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DOE OSTI2022

Nuclear Structure and Decay Data for A=149 Isobars

Here, experimental nuclear structure and decay data are evaluated for all the 17 known nuclides of mass 149 (Xe, Cs, Ba, La, Ce, Pr, Nd, Pm, Sm, Eu, Gd, Tb, Dy, Ho, Er, Tm, Yb). Detailed compiled and evaluated spectroscopic information is presented for each reaction and decay dataset, and recommended values are provided for level properties, α, β and γ radiations, and other spectroscopic parameters, based on an evaluation of all the available experimental data for A=149 isobaric nuclides. Although large amounts of nuclear spectroscopic data are available for nuclides of A=149, yet large gaps in knowledge exist, as described below. For the lowest atomic number nuclide 149 Xe, only the isotopic identification has been made, with no data for its ground-state half-life. For 149 Cs, 149 Tm and 149 Yb information is available for only the respective ground states. For 149 Ba, 149 La and 149 Er, limited data exist for excited states. Many of the decay schemes of radioactive nuclei of A=149 are considered as incomplete, either due to large energy differences between the highest observed excited states in daughter nuclides and the respective Q-values, or due to the lack of confirmed γ-ray data, as listed below: 149 Cs → 149 Ba, 149 Ba → 149 La, 149 La → 149 Ce, 149 Ce → 149 Pr, 149 Pr → 149 Nd, 149 Tb(4.17 min) → 149 Gd, 149 Ho(21.0 s and 56 s) → 149 Dy, 149 Er(4 s and 9.6 s) → 149 Ho, and 149 Tm → 149 Er. No data exist for the decay of 149 Yb to 149 Tm. Data for half-lives of the excited states in this mass chain are generally lacking as given below by the number of excited levels of known half-life / approximate number of known levels in a nuclide: 2/17 for 149 Ba, 0/18 for 149 La, 3/53 for 149 Ce, 3/44 for 149 Pr, 17/110 for 149 Nd, 9/90 for 149 Pm, 10/210 for 149 Sm, 2/125 for 149 Eu, 6/270 for 149 Gd, 5/200 for 149 Tb, 3/80 for 149 Dy, 3/90 for 149 Ho, and 3/14 for 149 Er. This work supersedes earlier evaluations of A=149 nuclides published by 2004Si16, 1994Si18, 1985Sz01 and 1976Ho17.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2025

Recommended Nuclear Structure and Decay Data for A=206 Isobars

Here, evaluated nuclear structure and decay data for all nuclei with mass number A=206 ( 206 Pt, 206 Au, 206 Hg, 206 Tl, 206 Pb, 206 Bi, 206 Po, 206 At, 206 Rn, 206 Fr, 206 Ra and 206 Ac), are presented. All available experimental data are compiled and evaluated, and best values for level and γ-ray energies, quantum numbers, lifetimes, γ-ray intensities and transition probabilities, as well as other nuclear properties, are recommended. Inconsistencies and discrepancies that exist in the literature are discussed. A number of computer codes (https://www-nds.iaea.org/public/ensdf_pgm/) developed by members of the NSDD network were used during the evaluation process. This work supersedes the earlier evaluation by F.G. Kondev (2008Ko21), published in Nuclear Data Sheets 109, 1527 (2008).

Kondev, F. G. [Argonne National Laboratory (ANL), ↗
DOE OSTI2018

A programmable shared-memory system for an array of processing-in-memory devices

Processing in memory (PIM), the concept of integrating processing directly with memory has been attracting a lot of attention, since PIM can assist in overcoming the throughput limitation caused by data movement between CPU and memory. The challenge, however, is that it requires the programmers to have a deep understanding of the PIM architecture to maximize the benefits such as data locality and parallel thread execution on multiple PIM devices. In this study, we present AnalyzeThat, a programmable shared-memory system for parallel data processing with PIM devices. Thematic to AnalyzeThat is a rich PIM-aware data structure (PADS), which is an encapsulation that integrally ties together the data, the analysis tasks and the runtime needed to interface with the PIM device array. The PADS abstraction provides (i) a sophisticated key-value data container that allows programmers to easily store data on multiple PIMs, (ii) a suite of parallel operations with which users can easily implement data analysis applications, and (iii) a runtime, hidden to programmers, which provides the mechanisms needed to overlay both the data and the tasks on the PIM device array in an intelligent fashion, based on PIM-specific information collected from the hardware. We have developed a PIM emulation framework called AnalyzeThat. In conclusion, our experimental evaluation with representative data analytics applications suggests that the proposed system can significantly reduce the PIM programming effort without losing its technology benefits.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2026

