simulations to predict the energy consumption and IEQ conditions at any of the design stages by using EnergyPlus and a combined heat, air, moisture and pollutant simulation (CHAMPS) model. A method for co-simulation was developed to allow the use of both models at the same time step for the combined energy and indoor air quality analysis. 3) Results visualization: It enables users to display a 3-D geometric design of the building by reading BIM (building information model) file generated by design software such as SketchUp, and the predicted results of heat, air, moisture, pollutant and light distributions in the building. 4) Performance evaluation: It enables the users to compare the performance of a proposed building design against a reference building that is defined for the same type of buildings under the same climate condition, and predicts the percent of improvements over the minimum requirements specified in ASHRAE Standard 55-2010, 62.1-2010 and 90.1-2010. An approach was developed to estimate the potential impact of a design factor on the whole building performance, and hence can assist the user to identify areas that have most pay back for investment. The VDS software was developed by using C++ with the conventional Model, View and Control (MVC) software architecture. The software has been verified by using a simple 3-zone case building. The application of the VDS concepts and framework for building design and performance analysis has been illustrated by using a medium-sized, five story office building that received LEED Platinum Certification from USGBC.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

The Keck Task Library (KTL)

KTL is a set of routines which eases the job of writing applications which must interact with a variety of underlying sub-systems (known as services). A typical application is an X Window user interface coordinating telescope and instruments. In order to connect to a service, application code specifies a service name--typically an instrument name--and a style, which defines the way in which the application will interact with the service. Two styles are currently supported: keyword, where the application reads and writes named keywords and the resulting inter-task message traffic is hidden; and message, where the application deals directly with messages. The keyword style is intended mainly for user interfaces, and the message style is intended mainly for lower-level applications. KTL applications are event driven: a typical application first connects to all its desired services, then expresses interest in specified events. The application then enters an event dispatch loop in which it waits for events and calls the appropriate service's event-handling routine. Each event is associated with a call-back routine which is invoked when the event occurs. Call-back routines may (and typically do) interact with other sub-systems and KTL provides the means of doing so without blocking the application (vital for X Window user interfaces). This approach is a marriage of ideas culled from the X window, ADAM, Keck instrument, and Keck telescope control systems. A novel feature of KTL is that it knows nothing about any services or styles. Instead it defines a generic set of routines which must be implemented by all services and styles (essentially open(), ioctl(), read(), write(), event(), and close()) and activates sharable libraries at run-time. Services have been implemented (in both keyword and message styles) for HIRES (the Keck high resolution echelle spectrograph built by Lick Observatory), LWS (the Keck long wavelength spectrometer built by UC San Diego), and the Keck telescope. Each of these implementations uses different underlying message systems: the Lick MUSIC system, RPC's, and direct sockets (respectively). Services for the remaining three front-line Keck instruments will be implemented over the next few months.

Lupton, W. F.↗

Experimental Assessment of a Novel Touchless Interface for Intraprocedural Imaging Review

Purpose: To examine the feasibility of a novel technology platform that enables real-time touchless interaction with radiology images in both a simulated and an actual clinical setting. Materials and Methods: This platform offers three different modes for image interaction. The gesture recognition mode uses a depth camera to detect the user’s hand gestures which are translated to image manipulation commands. The light projection mode uses the same camera to detect finger point-and-tap movements above the icons which are projected on a surface to activate the commands. The capacitive sensing mode is enabled by a handheld, portable device, over which finger movements are detected by capacitive sensors to control the image review. Following initial feedback, light projection and capacitive sensing modes were selected for further testing by comparing with the conventional mode of image interaction in time trials for performing a series of standardized image manipulation tasks. Finally, the usability of the technology platform was examined in actual clinical procedures. Results: The light projection and the capacitive sensing modes were evaluated in the time trials and exhibited 60% and 71% reduction in time, respectively, relative to the control mode (p < 0.001). Clinical feasibility for this platform was demonstrated in three actual interventional radiology cases. Conclusion: Accessing, navigating, and extracting relevant information from patient images intraprocedurally are cumbersome and time-consuming tasks that affect safety, efficiency, and decision-making during image-guided procedures. This study demonstrated that the novel technology addressed this issue by allowing touchless interaction with these images in the sterile field.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

AdaNET prototype library administration manual

The functions of the AdaNET Prototype Library of Reusable Software Parts is described. Adopted from the Navy Research Laboratory's Reusability Guidebook (V.5.0), this is a working document, customized for use the the AdaNET Project. Within this document, the term part is used to denote the smallest unit controlled by a library and retrievable from it. A part may have several constituents, which may not be individually tracked. Presented are the types of parts which may be stored in the library and the relationships among those parts; a concept of trust indicators which provide measures of confidence that a user of a previously developed part may reasonably apply to a part for a new application; search and retrieval, configuration management, and communications among those who interact with the AdaNET Prototype Library; and the AdaNET Prototype, described from the perspective of its three major users: the part reuser and retriever, the part submitter, and the librarian and/or administrator.

