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At least 883 records · Page 49

The Galaxy platform for accessible, reproducible, and collaborative data analyses: 2024 update

Galaxy (https://galaxyproject.org) is deployed globally, predominantly through free-to-use services, supporting user-driven research that broadens in scope each year. Users are attracted to public Galaxy services by platform stability, tool and reference dataset diversity, training, support and integration, which enables complex, reproducible, shareable data analysis. Applying the principles of user experience design (UXD), has driven improvements in accessibility, tool discoverability through Galaxy Labs/subdomains, and a redesigned Galaxy ToolShed. Galaxy tool capabilities are progressing in two strategic directions: integrating general purpose graphical processing units (GPGPU) access for cutting-edge methods, and licensed tool support. Engagement with global research consortia is being increased by developing more workflows in Galaxy and by resourcing the public Galaxy services to run them. The Galaxy Training Network (GTN) portfolio has grown in both size, and accessibility, through learning paths and direct integration with Galaxy tools that feature in training courses. Code development continues in line with the Galaxy Project roadmap, with improvements to job scheduling and the user interface. Environmental impact assessment is also helping engage users and developers, reminding them of their role in sustainability, by displaying estimated CO 2 emissions generated by each Galaxy job.

97 MATHEMATICS AND COMPUTING↗

Software System for the Mars 2020 Mission Sampling and Caching Testbeds

The development of the Sampling and Caching Subsystem (SCS) of the Mars 2020 Rover Mission is highly dependent on testing of prototype hardware and software operating in explicit conditions as part of integrated testbeds. To achieve relevant integration of hardware and software while maintaining rapid algorithm development capabilities and high testing throughput, the Controls and Autonomy for Sample Acquisition and Handling (CASAH) software system was developed. CASAH is an implementation of the Intelligent Robotics System Architecture (IRSA),which mimics JPL Flight Software (FSW) in that it is divided into hierarchical modules that run separate processes that communicate via message passing, each module is assigned an owner that is a single developer, and the operator initiates requests via a text-based interface that interprets sequences of commands.IRSA enables a modular breakdown of CASAH that follows that of 2020 Flight Software,so developers can take an algorithm from a module in CASAH and re-code it into the same module in FSW. As deployment of CASAH has grown to ten testbeds - each with different hardware and objectives - bottom-up design decisions have been intentionally made to keep the system lightweight and maintainable by a very small team. To date, CASAH has been used to run 1393 different tests. This work describes CASAH, the testbeds and functionality it supports, the tools used to manage the development and sharing of code, and the features of the software. Lessons learned over the past three years of development and deployment are provided.

Vieira, Peter↗

Enhanced Weather Radar (EWxR) System

An airborne weather radar system, the Enhanced Weather Radar (EWxR), with enhanced on-board weather radar data processing was developed and tested. The system features additional weather data that is uplinked from ground-based sources, specialized data processing, and limited automatic radar control to search for hazardous weather. National Weather Service (NWS) ground-based Next Generation Radar (NEXRAD) information is used by the EWxR system to augment the on-board weather radar information. The system will simultaneously display NEXRAD and on-board weather radar information in a split-view format. The on-board weather radar includes an automated or hands-free storm-finding feature that optimizes the radar returns by automatically adjusting the tilt and range settings for the current altitude above the terrain and searches for storm cells near the atmospheric 0-degree isotherm. A rule-based decision aid was developed to automatically characterize cells as hazardous, possibly-hazardous, or non-hazardous based upon attributes of that cell. Cell attributes are determined based on data from the on-board radar and from ground-based radars. A flight path impact prediction algorithm was developed to help pilots to avoid hazardous weather along their flight plan and their mission. During development the system was tested on the NASA B757 aircraft and final tests were conducted on the Rockwell Collins Sabreliner.