Enabling event-by-event precision in γ-ray cascades for neutron-induced reactions

Neutron-induced γ-ray spectra provide key inputs for modern active interrogation applications. A precise modeling of the nuclear reaction and subsequent emission of γ rays is challenging and often impossible due to limitations on evaluated data file formats and nuclear transport simulation codes. We present a framework that addresses these challenges by combining experimental data and reaction-model calculation outputs into an extended candidate version of the Generalized Nuclear Data Structure (GNDS) file, the successor format for the legacy Evaluated Nuclear Data File (ENDF-6). This proposed GNDS hierarchical format contains all the necessary ingredients for inline γ-ray cascade reproduction with event-by-event precision, including continuum–continuum and continuum–discrete transitions following neutron-capture and inelastic neutron scattering reactions. Cascade-event generation based on our approach demonstrates improved energy conservation on an event-by-event basis and permits the use of γ-γ coincidences in applications. This work offers, for the first time, a method to generate neutron-capture and inelastic neutron-scattering γ-ray cascades where energy conservation, correlations, and experimental primaries are fully accounted for.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2017

AnalyzeThat: A Programmable Shared-Memory System for an Array of Processing-In-Memory Devices

Processing In Memory (PIM), the concept of integrating processing directly with memory, has been attracting a lot of attention since PIM can assist in overcoming the throughput limitation caused by data movement between CPU and memory. The challenge, however, is that it requires the programmers to have a deep understanding of the PIM architecture to maximize the benefits such as data locality and parallel thread execution on multiple PIM devices. In this study, we present AnalyzeThat, a programmable shared-memory system for parallel data processing with PIM devices. Thematic to AnalyzeThat is a rich PIM-Aware Data Structure (PADS), which is an encapsulation that integrally ties together the data, the analysis tasks and the runtime needed to interface with the PIM device array. The PADS abstraction provides (i) a key-value data container that allows programmers to easily store data on multiple PIMs, (ii) a suite of parallel operations with which users can easily implement data analysis applications, and (iii) a runtime, hidden to programmers, which provides the mechanisms needed to overlay both the data and the tasks on the PIM device array in an intelligent fashion, based on PIM-specific information collected from the hardware. We have developed a PIM emulation framework called AnalyzeThat. Our experimental evaluation with representative data analytics applications suggests that the proposed system can significantly reduce the PIM programming effort without losing its technology benefits.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2019

General Interaction Data Interface

The General Interaction Data Interface (GIDI) is a C++ API that reads and writes nuclear reaction data stored in the General Nuclear Data Structure (GNDS). GNDS is a new "format" for storing nuclear reaction data developed by the Working Party on Evaluation Co-operation (OECD/NEA/WPEC) Subgroup 38. GNDS can store evaluated nuclear data as well as nuclear data processed for deterministic (multi-group) and Monte Carlo transport. GIDI handles and provides accesses to all forms of the GNDS nuclear data. For multi-group data, GIDI provides functions to sum the data over all reactions. It also has functions for collapsing multi-group data to a small subset of groups and can transport correct multi-group data using the Pendlebury/Underhill formalism. The GNDS definition supports data for a PROjectile hitting a TARget for a given Evaluation. In GIDI this is called a PROTARE. For example, a neutron hitting O-16 from the ENDF/B-VIII.0 evaluation. To support a collection of protares, GIDI adds a Map class. The map class reads in a "map" file which specifies a list of projectile/target/evalaution's and their associated protare files. With a map instance, a user can request a specific projectile/target/evaluation and the map instance will return the requested protare.

