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All sources NASA NTRS DOE OSTI

DOE OSTI2024

The Pixel Anomaly Detection Tool : a user-friendly GUI for classifying detector frames using machine-learning approaches

Data collection at X-ray free electron lasers has particular experimental challenges, such as continuous sample delivery or the use of novel ultrafast high-dynamic-range gain-switching X-ray detectors. This can result in a multitude of data artefacts, which can be detrimental to accurately determining structure-factor amplitudes for serial crystallography or single-particle imaging experiments. Here, a new data-classification tool is reported that offers a variety of machine-learning algorithms to sort data trained either on manual data sorting by the user or by profile fitting the intensity distribution on the detector based on the experiment. This is integrated into an easy-to-use graphical user interface, specifically designed to support the detectors, file formats and software available at most X-ray free electron laser facilities. The highly modular design makes the tool easily expandable to comply with other X-ray sources and detectors, and the supervised learning approach enables even the novice user to sort data containing unwanted artefacts or perform routine data-analysis tasks such as hit finding during an experiment, without needing to write code.

47 OTHER INSTRUMENTATION↗

DOE OSTI2023

Transcriptome architecture of the three main lineages of agrobacteria

ABSTRACT Agrobacteria are a diverse, polyphyletic group of prokaryotes with multipartite genomes capable of transferring DNA into the genomes of host plants, making them an essential tool in plant biotechnology. Despite their utility in plant transformation, genome-wide transcriptional regulation is not well understood across the three main lineages of agrobacteria. Transcription start sites (TSSs) are a necessary component of gene expression and regulation. In this study, we used differential RNA-seq and a TSS identification algorithm optimized on manually annotated TSS, then validated with existing TSS to identify thousands of TSS with nucleotide resolution for representatives of each lineage. We extend upon the 356 TSSs previously reported in Agrobacterium fabrum C58 by identifying 1,916 TSSs. In addition, we completed genomes and phenotyping of Rhizobium rhizogenes C16/80 and Allorhizobium vitis T60/94, identifying 2,650 and 2,432 TSSs, respectively. Parameter optimization was crucial for an accurate, high-resolution view of genome and transcriptional dynamics, highlighting the importance of algorithm optimization in genome-wide TSS identification and genomics at large. The optimized algorithm reduced the number of TSSs identified internal and antisense to the coding sequence on average by 90.5% and 91.9%, respectively. Comparison of TSS conservation between orthologs of the three lineages revealed differences in cell cycle regulation of ctrA as well as divergence of transcriptional regulation of chemotaxis-related genes when grown in conditions that simulate the plant environment. These results provide a framework to elucidate the mechanistic basis and evolution of pathology across the three main lineages of agrobacteria. IMPORTANCE Transcription start sites (TSSs) are fundamental for understanding gene expression and regulation. Agrobacteria, a group of prokaryotes with the ability to transfer DNA into the genomes of host plants, are widely used in plant biotechnology. However, the genome-wide transcriptional regulation of agrobacteria is not well understood, especially in less-studied lineages. Differential RNA-seq and an optimized algorithm enabled identification of thousands of TSSs with nucleotide resolution for representatives of each lineage. The results of this study provide a framework for elucidating the mechanistic basis and evolution of pathology across the three main lineages of agrobacteria. The optimized algorithm also highlights the importance of parameter optimization in genome-wide TSS identification and genomics at large.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS2001

Guidelines for the Selection of Near-Earth Thermal Environment Parameters for Spacecraft Design