Kronfeld, Kevin M.↗

Facilitating the Use of Epidemiological Models for Infectious Disease Surveillance

1. To develop a comprehensive model characterization framework to describe epidemiological models in an operational context. 2. To apply the framework to characterize “operational” models for specific infectious diseases and provide a web-based directory, the biosurveillance analytics resource directory (BARD) to the global infectious disease surveillance community. Epidemiological modeling for infectious disease is useful for disease management and routine implementation needs to be facilitated through better description of models in an operational context. A standardized model characterization process that allows selection or making manual comparisons of available models and their results is currently lacking. Los Alamos National Laboratory(LANL) has developed a comprehensive framework that can be used to characterize an infectious disease model in an operational context. We offer this framework and an associated database to stakeholders of the infectious disease modeling field as a tool for standardizing model description and facilitating the use of epidemiological models. Such a framework could help the understanding of diverse models by various stakeholders with different preconceptions, backgrounds, expertise ,and needs, and can foster greater use of epidemiological models as tools in infectious disease surveillance. We define, “operational” as the application of an epidemiological model to a real-world event for decision support and can be used by experts and non-experts alike. The term “model” covers three major types, risk mapping, disease dynamics and anomaly detection. To develop a framework for characterizing epidemiological models we collected information via a three-step process: a literature search of model characteristics, a review of current operational infectious disease epidemiological models, and subject matter expert (SME)panel consultation. We limited selection of operational models to five infectious diseases: influenza, malaria, dengue, cholera and foot-and-mouth disease (FMD). These diseases capture a variety of transmission modes, represent high or potentially high epidemic or endemic burden, and are well represented in the literature. We also developed working criteria for what attributes can be used to comprehensively describe an operational model including a model’s documentation, accessibility, and sustainability. To apply the model characterization framework, we built the BARD, which is publicly available (http://brd.bsvgateway.org).A document was also developed to describe the usability requirements for the BARD; potential users (and non-users) and use cases are formally described to explain the scope of use. 1. Framework for model characterization. The framework is divided into six major components (Figure 1):Model Purpose, Model Objective, Model Scope, Biosurveillance(BSV) goals, Conceptual Model and Model Utility; each of which has several sub-categories for characterizing each aspect of a model.2. Application to model characterization Models for five infectious diseases—cholera, malaria, influenza, FMD and dengue were characterized using the framework and are included in the BARD database. Our framework characterized disparate models in a streamlined fashion. Model information could be binned into the same categories, allowing easy manual comparison and understanding of the models.3. Development of the BARD. Our model characterization framework was implemented into an actionable tool which provides specific information about a model that has been systematically categorized. It allows manual category-to-category comparison of multiple models for a single disease and while the tool does not rank models it provides model information in a format that allows a user to make a ranking or an assessment of the utility of the model. With the model characterization framework we hope to encourage model developers to start describing the many features of their models using a common format. We illustrate the application of the framework through the development of the BARD which is a scientific and non-biased tool for selecting an appropriate epidemiological model for infectious disease surveillance. Epidemiological models are not necessarily being developed with decision makers in mind. This gap between model developers and decision makers needs to be narrowed before modeling becomes routinely implemented in decision making. The characterization framework and the tool developed (BARD) area first step towards addressing this gap.

97 MATHEMATICS AND COMPUTING↗

Electrocardiographic changes predate Parkinson’s disease onset

Autonomic nervous system involvement precedes the motor features of Parkinson’s disease (PD). Our goal was to develop a proof-of-concept model for identifying subjects at high risk of developing PD by analysis of cardiac electrical activity. We used standard 10-s electrocardiogram (ECG) recordings of 60 subjects from the Honolulu Asia Aging Study including 10 with prevalent PD, 25 with prodromal PD, and 25 controls who never developed PD. Various methods were implemented to extract features from ECGs including simple heart rate variability (HRV) metrics, commonly used signal processing methods, and a Probabilistic Symbolic Pattern Recognition (PSPR) method. Extracted features were analyzed via stepwise logistic regression to distinguish between prodromal cases and controls. Stepwise logistic regression selected four features from PSPR as predictors of PD. The final regression model built on the entire dataset provided an area under receiver operating characteristics curve (AUC) with 95% confidence interval of 0.90 [0.80, 0.99]. The five-fold cross-validation process produced an average AUC of 0.835 [0.831, 0.839]. We conclude that cardiac electrical activity provides important information about the likelihood of future PD not captured by classical HRV metrics. Machine learning applied to ECGs may help identify subjects at high risk of having prodromal PD.