Beck, Bret↗
DOE OSTI2022

Tomo2Mesh: Fast Reconstruction and Visualization of Tomography Data in Mesh Format

Tomo2Mesh is an open-source project targeted towards real-time reconstruction, segmentation, and visualization of computed tomography (CT) data in mesh format. The CT reconstruction scheme is based on filtered back-projection of voxel subsets. The segmentation scheme uses a 3D convolutional neural network. To allow for fast, real-time reconstruction, voxel subsets are first identified by coarse reconstruction. The detail in specific regions of interest is improved through full reconstruction of voxel subsets in that region. Data structures are implemented to store and process voxel subsets. Finally, voxel data is labeled using connected components to detect disconnected regions such as voids whose morphological attributes (e.g., Feret diameter, principal axis orientation, local number density, size, etc.) can be measured also in real-time. Finally, a fast marching cubes implementation processes labeled voxel data into a triangular face mesh (vertices and faces) in .ply format for visualization in Paraview or other mesh visualization tools. The code provides a simple programming interface for detecting, classifying, and visualizing regions of interest based on morphology. For example, detected voids can be classified as round pores or extended cracks. Highly porous neighborhoods can be identified based on local number density. The mesh texture (or color) is assigned based these morphological attributes to allow smart visualization scenarios in real-time (e.g., show only long cracks). At the time of first release (July 2022), extraction of face mesh for visualization for raw CT data from a 2 megapixel camera would take between 1-5 minutes for most scenarios.

TEKAWADE, ANIKET↗
DOE OSTI2023

Genomes to Structure and Function Workshop Report 2022

The goal of the U.S. Department of Energy (DOE) Biological and Environmental Research (BER) Program is to achieve a predictive understanding of complex biological, earth, and environmental systems with the aim of advancing the nation’s energy and infrastructure security. (https://www.energy.gov/science/ ber/biological-and-environmental-research). To pursue this goal, collaborations among experts in diverse research areas that lead to multidisciplinary projects are indispensable. The roles of DOE’s User Facilities, which offer unique and powerful resources for such research projects, are evolving, and expectations for the facilities are increasing. To respond to Users’ needs, the Joint Genome Institute (JGI) and Environmental Molecular Sciences Laboratory (EMSL) initiated the Facilities Integrating Collaborations for User Science (FICUS) program in 2014. This collaboration has grown into a popular and successful program, advancing more than 100 multidisciplinary projects to date. Similarly, the new interFacility collaborations among the JGI, EMSL, and User resources for BER structural biology and imaging at the Basic Energy Science (BES) Program’s synchrotron and neutron facilities are becoming essential for cutting-edge transdisciplinary science. To further explore the need for the BER research community to combine genomic, functional, and structural approaches to advance their research, an organizing committee was formed to develop and jointly host a 3-part workshop. The committee’s members represented seven DOE National Laboratory User Facilities (Appendix 1 lists the members). The “Genomes to Structure and Function” virtual workshop (see Appendices 2–5) was composed of three sessions. The first session, titled “Molecular Structures” (October 27– 28, 2021), highlighted diverse integrative experimental and computational approaches correlating structural data with sequencing and functional information, as well as predicting protein structures to model complex biological systems. The second session, “Intracellular Organization, and Material Synthesis and Decomposition” (December 15–16, 2021), covered imaging methods for observing, quantifying, and manipulating biosystems. The third session, “Imaging the Rhizosphere and Cellular Organization” (January 26–27, 2022) emphasized advanced and non-invasive imaging techniques applied to plant root-microbe-soil interactions.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2019

Assessing the Dynamics and Complexity of Disease Pathogenicity Using 4-Dimensional Immunological Data