Thermal analysis and design of Earth orbiting systems requires specification of three environmental thermal parameters: the direct solar irradiance, Earth's local albedo, and outgoing longwave radiance (OLR). In the early 1990s data sets from the Earth Radiation Budget Experiment were analyzed on behalf of the Space Station Program to provide an accurate description of these parameters as a function of averaging time along the orbital path. This information, documented in SSP 30425 and, in more generic form in NASA/TM-4527, enabled the specification of the proper thermal parameters for systems of various thermal response time constants. However, working with the engineering community and SSP-30425 and TM-4527 products over a number of years revealed difficulties in interpretation and application of this material. For this reason it was decided to develop this guidelines document to help resolve these issues of practical application. In the process, the data were extensively reprocessed and a new computer code, the Simple Thermal Environment Model (STEM) was developed to simplify the process of selecting the parameters for input into extreme hot and cold thermal analyses and design specifications. In the process, greatly improved values for the cold case OLR values for high inclination orbits were derived. Thermal parameters for satellites in low, medium, and high inclination low-Earth orbit and with various system thermal time constraints are recommended for analysis of extreme hot and cold conditions. Practical information as to the interpretation and application of the information and an introduction to the STEM are included. Complete documentation for STEM is found in the user's manual, in preparation.

Anderson, B. J.↗

DOE OSTI2022

EGS Collab Experiment 2: Continuous Broadband Seismic Waveform Data

Two broadband seismometers were installed on the 4100 level and recorded for the duration of EGS Collab Experiment #2. Inspired by published data from similar instruments installed in the Aspo Hard Rock Lab, these long-period instruments aimed to measure the tilting of the drift in response to the injection of fluid into the testbed. One instrument was installed underneath the wellheads in Site A (aka the "battery" alcove) and the other was installed along the east wall of the drift, south of Site B. Due to the feet of gravel (ballast) laid along the floor of the drift, we were unable to anchor the sensors directly to the rock. As a result, the coupling of the sensors to the experiment rock volume is likely poor. In addition, there are a number of noise sources that complicate the interpretation of the data. For example, sensor BBB is installed adjacent (within 3 ft) to the rail line that runs towards the Ross shaft. Trains (motors) run along this line almost daily and produce a large signal in these data. Careful extraction of periods of interest, as well as filtering for specific signals, is necessary. The sensors are Nanometrics Trillium Compact Posthole seismometers, sensitive down to 120 seconds period. They were installed as close to the drift wall and as deep as we could manually excavate (only about 1 ft or so). The holes were leveled with sand and the sensors were placed on a paver before backfilling with sand. The hole was then covered by a bucket filled with insulation to improve the sensor's isolation from daily temperature variations, which are minor but present due to drift ventilation from the surface. Data were recorded on Nanometrics Centaur digitizers at 100 Hz. The full response information is available in the StationXML file provided here, or by querying the sensors through the IRIS DMC (see links below). These instruments were provided free of charge through the IRIS PASSCAL instrument center. The network code is XP and the station codes are BBA and BBB. The waveform data can be queried through the IRIS FDSN server using any method the user likes. One convenient option is to use the Obspy python package: https://docs.obspy.org/packages/obspy.clients.fdsn.html

15 GEOTHERMAL ENERGY↗

DOE OSTI2021

Hydrogen Risk Assessment Models (HyRAM) (V.3.1) (Technical Reference Manual)

The HyRAM software toolkit provides a basis for conducting quantitative risk assessment and consequence modeling for hydrogen infrastructure and transportation systems. HyRAM is designed to facilitate the use of state-of-the-art science and engineering models to conduct robust, repeatable assessments of hydrogen safety, hazards, and risk. HyRAM includes generic probabilities for hydrogen equipment failures, probabilistic models for the impact of heat flux on humans and structures, and experimentally validated first-order models of hydrogen release and flame physics. HyRAM integrates deterministic and probabilistic models for quantifying accident scenarios, predicting physical effects, and characterizing hydrogen hazards (thermal effects from jet res, overpressure effects from deflagrations), and assessing impact on people and structures. HyRAM is developed at Sandia National Laboratories for the U.S. Department of Energy to increase access to technical data about hydrogen safety and to enable the use of that data to support development and revision of national and international codes and standards. HyRAM is a research software in active development and thus the models and data may change. This report will be updated at appropriate developmental intervals. This document provides a description of the methodology and models contained in HyRAM version 3.1. There have been several impactful updates since version 3.0. HyRAM 3.1 contains a correction to use the volume fraction for two-phase speed of sound calculations; this only affects cryogenic releases in which two-phase ow (vapor and liquid) is predicted in the orifice. Other changes include clarifications that inputs for tank pressure should be given in absolute pressure, not gauge pressure. Additionally, the interface now rejects invalid inputs to probability distributions, and the less accurate single-point radiative source model selection was removed from the interface.

