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DOE OSTI2017

Agile Task Tracking Tool

The work was created to provide a tool for the purpose of improving the management of tasks associated with Agile projects. Agile projects are typically completed in an iterative manner with many short duration tasks being performed as part of iterations. These iterations are generally referred to as sprints. The objective of this work is to create a single tool that enables sprint teams to manage all of their tasks in multiple sprints and automatically produce all standard sprint performance charts with minimum effort. The format of the printed work is designed to mimic a standard Kanban board. The work is developed as a single Excel file with worksheets capable of managing up to five concurrent sprints and up to one hundred tasks. It also includes a summary worksheet providing performance information from all active sprints. There are many commercial project management systems typically designed with features desired by larger organizations with many resources managing multiple programs and projects. The audience for this work is the small organizations and Agile project teams desiring an inexpensive, simple, user-friendly, task management tool. This work uses standard readily available software, Excel, requiring minimum data entry and automatically creating summary charts and performance data. It is formatted to print out and resemble standard flip charts and provide the visuals associated with this type of work.

Duke, Roger T.↗

DOE OSTI2019

Detection and quantitation of right ventricular reversible perfusion defects by stress SPECT myocardial perfusion imaging: A proof-of-principle study

Background: In patients with right dominant coronary circulation, the right ventricular (RV) myocardium and the inferior region of the left ventricular (LV) myocardium share a common source of blood flow. We hypothesized that stress/rest SPECT myocardial perfusion imaging (MPI) could detect reversible perfusion defects in the RV in some patients with LV inferior wall perfusion abnormalities. Material and Methods: We identified 2 groups of patients with LV inferior wall perfusion defects (with or without defects in other regions of LV myocardium) from our database. Patients in group 1 (n = 17) had reversible perfusion defects in the RV free wall by visual analysis, while patients in group 2 (n = 17) did not. The images were processed with filtered back projection and, separately, with iterative reconstruction. The images were then re-processed using an automated quantitative software that is specifically designed to include the RV in the region of interest. Results: There were 76% men in group 1 and 94% in group 2 (P <0.05). The mean age was 65±20 in group 1 vs. 63±18 years in group 2 (P < 0.05). The stress type was exercise in 30% in group 1 and 35% in group 2, with the remaining patients studied with pharmacological stress testing (P = NS). The presence of RV reversible perfusion defects using filtered back projection was more evident in 13 patients (75%), while it was better seen with iterative reconstruction in 4 patients (25%). By automated analysis, the RV reversible perfusion defect size was 19 ± 14% of RV myocardium. Conclusion: This proof-of-principle study demonstrates that reversible RV perfusion defects suggestive of ischemia can be detected by SPECT myocardial perfusion imaging in some patients with LV inferior ischemia by visual analysis and can be quantitated by automated programs. Further studies on the diagnostic and prognostic relevance of assessing RV ischemia on SPECT MPI are needed.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

DOE OSTI2025

A Data Processing Pipeline To Extract A Knowledge Graph From Heterogeneous Data For Socio-technical Analysis Of Critical Infrastructure Influence