59 BASIC BIOLOGICAL SCIENCES↗

SU-F-R-45: The Prognostic Value of Radiotherapy Based On the Changes of Texture Features Between Pre-Treatment and Post-Treatment FDG PET Image for NSCLC Patients

Purpose: The purpose of this research is investigating which texture features extracted from FDG-PET images by gray-level co-occurrence matrix(GLCM) have a higher prognostic value than the other texture features. Methods: 21 non-small cell lung cancer(NSCLC) patients were approved in the study. Patients underwent 18F-FDG PET/CT scans with both pre-treatment and post-treatment. Firstly, the tumors were extracted by our house developed software. Secondly, the clinical features including the maximum SUV and tumor volume were extracted by MIM vista software, and texture features including angular second moment, contrast, inverse different moment, entropy and correlation were extracted using MATLAB.The differences can be calculated by using post-treatment features to subtract pre-treatment features. Finally, the SPSS software was used to get the Pearson correlation coefficients and Spearman rank correlation coefficients between the change ratios of texture features and change ratios of clinical features. Results: The Pearson and Spearman rank correlation coefficient between contrast and SUV maximum is 0.785 and 0.709. The P and S value between inverse difference moment and tumor volume is 0.953 and 0.942. Conclusion: This preliminary study showed that the relationships between different texture features and the same clinical feature are different. Finding the prognostic value of contrast and inverse difference moment were higher than the other three textures extracted by GLCM.

60 APPLIED LIFE SCIENCES↗

Learning the factors controlling mineral dissolution in three-dimensional fracture networks: applications in geologic carbon sequestration

We perform a set of high-fidelity simulations of geochemical reactions within three-dimensional discrete fracture networks (DFN) and use various machine learning techniques to determine the primary factors controlling mineral dissolution. The DFN are partially filled with quartz that gradually dissolves until quasi-steady state conditions are reached. At this point, we measure the quartz remaining in each fracture within the domain as our primary quantity of interest. We observe that a primary sub-network of fractures exists, where the quartz has been fully dissolved out. This reduction in resistance to flow leads to increased flow channelization and reduced solute travel times. However, depending on the DFN topology and the rate of dissolution, we observe substantial variability in the volume of quartz remaining within fractures outside of the primary subnetwork. This variability indicates an interplay between the fracture network structure and geochemical reactions. We characterize the features controlling these processes by developing a machine learning framework to extract their relevant impact. Specifically, we use a combination of high-fidelity simulations with a graph-based approach to study geochemical reactive transport in a complex fracture network to determine the key features that control dissolution. We consider topological, geometric and hydrological features of the fracture network to predict the remaining quartz in quasi-steady state. We found that the dissolution reaction rate constant of quartz and the distance to the primary sub-network in the fracture network are the two most important features controlling the amount of quartz remaining. This study is a first step towards characterizing the parameters that control carbon mineralization using an approach with integrates computational physics and machine learning.

54 ENVIRONMENTAL SCIENCES↗

The use of models to predict potential contamination aboard orbital vehicles

A model of fungal growth on air-exposed, nonnutritive solid surfaces, developed for utilization aboard orbital vehicles is presented. A unique feature of this testable model is that the development of a fungal mycelium can facilitate its own growth by condensation of water vapor from its environment directly onto fungal hyphae. The fungal growth rate is limited by the rate of supply of volatile nutrients and fungal biomass is limited by either the supply of nonvolatile nutrients or by metabolic loss processes. The model discussed is structurally simple, but its dynamics can be quite complex. Biofilm accumulation can vary from a simple linear increase to sustained exponential growth, depending on the values of the environmental variable and model parameters. The results of the model are consistent with data from aquatic biofilm studies, insofar as the two types of systems are comparable. It is shown that the model presented is experimentally testable and provides a platform for the interpretation of observational data that may be directly relevant to the question of growth of organisms aboard the proposed Space Station.