08 HYDROGEN↗

NASA NTRS2019

User Manual for Physical Scalars and Plotting Tools in Scala

An open-source scalar package and associated software tools have been developed in the Scala programming language, including plotting tools based on the free GRACE plotting package. The scalar package represents physical scalars and can help to prevent errors involving physical units in engineering and scientific computation. The scalar package includes a complete implementation of the standard SI metric system of units and many common non-metric units. The design also allows users to easily de ne a specialized or reduced set of physical units for any particular application or domain. The scalar package can be used in two different modes: one mode provides unit compatibility checking but is slower, and the other mode bypasses the compatibility checks but is much faster and still prevents the most common type of unit error. Switching between the two modes requires no changes in the user's code, making it convenient and usable with no significant performance penalty for even the most computationally intensive applications.

Paielli, Russell A.↗

DOE OSTI2021

Ducted Assembly Steady-State Heat Transfer Software (DASSH): Theory Manual

The Ducted Assembly Steady-State Heat transfer software (DASSH) is being developed at Argonne National Laboratory to obtain a steady-state thermal fluids result for the coolant flow and temperature distribution in a hexagonally gridded reactor core with ducted assemblies. In DASSH, each assembly is assumed to contain a hexagonal bundle of wire-wrapped pins. DASSH divides the coolant in the pin bundle into subchannels on which it applies energy balances to determine coolant and duct temperatures. DASSH offers multiple models for inter assembly heat transfer and features the ability to calculate pin temperatures. This document describes the models and equations implemented in DASSH. It includes a description of the geometric system to which the models are applied and a derivation of the subchannel energy balance formulation is presented. It also reviews the available correlations and provides an overview of the process by which power distributions are generated. Finally, it covers the code execution procedure, discussing the main code objects and their interactions.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

DOE OSTI2020

Hydrogen Risk Assessment Models (HyRAM) (Version 3.0 Technical Reference Manual)

The HyRAM software toolkit provides a basis for conducting quantitative risk assessment and consequence modeling for hydrogen infrastructure and transportation systems. HyRAM is designed to facilitate the use of state-of-the-art science and engineering models to conduct robust, repeatable assessments of hydrogen safety, hazards, and risk. HyRAM includes generic probabilities for hydrogen equipment failures, probabilistic models for the impact of heat flux on humans and structures, and computationally and experimentally validated first-order models of hydrogen release and flame physics. HyRAM integrates deterministic and probabilistic models for quantifying accident scenarios, predicting physical effects, and characterizing hydrogen hazards (thermal effects from jet fires, overpressure effects from deflagrations), and assessing impact on people and structures. HyRAM is developed at Sandia National Laboratories for the U.S. Department of Energy to increase access to technical data about hydrogen safety and to enable the use of that data to support development and revision of national and international codes and standards. HyRAM is a research software in active development and thus the models and data may change. This report will be updated at appropriate developmental intervals. This document provides a description of the methodology and models contained in the HyRAM version 3.0. HyRAM 3.0 includes the new ability to model cryogenic hydrogen releases from liquid hydrogen systems, using a different property calculation method and different equations of state. Other changes include modifications to the ignition probability calculations, component leak frequency calculations, and addition of default impulse data.

08 HYDROGEN↗

DOE OSTI2023

Automated Energy-Dispersive X-ray Spectroscopy Analysis for Multi-Modal Few-Shot Learning