The code is written in Python and consists of the following pipeline that is implemented in Apache Airflow. This pipeline intends to understand the companies that are directly or indirectly involved with a type of critical infrastructure system at some point in that system's lifecycle. The pipeline takes a configuration file that specifies a list of initial companies to consider, a geographic region of interest, and a set of SEC form types as well as other data sources (e.g. CrunchBase) from which to extract entities and relations. There are four main components to this pipeline as currently implemented: Entity Extraction, Network Construction, Analysis, and Visualization. First, Entity Extraction, is implemented as the `topear-extract_organizations` Apache Airflow workflow. Given an initial query that specifies a geographic region of interest and a time interval, the software will extract CI facilities of interest and organizations that have a direct influence relationship to those facilities (e.g. ownership). During the course of the LDRD, we focused on Electric Vehicle charging stations and this information is available via the Department of Energy (DOE) database on fueling stations maintained by NREL. Within the context of the DOE CESER project, we have focused on Battery Energy Storage Systems (BESS). Second, the Network Extraction component will iteratively construct a social network graph given the set of organizations and people extracted in the previous step. Organizations (and eventually People if desired) are then fed as a query to the `topgear-construct_social_network` Apache Airflow workflow which given a set of initial companies and data sets (e.g. SEC EDGAR form types, OpenCorporates, Crunchbase). This Airflow workflow will iteratively query such data sources to discover relationships with new organizations and people. For example, this module can iteratively query SEC EDGAR for metadata that documents the number of each type of form for the given set of companies and their location. This forms metadata represents a catalog of data sources from SEC EDGAR for the extracted social network knowledge graph. The pipeline then downloads these forms from the website and saves them in a build directory for further processing. These documents are then parsed for entities and relations. Again, we note that in additional to SEC data sources, this step can also pull in information on organizations via API services such as CrunchBase and OpenCorporates or bulk data sources. At the end of this step, the resultant social network, the Critical Infrastructure network, and the edges that encode relationships between organizations and CI facilities, form the Adversarial Socio-Technical Network (ASTN) that informs the analysis. Third, the Analysis component processes these generated ASTN. Previously, that has included the ability to compare prevalence of different vendors for a given infrastructure component type across different regions as well as identify common public and private investors across those vendors. This was demonstrated for EV Charging Stations across several different metropolitan areas within an IEEE PES GridEdge publication. More recently, we have looked at ways to identify infrastructure owners and operators of BESS with the most nameplate capacity across different states as well as other indictors of risk resulting from changes in ownership over time. Finally, the Visualization component consists of an HTML/CSS/JS framework by which users can interact geospatial, operational, and organizational relationships across a given portfolio of Critical Infrastructure facilities. The objective is to provide a library of UI/UX modules that can be repurposed for stakeholder-specific dashboards. All of the modules are related via a common event model that enables UI actions in one view to percolate across the other views.

Weaver, Gabriel [Idaho National Laboratory (INL), ↗

DOE OSTI2017

URBAN-NET-TOOLKIT

Strengthening and maintaining secure, functioning, and resilient Critical Infrastructure Systems (CISs) is one of our nation's primary goals, and it requires proactive and coo0rdinated efforts among federal, state, local, public and private owners and operators of CISs. Recent worldwide extreme events have shown how interdependencies across CISs (electric grid, telecommunications, transportation, water networks, etc.) can drastically increase system vulnerability. To understand these complex interdependencies, ORNL has instantiated Urban-NET, a novel decision support system for CIS operators who need to identify vulnerabilities for minimizing the cascading impacts - saving utilities, the federal and state government, and private sector companies potentially billions by avoiding a complete CI failure and/or shutdown. The developed system includes a stack of software tools for preprocessing, modeling, interconnecting multiple CIS datasets as an integrated heterogeneous graph (i.e. network), identifying vulnerabilities through topological analysis, and predicting consequences based on simulations along with visualization.