Boraas, Martin E.↗

Thermal Image Processing for Feature Extraction from Encapsulated Phase Change Materials

Encapsulated inorganic particles with high melting points (>300 °C) are desired as high-temperature Phase Change Materials (PCMs) for next-generation Latent Heat Thermal Energy Storage (LHTES) systems. One of the many challenges during the development of PCMs is to achieve a high throughput that in turn depends on accurately modeling the relation between process parameters and geometric & thermal properties of the PCMs particle. During the production of the PCMs, a high-speed infrared camera is used to acquire images of the encapsulated material under controlled illumination conditions. This research article focuses on the development of image processing techniques for both geometric and thermal feature extraction during the development of the PCMs. A user-friendly GUI has been designed in MATLAB and preliminary experimental results have demonstrated that the method is fast, accurate and reliable for a high throughput production. The extracted features will be used to develop Machine Learning (ML) models to predict the geometric and thermal properties of the PCM based on the process parameter settings. The ML model will accelerate the search for the optimized process settings to boost the throughput of the production.

25 ENERGY STORAGE↗

LISP: Program is data. A historical perspective on MACLISP

There was a continuing development of the MACLISP system, spurred in great measure by the needs of MACSYMA development. In a mosaic, historical style, the major features of the system are reported. For each feature discussed, an attempt is made to mention the year of initial development, and the names of persons or projects primarily responsible for requiring, needing, or suggesting such features.

White, J. L.↗

Aeolin Features and Processes at the Mars Pathfinder Landing Site

The Mars Pathfinder landing site contains abundant features attributed to aeolian, or wind, processes. These include wind tails, drift deposits, duneforms of various types, ripplelike features, and ventifacts (the first clearly seen on Mars). Many of these features are consistant with formation involving sand-size particles. Although some features, such as dunes, could develop from saltating sand-size aggregates of finer grains, the discovery of ventifact flutes cut in rocks strongly suggests that at least some of the grains are crystalline, rather than aggregates. Excluding the ventifacts, the orientations of the wind-related features correlate well with the orientations of bright wind steaks seen on Viking Orbiter images in the general area. They also correlate with wind direction predictions from the NASA-Ames General Circulation Model (GCM) which show that the strongest winds in the area occur in the northern hemisphere winter and are directed toward 209 degrees.

Greeley, Ronald↗

Dimmable Electronic Ballast for a Gas Discharge Lamp

Titanium dioxide (TiO2) is the most efficient photocatalyst for organic oxidative degradation. TiO2 is effective not only in aqueous solution, but also in nonaqueous solvents and in the gas phase. It is photostable, biologically and chemically inert, and non-toxic. Low-energy UV light (approximately 375 nm, UV-A) can be used to photoactivate TiO2. TiO2 photocatalysis has been used to mineralize most types of organic compounds. Also, TiO2 photocatalysis has been effectively used in sterilization. This effectiveness has been demonstrated by its aggressive destruction of microorganisms, and aggressive oxidation effects of toxins. It also has been used for the oxidation of carbon monoxide to carbon dioxide, and ammonia to nitrogen. Despite having many attractive features, advanced photocatalytic oxidation processes have not been effectively used for air cleaning. One of the limitations of the traditional photocatalytic systems is the ballast that powers (lights) the bulbs. Almost all commercial off-the-shelf (COTS) ballasts are not dimmable and do not contain safety features. COTS ballasts light the UV lamp as bright as the bulb can be lit, and this results in shorter bulb lifetime and maximal power consumption. COTS magnetic ballasts are bulky, heavy, and inefficient. Several iterations of dimmable electronic ballasts have been developed. Some manifestations have safety features such as broken-bulb or over-temperature warnings, replace-bulb alert, logbulb operational hours, etc. Several electronic ballast boards capable of independently lighting and controlling (dimming) four fluorescent (UV light) bulbs were designed, fabricated, and tested. Because of the variation in the market bulb parameters, the ballast boards were designed with a very broad range output. The ballast boards can measure and control the current (power) for each channel.