Scanning transmission electron microscopy (STEM) is a powerful tool that allows for the atomic-scale analysis of a materials’ structure, chemistry, and defect domains (Akers et al. 2021). The current generation of microscopes generate vast amounts of data, surpassing the limits of effective manual analysis traditionally performed by domain experts (Spurgeon et al. 2021). While recent strides in machine learning have significantly enhanced the processing of large and intricate datasets acquired through electron microscopy, the prevalent use of proprietary software packages for initial data collection poses a challenge. In many cases, these software packages act as a ‘black box’, constraining user functionality and hindering the output of data in a format that is conducive to seamless integration into machine learning models. This work addresses these challenges by adapting HyperSpy, an open-source Python library, for the analysis and quantification of raw energy dispersive spectroscopy (EDS) data acquired through STEM. The modified HyperSpy code successfully facilitates user-defined segmentation of the data, enabling the integration of atomic %, weight %, and raw EDS spectra for each segmented region into an existing few-shot machine learning model. While initial results reveal discrepancies in quantified atomic and weight percentages when compared to proprietary software, ongoing efforts aim to rectify this issue by refining the fit of the HyperSpy model to the EDS spectra. Overall, this research underscores the potential of open-source tools like HyperSpy to enhance the accessibility of analytical tools, fostering a transparent and user-friendly environment for seamlessly incorporating electron microscopy data into machine learning models.

36 MATERIALS SCIENCE↗

NASA NTRS1999

Micromechanics Analysis Code Post-Processing (MACPOST) User Guide

As advanced composite materials have gained wider usage. the need for analytical models and computer codes to predict the thermomechanical deformation response of these materials has increased significantly. Recently, a micromechanics technique called the generalized method of cells (GMC) has been developed, which has the capability to fulfill this -oal. Tc provide a framework for GMC, the Micromechanics Analysis Code with Generalized Method of Cells (MAC/GMC) has been developed. As MAC/GMC has been updated, significant improvements have been made to the post-processing capabilities of the code. Through the MACPOST program, which operates directly within the MSC/PATRAN graphical pre- and post-processing package, a direct link between the analysis capabilities of MAC/GMC and the post-processing capabilities of MSC/PATRAN has been established. MACPOST has simplified the production, printing. and exportation of results for unit cells analyzed by MAC/GMC. MACPOST allows different micro-level quantities to be plotted quickly and easily in contour plots. In addition, meaningful data for X-Y plots can be examined. MACPOST thus serves as an important analysis and visualization tool for the macro- and micro-level data generated by MAC/GMC. This report serves as the user's manual for the MACPOST program.

Goldberg, Robert K.↗

DOE OSTI2022

EvaluateFlux, VARPOW, VARPEAK, and DIF3DtoVTK Utility Programs for DIF3D

The DIF3D-VARIANT solver is part of the DIF3D code which was developed at ANL for engineering level predictive analysis of nuclear reactor cores. Over the course of the last 20 years, the DIF3D-VARIANT option of DIF3D has become increasingly more used because of improvements in computer memory capabilities and performance. This is beneficial to the users of DIF3D as DIF3D-VARIANT is able to apply both p- and h- spatial mesh refinement strategies in diffusion and transport theory. Given its greater use, utility programs were created to assist in post-processing the DIF3D output. This document discusses the basic execution process of DIF3D and the output files it creates but is primarily focused on being the manual for the utility programs EvaluateFlux, VARPOW, VARPEAK, and DIF3DtoVTK.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

DOE OSTI2023

Machine Learning Benchmarks for the Classification of Equivalent Circuit Models from Electrochemical Impedance Spectra

Analysis of Electrochemical Impedance Spectroscopy (EIS) data for electrochemical systems often consists of defining an Equivalent Circuit Model (ECM) using expert knowledge and then optimizing the model parameters to deconvolute various resistance, capacitive, inductive, or diffusion responses. For small data sets, this procedure can be conducted manually; however, it is not feasible to manually define a proper ECM for extensive data sets with a wide range of EIS responses. Automatic identification of an ECM would substantially accelerate the analysis of large sets of EIS data. We showcase machine learning methods to classify the ECMs of 9,300 impedance spectra provided by QuantumScape for the BatteryDEV hackathon. The best-performing approach is a gradient-boosted tree model utilizing a library to automatically generate features, followed by a random forest model using the raw spectral data. A convolutional neural network using boolean images of Nyquist representations is presented as an alternative, although it achieves a lower accuracy. We publish the data and open source the associated code. The approaches described in this article can serve as benchmarks for further studies. A key remaining challenge is the identifiability of the labels, underlined by the model performances and the comparison of misclassified spectra.