Chinthavali, Supriya↗

DOE OSTI2016

A Lyapunov Function Based Remedial Action Screening Tool Using Real-Time Data

This report summarizes the outcome of a research project that comprised the development of a Lyapunov function based remedial action screening tool using real-time data (L-RAS). The L-RAS is an advanced computational tool that is intended to assist system operators in making real-time redispatch decisions to preserve power grid stability. The tool relies on screening contingencies using a homotopy method based on Lyapunov functions to avoid, to the extent possible, the use of time domain simulations. This enables transient stability evaluation at real-time speed without the use of massively parallel computational resources. The project combined the following components. 1. Development of a methodology for contingency screening using a homotopy method based on Lyapunov functions and real-time data. 2. Development of a methodology for recommending remedial actions based on the screening results. 3. Development of a visualization and operator interaction interface. 4. Testing of screening tool, validation of control actions, and demonstration of project outcomes on a representative real system simulated on a Real-Time Digital Simulator (RTDS) cluster. The project was led by Michigan State University (MSU), where the theoretical models including homotopy-based screening, trajectory correction using real-time data, and remedial action were developed and implemented in the form of research-grade software. Los Alamos National Laboratory (LANL) contributed to the development of energy margin sensitivity dynamics, which constituted a part of the remedial action portfolio. Florida State University (FSU) and Southern California Edison (SCE) developed a model of the SCE system that was implemented on FSU's RTDS cluster to simulate real-time data that was streamed over the internet to MSU where the L-RAS tool was executed and remedial actions were communicated back to FSU to execute stabilizing controls on the simulated system. LCG Consulting developed the visualization and operator interaction interface, based on specifications provided by MSU. The project was performed from October 2012 to December 2016, at the end of which the L-RAS tool, as described above, was completed and demonstrated. The project resulted in the following innovations and contributions: (a) the L-RAS software prototype, tested on a simulated system, vetted by utility personnel, and potentially ready for wider testing and commercialization; (b) an RTDS-based test bed that can be used for future research in the field; (c) a suite of breakthrough theoretical contributions to the field of power system stability and control; and (d) a new tool for visualization of power system stability margins. While detailed descriptions of the development and implementation of the various project components have been provided in the quarterly reports, this final report provides an overview of the complete project, and is demonstrated using public domain test systems commonly used in the literature. The SCE system, and demonstrations thereon, are not included in this report due to Critical Energy Infrastructure Information (CEII) restrictions.

24 POWER TRANSMISSION AND DISTRIBUTION↗

DOE OSTI2023

Quantum Computing and Visualization: A Disruptive Technological Change Ahead

The focus of this Visualization Viewpoints article is to provide some background on quantum computing (QC), to explore ideas related to how visualization helps in understanding QC, and examine how QC might be useful for visualization with the growth and maturation of both technologies in the future. In a quickly evolving technology landscape, QC is emerging as a promising pathway to overcome the growth limits in classical computing. In some cases, QC platforms offer the potential to vastly outperform the familiar classical computer by solving problems more quickly or that may be intractable on any known classical platform. As further performance gains for classical computing platforms are limited by diminishing Moore’s Law scaling, QC platforms might be viewed as a potential successor to the current field of exascale-class platforms. Importantly, while present-day QC hardware platforms are still limited in scale, the field of quantum computing is robust and rapidly advancing in terms of hardware capabilities, software environments for developing quantum algorithms, and educational programs for training the next generation of scientists and engineers. After a brief introduction to QC concepts, the focus of this article is to explore the interplay between the fields of visualization and QC. First, visualization has played a role in QC by providing the means to show representations of the quantum state of single-qubits in superposition states and multiple-qubits in entangled states. Second, there are a number of ways in which the field of visual data exploration and analysis may potentially benefit from this disruptive new technology though there are challenges going forward.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2017

Capturing provenance as a diagnostic tool for workflow performance evaluation and optimization

In extreme-scale computing environments such as the DOE Leadership Computing Facilities scientific workflows are routinely used to coordinate software processes for the execution of complex, computational applications that perform in-silico experiments. Monitoring the performance of workflows without also simultaneously tracking provenance is not sufficient to understand variations between runs, configurations, versions of a code, and between changes in an implemented stack, and systems, i.e. the variability of performance metrics data in their historical context. We take a provenance-based approach and demonstrate that provenance is useful as a tool for evaluating and optimizing workflow performance in extreme-scale HPC environments. We present Chimbuko, a framework for the analysis and visualization of the provenance of performance. Chimbuko implements a method for the evaluation of workflow performance from multiple components that enables the exploration of performance metrics data at scale.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2022

VizBrick

Brick (https://brickschema.org/) is a unified metadata schema to address the problem of building data standardization. Creating Brick models for building datasets means that the contents of the datasets are semantically described using the standard terms defined in the Brick ontology, and it will enable the benefits of data standardization, without having to recollect or reorganize the data. The challenge is that building brick models for building datasets leads to repeated manual trial and error processes, which can be time-consuming. VizBrick is a tool with a graphic/Web-based user interface that can assist users to create Brick models visually and interactively without having to understand the Resource Description Framework (RDF) syntax. VizBrick contains a web server that renders VizBrick web interface pages for browsers. The web server utilizes software components that (1) provide Brick ontology entity mapping to data column suggestions to users so that they can efficiently create their model; (2) provide keyword/Metadata-based search capability for easy find of relevant brick concepts and relations to their data columns