Hanley, Lionel↗

Alfalfa Virtual Building Service: Software Engineering Best Practices Applied to Runtime Interaction with Building Energy Models

Buildings are active participants in increasingly complex energy systems. Building Energy Modeling (BEM) has a key role to play in planning and de-risking an equitable energy transition, with BEM-backed "virtual buildings" critical path for diverse applications that include workforce training tools, Hardware-in-the-Loop (HIL) experimentation to study equipment performance under a range of conditions, Control-Hardware-in-the-Loop (CHIL) experimentation to de-risk commercial control implementations at equipment through grid orchestration levels, and integration of dynamic load profiles into grid modeling tools for energy system experimentation at the urban scale. Modeling requirements vary across these applications, but many software engineering tasks do not. The Alfalfa Virtual Building Service (AVBS, see https://github.com/NREL/alfalfa/wiki) is an open-source web service that solves these common tasks robustly in one place, providing a foundational platform for power users to bootstrap their own applications. AVBS abstracts the specifics of runtime interaction with OpenStudio, Modelica, and Spawn of EnergyPlus models behind a unified REST API. Additionally, AVBS provides resources for cloud deployment and scaling to 100s of parallel simulations, a growing library of modular Operational Technology (OT) integrations for emulation of real-world interfaces, and scripts to automate the population of communities of virtual buildings from URBANopt, ResStock and ComStock.

building automation↗

An evaluation of the NASA scientific and technical information system

The best assessment of a scientific and technical information system is obtained from users. NASA has conducted system evaluation studies by talking with those the system is intended to serve - engineers and scientists working in their professional roles. The purpose was to assess the usefulness of the present system and to identify areas and ways in which the system can be made more effective. Emphasis was placed on NASA's announcement and current awareness media, its publication program, and its interactive retrieval system (RECON). The results show that the system is responsive to users' needs in most areas. Specific areas for improvement are identified and the steps NASA has taken are outlined. The major effect was a vastly improved communication with the users regarding what is available and how these resources can assist in solving information problems.

Pryor, H. E.↗

Visualizing Mars Using Virtual Reality: A State of the Art Mapping Technique Used on Mars Pathfinder

We describe an interactive terrain visualization system which rapidly generates and interactively displays photorealistic three-dimensional (3-D) models produced from stereo images. This product, first demonstrated in Mars Pathfinder, is interactive, 3-D, and can be viewed in an immersive display which qualifies it for the name Virtual Reality (VR). The use of this technology on Mars Pathfinder was the first use of VR for geologic analysis. A primary benefit of using VR to display geologic information is that it provides an improved perception of depth and spatial layout of the remote site. The VR aspect of the display allows an operator to move freely in the environment, unconstrained by the physical limitations of the perspective from which the data were acquired. Virtual Reality offers a way to archive and retrieve information in a way that is intuitively obvious. Combining VR models with stereo display systems can give the user a sense of presence at the remote location. The capability, to interactively perform measurements from within the VR model offers unprecedented ease in performing operations that are normally time consuming and difficult using other techniques. Thus, Virtual Reality can be a powerful a cartographic tool. Additional information is contained in the original extended abstract.

Stoker, C.↗

3.0 - MOOSE: Enabling massively parallel multiphysics simulations

The development of MOOSE has kept accelerating since the last release, with over 2,100 pull requests merged over the last 30 months that involved nearly fifty contributors across close to a dozen institutions internationally. The growth in MOOSE's capabilities and downstream applications is reflected in the growth of the community. User support provided on the GitHub discussions forum has steadily increased to nearly 50 daily interactions. New simulation projects, notably to model advanced nuclear reactor and fusion devices, are driving a significant expansion of the capabilities. This paper reports on these developments, with several major released features, new physics modules, and key improvements to the user experience and simulation workflow.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

NASA-IGES Translator and Viewer

NASA-IGES Translator (NIGEStranslator) is a batch program that translates a general IGES (Initial Graphics Exchange Specification) file to a NASA-IGES-Nurbs-Only (NINO) file. IGES is the most popular geometry exchange standard among Computer Aided Geometric Design (CAD) systems. NINO format is a subset of IGES, implementing the simple and yet the most popular NURBS (Non-Uniform Rational B-Splines) representation. NIGEStranslator converts a complex IGES file to the simpler NINO file to simplify the tasks of CFD grid generation for models in CAD format. The NASA-IGES Viewer (NIGESview) is an Open-Inventor-based, highly interactive viewer/ editor for NINO files. Geometry in the IGES files can be viewed, copied, transformed, deleted, and inquired. Users can use NIGEStranslator to translate IGES files from CAD systems to NINO files. The geometry then can be examined with NIGESview. Extraneous geometries can be interactively removed, and the cleaned model can be written to an IGES file, ready to be used in grid generation.

Chou, Jin J.↗

Guiding the choice of informatics software and tools for lipidomics research applications

Progress in mass spectrometry lipidomics has led to a rapid proliferation of studies across biology and biomedicine. These generate extremely large raw datasets requiring sophisticated solutions to support automated data processing. To address this, numerous software tools have been developed and tailored for specific tasks. However, for researchers, deciding which approach best suits their application relies on ad hoc testing, which is inefficient and time consuming. Here we first review the data processing pipeline, summarizing the scope of available tools. Next, to support researchers, LIPID MAPS provides an interactive online portal listing open-access tools with a graphical user interface. This guides users towards appropriate solutions within major areas in data processing, including (1) lipid-oriented databases, (2) mass spectrometry data repositories, (3) analysis of targeted lipidomics datasets, (4) lipid identification and (5) quantification from untargeted lipidomics datasets, (6) statistical analysis and visualization, and (7) data integration solutions. Detailed descriptions of functions and requirements are provided to guide customized data analysis workflows.

59 BASIC BIOLOGICAL SCIENCES↗