25 ENERGY STORAGE↗

DOE OSTI2024

Collection And Analysis Of Telemetry For The Cyote Heuristic

CATCH CLI focuses on gathering telemetry data, storing it in the Neo4j database, querying for Mitre ATT&CK patterns, and creating STIX 2.1 reports. Key Components: Analysis Modules: Analyze data to detect attack patterns. GoSTOTS Collection Engines: Collect telemetry data. These tools can be used together or individually. Analysis modules rely on data from specific engines to identify attack patterns. Source Code Organization: Engines: CATCH/catch/cmd/collection Modules: CATCH/catch/cmd/analysis CGUI Overview CATCH Graphical User Interface (CGUI) offers a graphical shell to execute CATCH CLI, allowing easy editing of: Analysis Modules Database configurations Profiles (collection and device settings) Neo4j Overview Neo4j is a graph database using the Cypher query language, storing data in JSON. It seamlessly integrates with STIX 2.1 data for: Data Submission: CATCH Collection Engines Data Querying: Analysis Modules CATCH modifies STIX 2.1 data for Neo4j submission and reverts it back during querying. STIG Overview Structured Threat Intelligence Graph (STIG) is a tool for creating, editing, querying, analyzing, and visualizing threat intelligence using STIX 2.1 and storing data in Neo4j. Usage Tools can be run: Manually (CLI): Refer to CATCH documentation User Interface: Run ./cgui/CGUI or go run ./cgui/ Additional Information Logging System: Detailed in the config documentation Further Documentation: Available for CATCH and CGUI

Madsen, MichaelJ. [Idaho National Laboratory (INL)↗

DOE OSTI2026

EvaluateFlux, VARPOW, VARPEAK, and DIF3DtoVTK Utility Programs for DIF3D (Rev. 1)

The DIF3D-VARIANT solver is part of the DIF3D code which was developed at ANL for engineering level predictive analysis of nuclear reactor cores. Over the course of the last 20 years, the DIF3D-VARIANT option of DIF3D has become increasingly more used because of improvements in computer memory capabilities and performance. This is beneficial to the users of DIF3D as DIF3D-VARIANT is able to apply both p- and h-spatial mesh refinement strategies in diffusion and transport theory. Given its greater use, utility programs were created to assist in post-processing the DIF3D output. This document discusses the basic execution process of DIF3D and the output files it creates but is primarily focused on being the manual for the utility programs EvaluateFlux, VARPOW, VARPEAK, and DIF3DtoVTK.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

NASA NTRSDate not supplied

Unsupervised Change Detection for Space Habitats Using 3D Point Clouds

This work presents an algorithm for scene change detection from point clouds to enable autonomous robotic caretaking in future space habitats. Autonomous robotic systems will help maintain future deep-space habitats, such as the Gateway space station, which will be uncrewed for extended periods. Existing scene analysis software used on the International Space Station (ISS) relies on manually-labeled images for detecting changes. In contrast, the algorithm presented in this work uses raw, unlabeled point clouds as inputs. The algorithm first applies modified Expectation-Maximization Gaussian Mixture Model (GMM) clustering to two input point clouds. It then performs change detection by comparing the GMMs using the Earth Mover’s Distance. The algorithm is validated quantitatively and qualitatively using a test dataset collected by an Astrobee robot in the NASA Ames Granite Lab comprising single frame depth images taken directly by Astrobee and full-scene reconstructed maps built with RGB-D and pose data from Astrobee. The runtimes of the approach are also analyzed in depth. The source code is publicly released to promote further development.

robotics↗

NASA NTRS1984

Writing executable assertions to test flight software

An executable assertion is a logical statement about the variables or a block of code. If there is no error during execution, the assertion statement results in a true value. Executable assertions can be used for dynamic testing of software. They can be employed for validation during the design phase, and exception and error detection during the operation phase. The present investigation is concerned with the problem of writing executable assertions, taking into account the use of assertions for testing flight software. They can be employed for validation during the design phase, and for exception handling and error detection during the operation phase The digital flight control system and the flight control software are discussed. The considered system provides autopilot and flight director modes of operation for automatic and manual control of the aircraft during all phases of flight. Attention is given to techniques for writing and using assertions to test flight software, an experimental setup to test flight software, and language features to support efficient use of assertions.