Lee, Sangkeun [Oak Ridge National Lab. (ORNL), Oak↗

DOE OSTI2021

Tutorial on Chemical Pressure Analysis: How Atomic Packing Drives Laves/Zintl Intergrowth in K3Au5Tl

The tight atomic packing generally exhibited by alloys and intermetallics can create the impression of their being composed of hard spheres arranged to maximize their density. As such, the atomic size factor has historically been central to explanations of the structural chemistry of these systems. However, the role atomic size plays structurally has traditionally been inferred from empirical considerations. The recently developed DFT-Chemical Pressure (CP) analysis has opened a path to investigating these effects with theory. In this article, we provide a step-by-step tutorial on the DFT-CP method for non-specialists, along with advances in the approach that broaden its applicability. A new version of the CP software package is introduced, which features an interactive system that guides the user in preparing the necessary electronic structure data and generating the CP scheme, with the results being readily visualized with a web browser (and easily incorporated into websites). For demonstration purposes, we investigate the origins of the crystal structure of K3Au5Tl, which represents an intergrowth of Laves and Zintl phase domains. Here, CP analysis reveals that the intergrowth is supported by complementary CP features of NaTl-type KTl and MgCu2-type KAu2 phases. In this way, K3Au5Tl exemplifies how CP effects can drive the merging for geometrical motifs derived from different families of intermetallics through a mechanism referred to as epitaxial stabilization.

36 MATERIALS SCIENCE↗

DOE OSTI2026

MCNPy

SAND2026-20425O MCNPy runs and analyzes simulations from MCNP, a software that models radiation transport of neutrons and gamma rays. MCNPy uses Python to start MCNP, retrieve event data files, and convert them into graph structures for detailed analysis. It offers visualization tools, including 2D views of particle histories, making complex simulation data easier to interpret for researchers and engineers. 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.

Nowack, Aaron [Sandia National Lab. (SNL-CA), Live↗

DOE OSTI2023

CCSI Toolset 3.17 Release

CCSI Toolset 3.17 Release Highlights A workaround was developed to allow complex Aspen Custom Modeler (ACM) models to be used in FOQUS. This workaround uses Visual Basic for Applications to connect the ACM models to FOQUS. The ability for User plugins to be uploaded to FOQUS Cloud was added. The documentation was updated to include Optional Software Install and Tutorial Notes to clarify the usage of Turbine and SimSinter in installation instructions and adds a link to the relevant tutorial page. The Sequential Design of Experiments documentation was updated with current screenshots. The copyright was updated to include 2023.