Investigating disease pathogenesis and personalized prognostics are major biomedical needs. Because patients sharing the same diagnosis can experience different outcomes, such as survival or death, physicians need new personalized tools, including those that rapidly differentiate several inflammatory phases. To address these topics, a pattern recognition-based method (PRM) that follows an inverse problem approach was designed to assess, in <10 min, eight concepts: synergy , pleiotropy , complexity , dynamics , ambiguity , circularity , personalized outcomes , and explanatory prognostics (pathogenesis). By creating thousands of secondary combinations derived from blood leukocyte data, the PRM measures synergic, pleiotropic, complex and dynamic data interactions, which provide personalized prognostics while some undesirable features—such as false results and the ambiguity associated with data circularity-are prevented. Here, this method is compared to Principal Component Analysis (PCA) and evaluated with data collected from hantavirus-infected humans and birds that appeared to be healthy. When human data were examined, the PRM predicted 96.9 % of all surviving patients while PCA did not distinguish outcomes. Demonstrating applications in personalized prognosis, eight PRM data structures sufficed to identify all but one of the survivors. Dynamic data patterns also distinguished survivors from non-survivors, as well as one subset of non-survivors, which exhibited chronic inflammation. When the PRM explored avian data, it differentiated immune profiles consistent with no, early, or late inflammation. Yet, PCA did not recognize patterns in avian data. Findings support the notion that immune responses, while variable, are rather deterministic: a low number of complex and dynamic data combinations may be enough to, rapidly, unmask conditions that are neither directly observable nor reliably forecasted.

60 APPLIED LIFE SCIENCES↗
NASA NTRS1983

Communications network design and costing model programmers manual

Otpimization algorithms and techniques used in the communications network design and costing model for least cost route and least cost network problems are examined from the programmer's point of view. All system program modules, the data structures within the model, and the files which make up the data base are described.

Logan, K. P.↗
NASA NTRS1986

Thematic mapper study of Alaskan ophiolites

The combinations of Thematic Mapper (TM) bands that best distinguish basalts of the Brooks Range ophiolites were determined. Geochemical analyses, including major, trace, and rare earth elements (REE), are being done in order to study the significance of TM spectral variations that were observed within some of the sampled rock units. An image of the topography of the western Brooks Range and Colville Basin was constructed. Elevation data for the rest of Northern Alaska are being acquired to expand the area covered by the topography image. Two balanced cross sections (one along the eastern margin, the other along the western margin of the Brooks Range) are being constructed, using the techniques of fault-bend and fault-propagation folding. These are being used to obtain regional shortening estimates for the Brooks Range in an attempt to constrain tectonic models for the evolution of Northern Alaska. The TM data are being used to confirm reconnaissance maps and to obtain structural data where no maps exist. Along with the TM data, digital topography, seismic reflection profiles, and magnetic and gravity surveys are examined to better understand the evolution of the Colville Basin, north of the Brooks Range.

Bird, J. M.↗
NASA NTRS2012

Graphics Processing Unit Assisted Thermographic Compositing

Objective: To develop a software application utilizing general purpose graphics processing units (GPUs) for the analysis of large sets of thermographic data. Background: Over the past few years, an increasing effort among scientists and engineers to utilize the GPU in a more general purpose fashion is allowing for supercomputer level results at individual workstations. As data sets grow, the methods to work them grow at an equal, and often great, pace. Certain common computations can take advantage of the massively parallel and optimized hardware constructs of the GPU to allow for throughput that was previously reserved for compute clusters. These common computations have high degrees of data parallelism, that is, they are the same computation applied to a large set of data where the result does not depend on other data elements. Signal (image) processing is one area were GPUs are being used to greatly increase the performance of certain algorithms and analysis techniques. Technical Methodology/Approach: Apply massively parallel algorithms and data structures to the specific analysis requirements presented when working with thermographic data sets.

Ragasa, Scott↗
NASA NTRS2003

Hot Views on Cold Crystals: The Application of Thermal Imaging in Cryocrystallography