Mahmood, A.↗

NASA NTRS2011

Software Displays Data on Active Regions of the Sun

The Solar Active Region Display System is a computer program that generates, in near real time, a graphical display of parameters indicative of the spatial and temporal variations of activity on the Sun. These parameters include histories and distributions of solar flares, active region growth, coronal mass ejections, size, and magnetic configuration. By presenting solar-activity data in graphical form, this program accelerates, facilitates, and partly automates what had previously been a time-consuming mental process of interpretation of solar-activity data presented in tabular and textual formats. Intended for original use in predicting space weather in order to minimize the exposure of astronauts to ionizing radiation, the program might also be useful on Earth for predicting solar-wind-induced ionospheric effects, electric currents, and potentials that could affect radio-communication systems, navigation systems, pipelines, and long electric-power lines. Raw data for the display are obtained automatically from the Space Environment Center (SEC) of the National Oceanic and Atmospheric Administration (NOAA). Other data must be obtained from the NOAA SEC by verbal communication and entered manually. The Solar Active Region Display System automatically accounts for the latitude dependence of the rate of rotation of the Sun, by use of a mathematical model that is corrected with NOAA SEC active-region position data once every 24 hours. The display includes the date, time, and an image of the Sun in H light overlaid with latitude and longitude coordinate lines, dots that mark locations of active regions identified by NOAA, identifying numbers assigned by NOAA to such regions, and solar-region visual summary (SRVS) indicators associated with some of the active regions. Each SRVS indicator is a small pie chart containing five equal sectors, each of which is color-coded to provide a semiquantitative indication of the degree of hazard posed by one aspect of the activity at the indicated location. The five aspects in question are the history of solar flares, the history of coronal mass ejections, the growth or decay of activity, the overall size, and the magnetic configuration. Mouse-clicking on an active-region-marking dot, SRVS indicator, or NOAA region number causes the program to generate a solar-region summary table (SRT) for the active region in question. The SRT contains additional quantitative and qualitative data, beyond those contained in the SRVS: These data include the solar coordinates of the region, the area of the region and its change in area during the past 24 hours, the change in the number of sunspots in the region during the past 24 hours, the magnetic configuration, and the types, dates, and times of the most recent flare and coronal mass ejection.

Golightly, Mike↗

DOE OSTI2026

Nondestructive Evaluation of Carbon Fiber Reinforced Polymers

The American Society of Mechanical Engineers Boiler and Pressure Vessel Code requires repair and replacement of safety-related piping materials to meet the original Construction Code; however, no construction criteria currently exist for carbon fiber reinforced polymer (CFRP) materials in the nuclear industry. Although nondestructive examination (NDE) techniques for cast and wrought ferritic and austenitic steels are well established, licensees are increasingly deploying novel materials such as CFRP for which assessment of the use of NDE is required, as the inspectability of such materials and the influence of manufacturing processes on inspectability remain insufficiently understood. To address these gaps, Pacific Northwest National Laboratory (PNNL) evaluated the fabrication of several CFRP repair mockups and the effectiveness of NDE methods to support regulatory review of CFRP repairs in nuclear power plant applications. Representative flat-plate mockups containing realistic fabrication defects were manufactured and inspected using manual and automated tap testing, dynamic response spectroscopy (DRS), and ultrasonic testing (UT). The study identified significant fabrication variability, particularly in controlling defect size and epoxy thickness, which strongly influenced defect detectability by NDE methods. Tap testing was effective for shallow defects in thin epoxy configurations but unreliable for thicker repairs and deeper flaws. DRS demonstrated higher sensitivity to dry spots but produced unconfirmed indications for thicker plates, requiring further validation. Conventional UT, particularly at 1.0 MHz, showed the strongest overall capability for detecting a range of defects, although performance degraded with increasing repair thickness and complexity. The results highlight the need to better define critical defect sizes, develop reliable mockup fabrication methods, and validate NDE methods needed to support CFRP repairs.

36 MATERIALS SCIENCE↗