AS↗

DOE OSTI2018

Enhancing Clean Energy Innovation Ecosystem Discovery Tool

During March 2016, the DOE’s Office of Energy Policy and Systems Analysis (EPSA) sought a methodology to identify and quantify the strength of the existing clean energy innovation ecosystems (IE) in the U.S. and their characteristics. Oak Ridge National Lab (ORNL) did a pilot study (Phase 1) and demonstrated the feasibility of an application comprised of natural language processing, link analysis, and other computational techniques to transform text and numerical data into metrics on clean energy innovation activity and geography. The data-collection, ingest and analytics pipelines were combined with an advanced user interface, together known as the Ecosystem Discovery Tool, to enhance DOE’s understanding of existing geographic innovation clusters. During Phase 2 of this project, this tool has been further enhanced by integrating new data sets and through backend software architecture changes, validation and bug fixing, making it a much more robust and powerful application. The tool’s user interface is a lot more intuitive, which enables a user to visualize the IE rankings for various geographic regions(CBSA, state level) for different clean energy technologies and seek automated insights. ORNL also created a DOE-specific dashboard that allows the user to visualize and analyze federal funding from various offices including Energy Efficiency and Renewable Energy(EERE), Office of Electricity(OE), Fossil Energy(FE), and Nuclear Energy(NE). During Phase 1 of this project, EPSA defined a clean energy innovation ecosystem as the overlap of five Ecosystem Components: 1) nascent clean energy Indicators, 2) investors, 3) enabling environment, 4) networking assets and 5) large companies. EPSA and ORNL worked together to collect data for each component: 1) small and medium companies, ARPA-E awardees, SBIR awardees, patents, publications, ERCs for Nascent Clean Energy Indicators; 2) qualified investors; 3) the Clean Edge Policy Index/DSIRE for the Enabling Environment; 4) universities, national laboratories, ERCs and incubators for Networking Assets; and 5) large companies and a subset of the Russell 1000 list for Large Companies. The ORNL team created a visual tool based on Tableau that integrated ecosystem component data to score, rank and map IEs. The tool was created with the flexibility to allow the user to choose the weights of each of the five ecosystem components and the subcomponents. This flexibility allows the user to visualize different subsets and to use the underlying data for different types of analysis. During Phase 2 of this project, the backend database and computation process have undergone major changes to provide a much more refined user-interface and added new features into the scoring algorithm. This phase also involved addition of newer databases such as a list of Energy Research Centers (ERC) ,DSIRE, and funding data from EERE, FE, NE, and OE to provide more granular information and more accurate/better quantification.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

DOE OSTI2024

Peregrine Software Development: Report on the Code Conversion From Python to C++

This work package seeks to convert the Peregrine software tool from its original Python implementation to a production version based on the C++ language. Peregrine is a powerful research platform with a multitude of advanced data analytics and data visualization functionalities. Developed by scientists to explore multimodal and multidimensional data related to the production of components using powder bed additive manufacturing processes, the tool implements state-of-the-art algorithms to assist machine users in making build or part quality determinations. Given that Peregrine is data-intensive, the goal of this conversion is to enhance the tool’s flexibility and interactivity and reduce the number of code dependencies to facilitate its deployment as part of the ongoing technology transfer campaign. This brief document provides an overview of Peregrine’s functionalities and capabilities, along with a detailed description of the core functionalities that have been implemented to date in the new C++ version. This document serves as a development update at the end of the first year of the ongoing conversion and will be regularly updated as progress continues.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2021

Unified Nanotechnology Format: One Way to Store Them All

The domains of DNA and RNA nanotechnology are steadily gaining in popularity while proving their value with various successful results, including biosensing robots and drug delivery cages. Nowadays, the nanotechnology design pipeline usually relies on computer-based design (CAD) approaches to design and simulate the desired structure before the wet lab assembly. To aid with these tasks, various software tools exist and are often used in conjunction. However, their interoperability is hindered by a lack of a common file format that is fully descriptive of the many design paradigms. Therefore, in this paper, we propose a Unified Nanotechnology Format (UNF) designed specifically for the biomimetic nanotechnology field. UNF allows storage of both design and simulation data in a single file, including free-form and lattice-based DNA structures. By defining a logical and versatile format, we hope it will become a widely accepted and used file format for the nucleic acid nanotechnology community, facilitating the future work of researchers and software developers. Together with the format description and publicly available documentation, we provide a set of converters from existing file formats to simplify the transition. Finally, we present several use cases visualizing example structures stored in UNF, showcasing the various types of data UNF can handle.

77 NANOSCIENCE AND NANOTECHNOLOGY↗

DOE OSTI2017

Developing EGS Collab Site Geologic Framework Models at the Sanford Underground Research Facility, Lead, South Dakota