Raducanu, Marius↗

An integrated manifold learning approach for high-dimensional data feature extractions and its applications to online process monitoring of additive manufacturing

As an effective dimension reduction and feature extraction technique, manifold learning has been successfully applied to high-dimensional data analysis. With the rapid development of sensor technology, a large amount of high-dimensional data such as image streams can be easily available. Thus, a promising application of manifold learning is in the field of sensor signal analysis, particular for the applications of online process monitoring and control using high-dimensional data. The objective of this study is to develop a manifold learning-based feature extraction method for process monitoring of Additive Manufacturing (AM) using online sensor data. Due to the non-parametric nature of most existing manifold learning methods, their performance in terms of computational efficiency, as well as noise resistance has yet to be improved. To address this issue, this study proposes an integrated manifold learning approach termed multi-kernel metric learning embedded isometric feature mapping (MKML-ISOMAP) for dimension reduction and feature extraction of online high-dimensional sensor data such as images. Based on the extracted features with the utilization of supervised classification and regression methods, an online process monitoring methodology for AM is implemented to identify the actual process quality status. Finally, in the numerical simulation and real-world case studies, the proposed method demonstrates excellent performance in both prediction accuracy and computational efficiency.

36 MATERIALS SCIENCE↗

Collisional dynamics of perturbed particle disks in the solar system

Investigations of the collisional evolution of particulate disks subject to the gravitational perturbation of a more massive particle orbiting within the disk are underway. Both numerical N-body simulations using a novel collision algorithm and analytical kinetic theory are being employed to extend our understanding of perturbed disks in planetary rings and during the formation of the solar system. Particular problems proposed for investigation are: (1) The development and testing of general criteria for a small moonlet to clear a gap and produce observable morphological features in planetary rings; (2) The development of detailed models of collisional damping of the wavy edges observed on the Encke division of Saturn's A ring; and (3) The determination of the extent of runaway growth of the few largest planetesimals during the early stages of planetary accretion.

Roberts, W. W.↗

Development and verification of NASA Standard Initiator-2 (NSI-2)

The results of verification testing under NASA Contract NAS9-17249 are summarized in this Final Report. An Appendix is published separately. The report contains a brief discussion of design elements, test results, and a discussion of the latter. The contract was awarded for development and demonstration of design modifications to the NASA Standard Initiator-1 (NSI-1), resulting in the development of NSI-2. The intent of the project was to develop and prove the following design features: (1) Protection from premature initiation due to electrostatic potential by means other than a spark gap; (2) Development of an integral insulated charge cup for use with a zirconium/potassium perchlorate type mixture; (3) Improved cost and reliability figures by the use of a deposited ridge; and (4) Elimination of dudding as a result of the pyrotechnic shock effect, the movement of the primer composition away from the bridge circuit.

Corbin-Roberts, Linda↗

Development and verification of NASA Standard Initiator-2 (NSI-2): Appendix

This is the Appendix to the Final Report on the results of verification testing on NASA Contract NAS9-17249. The test results are presented graphically in the Appendix. The Final Report is a brief discussion of design elements, test results, and a discussion of the latter. The contract was awarded for development and demonstration of design modifications to the NASA Standard Initiator-1 (NSI-1), resulting in the development of NSI-2. The intent of the project was to develop and prove the following design features: (1) Protection from premature detonation due to electrostatic potential by means other than a spark gap; (2) Development of an integral insulated charge cup for use with a zirconium/potassium perchlorate type mixture; (3) Improved cost and reliability figures by the use of a deposited bridge; and (4) Elimination of dudding as a result of the pyrotechnic shock effect, the movement of the primer composition away from the bridge circuit.

Source record↗

A rule-based system for real-time analysis of control systems

An approach to automate the real-time analysis of flight critical health monitoring and system status is being developed and evaluated at the NASA Dryden Flight Research Facility. A software package was developed in-house and installed as part of the extended aircraft interrogation and display system. This design features a knowledge-base structure in the form of rules to formulate interpretation and decision logic of real-time data. This technique has been applied for ground verification and validation testing and flight testing monitoring where quick, real-time, safety-of-flight decisions can be very critical. In many cases post processing and manual analysis of flight system data are not required. The processing is described of real-time data for analysis along with the output format which features a message stack display. The development, construction, and testing of the rule-driven knowledge base, along with an application using the X-31A flight test program, are presented.

Larson, Richard R.↗