We have used thermal imaging techniques to visualize the cryocooling processes of macromolecular crystals. Cryocooling is a common technique used for structural data collection to reduce radiation damage in intense X-ray beams and decrease the thermal motion of the atoms. From the thermal images it was clear that during cryocooling a cold wave progresses through a crystal starting at the face closest to the origin of the cold stream and ending at the point furthest away. As an extension to this work, we used thermal imaging to study small crystals, held in a cryo-loop, in the presence of vitrified mother liquor. The different infrared transmission and reflectance properties of the crystal in comparison to the mother liquor surrounding it are thought to be the parameter that produces the contrast that makes the crystal visible. An application of this technology may be the determination of the exact location of small crystals in a cryo-loop for automated structural genomics studies. Data from initial tests in support of application development was recorded for lysozyme crystals and for bFGF/dna complex crystals, which were cryocooled and imaged in large loops, both with visible light and with infrared radiation. The crystals were clearly distinguished from the vitrified solution in the infrared spectrum, while in the case of the bFGF/dna complex the illumination had to be carefully manipulated to make the crystal visible in the visible spectrum. These results suggest that the thermal imaging may be more sensitive than visual imaging for automated location of small crystals. However, further work on small crystals robotically mounted at SSRL did not clearly visualize those crystals. The depth of field of the camera proved to be limiting and a different cooling geometry was used, compared to the previous, successful experiments. Analysis to exploit multiple images to improve depth of field and experimental work to understand cooling geometry effects is ongoing. These results will be presented along with advantages and disadvantages of the technique and a discussion of how it might be applied.

Snell, Eddie↗
NASA NTRS1992

An integrated modeling and design tool for advanced optical spacecraft

Consideration is given to the design and status of the Integrated Modeling of Optical Systems (IMOS) tool and to critical design issues. A multidisciplinary spacecraft design and analysis tool with support for structural dynamics, controls, thermal analysis, and optics, IMOS provides rapid and accurate end-to-end performance analysis, simulations, and optimization of advanced space-based optical systems. The requirements for IMOS-supported numerical arrays, user defined data structures, and a hierarchical data base are outlined, and initial experience with the tool is summarized. A simulation of a flexible telescope illustrates the integrated nature of the tools.

Briggs, Hugh C.↗
NASA NTRS1987

Integration of geometric modeling and advanced finite element preprocessing

The structure to a geometry based finite element preprocessing system is presented. The key features of the system are the use of geometric operators to support all geometric calculations required for analysis model generation, and the use of a hierarchic boundary based data structure for the major data sets within the system. The approach presented can support the finite element modeling procedures used today as well as the fully automated procedures under development.

Shephard, Mark S.↗
DOE OSTI2024

Enhancing Docking Accuracy with PECAN2, a 3D Atomic Neural Network Trained without Co-Complex Crystal Structures

Decades of drug development research have explored a vast chemical space for highly active compounds. The exponential growth of virtual libraries enables easy access to billions of synthesizable molecules. Computational modeling, particularly molecular docking, utilizes physics-based calculations to prioritize molecules for synthesis and testing. Nevertheless, the molecular docking process often yields docking poses with favorable scores that prove to be inaccurate with experimental testing. To address these issues, several approaches using machine learning (ML) have been proposed to filter incorrect poses based on the crystal structures. However, most of the methods are limited by the availability of structure data. Here, we propose a new pose classification approach, PECAN2 (Pose Classification with 3D Atomic Network 2), without the need for crystal structures, based on a 3D atomic neural network with Point Cloud Network (PCN). The new approach uses the correlation between docking scores and experimental data to assign labels, instead of relying on the crystal structures. We validate the proposed classifier on multiple datasets including human mu, delta, and kappa opioid receptors and SARS-CoV-2 Mpro. Our results demonstrate that leveraging the correlation between docking scores and experimental data alone enhances molecular docking performance by filtering out false positives and false negatives.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2021

AI to Predict Glass Compositions Satisfying Property and Cooling Rate Criteria

This project aimed to develop a predictive, artificial intelligence/machine learning-based model to identify glass compositions satisfying specified property requirements. Such a model would provide a systematic approach for narrowing down the nearly infinite range of possible compositions for glasses and minimize unnecessary experimental trial and error. A large empirical data set for training and testing the algorithm was obtained from the SciGlass database. It contains glass compositions and corresponding property data from a wide range of literature sources. However, the currently available form of this data, recently released under an open database license, is not conducive to easy querying and use. The data structure was deciphered and a customized parsing code developed to make this data more usable for the current and future work. Neural network models were developed and trained on viscosity data from the database and demonstrated potential for improving prediction accuracy over a traditional regression model.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