The ongoing DOE/GTO funded EGS Collab project aims to stimulate and conduct inter-well flow tests at an intermediate (~10-20 m) in an underground mine in Lead, South Dakota. It is a collaborative initiative where several national laboratories, universities, and other institutions are working together to develop experimental, instrumentation, characterization, and monitoring tools and concepts that could be later employed at a full-scale EGS demonstration FORGE site. In this paper, we describe the development and workflow approach and some preliminary results of earth modeling task for EGS Collab project. We are creating earth models at three different domain scales – EGS Collab, Intermediate, and Large area – using RockWorks 17 software. Local geology, drifts/shafts, and 4850 L boreholes are incorporated in these models. Similarly, available and applicable physical/mechanical properties are also planned to be included in the earth models. Besides providing visualization of the local geology, mine architecture, and bore holes in the test site, the earth modeling task also envision to develop a series of 3-D block models (ASCII files for scattered data/point clouds in the form of X, Y, Z, g) for various physical/mechanical properties of rock. These 3-D block models will provide a consistent baseline value for a parameter of interest to all modeling/simulation groups involved in the EGS Collab project. For this task, we have assembled a preliminary suite of physical/mechanical properties of rocks. Some of the earth modeling results (3-D block models) have been tested by some modeling/simulation team members to test their applicability and for developing additional modeling capability or modifications in RockWorks exported 3-D block models. It is expected that the earth modeling results will be helpful for achieving the overall EGS Collab project objectives.

15 GEOTHERMAL ENERGY↗

DOE OSTI2016

Updates to the Spatial Analysis and Decision Assistance (SADA) Freeware Tool - 16583

SADA is a collaboration between the University of Tennessee and Oak Ridge National Laboratory to present a freeware desktop application integrating environmental risk analytics, spatial modeling, and decision sciences for use at EPA, NRC, DOE, and DoD contaminated sites. The software embeds risk assessment, uncertainty modeling, and downstream decision processes within a spatial context. Updates to Version 6 will provide will include a rich GIS environment and a new 3-D visualization model which permits immersive visualization of contamination, with topology, and the built environment. The risk models presented are developed in conjunction with Superfund to implement all scenarios in their Regional Screening Levels (RSLs) and radionuclide preliminary remediation goals (PRGs). In addition, SADA will be able to ingest high resolution LandScan population data providing insights into the proximity of population to contamination. A brief overview of the progress in provided along with anticipated next steps. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

DOE OSTI2018

Optimization and Diagnostics Code for Technological Processes: Radiochemical Production Simulator

A software-hardware complex with the possibility of simulating the functioning of technological processes with APCS in real and accelerated time is being developed as part of Project Breakthrough in order to determine the optimal operating regimes of the technological processes of the units in a closed nuclear fuel cycle. It makes possible monitoring and control functions and the visualization and archiving of the results of simulation, which makes it possible at the development stages of technologies to evaluate the degree of adherence to the requirements of the technological equipment, regulating organs and final-control mechanisms, measurement apparatus, and monitoring channels, to analyze the control and diagnostics algorithms, blocking and protection, and to make when necessary changes in the design being developed. The developed software-hardware complex is a stimulator that will make it possible not only to investigate process schemes with their corresponding algorithms but also to develop training complexes for the training and certification of service personnel.

42 ENGINEERING↗

DOE OSTI2021

VERAIO Software Management Plan

VERAIO is a set of utility codes used to provide a common set of input and outputs to the Virtual Environment for Reactor Applications (VERA). VERA is a collection of several different computer codes that all have a common input and output. This prevents the need to manage input and output from each individual code, allowing for ease of use and reducing errors associated with code operability. The VERAIO utilities include VERAIn, VERAView, and VERARun. Each of these utilities is described below. VERAIn is an input processor that reads an ASCII input file generated by users, parses the file, performs some error checking, and writes an XML file to be read by other VERA codes. The main purpose of VERAIn is to provide a common input to all of the VERA codes so users only need to learn one input. VERAIn is written in Perl and uses YAML configuration files to provide flexibility. VERAView is a graphical user interface (GUI) that reads a VERA HDF output file and allows users to visualize results. VERAView is written in Python. VERARun is a script that drives the VERA execution in a high performance computing (HPC) environment. Work performed at the code level supports the Quality Assurance Program Plan (QAPP) (VERA-QA-001), and VERA Software Quality Assurance Plan (VERA-QA-002).

97 MATHEMATICS AND COMPUTING↗