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At least 865 records · Page 48

Production Operations Management System (POMS) for Fermilab Experiments

The Production Operations Management System (POMS) software allows production teams and analysis groups across multiple Fermilab experiments to launch, modify and monitor large scale campaigns of related Monte Carlo or data processing jobs, and currently manages the majority of production computing of experiments at Fermilab.POMS provides a web service interface that enables automated job submission on distributed resources according to customers’ requests, as well as subsequent monitoring of those submissions as well as recovery of failed submissions, debugging and record keeping.POMS interfaces with existing HEP data access, processing, movement and monitoring tools at Fermilab, including Jobsub (for job submission), SAM (for data management), and Landscape (for monitoring), and in combination with them handles the creation of intermediate datasets of files for multistage campaigns.POMS visualizes these campaigns with an interactive GUI interface. An important feature of POMS is a one-to-one connection between the GUI campaign visualizer and a text based representation of the complete campaign configuration. An extensible library of template campaign configurations is available. The templates are user modifiable and map cleanly to and from the GUI description of the campaign.This paper will discuss the current usage, history, and some technical details of POMS, as well as planned future extensions, particularly interfacing with Rucio as well as SAM for file movement.

Mengel, Marc↗

GenomeDepot: data management system for microbial comparative genomics

Summary GenomeDepot is an open-source web-based platform for annotation, management, and comparative analysis of microbial genomic sequences and associated data including ortholog families, protein domains, operons, regulatory interactions, strain taxonomy, and sample metadata. GenomeDepot supports rapid creation of websites for user-defined genome collections that include bioinformatic tools for interactive genome browsing, Basic Local Alignment Search Tool (BLAST) search, annotation search, comparative genomic neighborhood visualization, and sequence download. Gene function annotations are generated by a customizable annotation pipeline. The pipeline runs annotation tools in Conda environments and can be easily extended with additional user-specified tools. Availability and implementation GenomeDepot is open source and distributed under the GNU General Public License via GitHub (https://github.com/aekazakov/genome-depot). GenomeDepot is implemented in Python and was tested in Ubuntu Linux. Full installation instructions and documentation are available at https://aekazakov.github.io/genome-depot/. GenomeDepot demo server is freely accessible at https://iseq.lbl.gov/demogd/.

Kazakov, Alexey [Lawrence Berkeley National Labora↗

KG-Hub—building and exchanging biological knowledge graphs

Knowledge graphs (KGs) are a powerful approach for integrating heterogeneous data and making inferences in biology and many other domains, but a coherent solution for constructing, exchanging, and facilitating the downstream use of KGs is lacking. Here we present KG-Hub, a platform that enables standardized construction, exchange, and reuse of KGs. Features include a simple, modular extract–transform–load pattern for producing graphs compliant with Biolink Model (a high-level data model for standardizing biological data), easy integration of any OBO (Open Biological and Biomedical Ontologies) ontology, cached downloads of upstream data sources, versioned and automatically updated builds with stable URLs, web-browsable storage of KG artifacts on cloud infrastructure, and easy reuse of transformed subgraphs across projects. Current KG-Hub projects span use cases including COVID-19 research, drug repurposing, microbial–environmental interactions, and rare disease research. KG-Hub is equipped with tooling to easily analyze and manipulate KGs. KG-Hub is also tightly integrated with graph machine learning (ML) tools which allow automated graph ML, including node embeddings and training of models for link prediction and node classification.

59 BASIC BIOLOGICAL SCIENCES↗

Process Improvement in a Radically Changing Organization

This presentation describes how the NASA Glenn Research Center planned and implemented a process improvement effort in response to a radically changing environment. As a result of a presidential decision to redefine the Agency's mission, many ongoing projects were canceled and future workload would be awarded based on relevance to the Exploration Initiative. NASA imposed a new Procedural Requirements standard on all future software development, and the Center needed to redesign its processes from CMM Level 2 objectives to meet the new standard and position itself for CMMI. The intended audience for this presentation is systems/software developers and managers in a large, research-oriented organization that may need to respond to imposed standards while also pursuing CMMI Maturity Level goals. A set of internally developed tools will be presented, including an overall Process Improvement Action Item database, a formal inspection/peer review tool, metrics collection spreadsheet, and other related technologies. The Center also found a need to charter Technical Working Groups (TWGs) to address particular Process Areas. In addition, a Marketing TWG was needed to communicate the process changes to the development community, including an innovative web site portal.

Varga, Denise M.↗

A Collaborative Web-Based Approach to Planning Research, Integration, and Testing Using a Wiki

The National Aeronautics and Space Administration Integrated Vehicle Health Management program touches on many different research areas while striving to enable the automated detection, diagnosis, prognosis, and mitigation of adverse events at the aircraft and system level. At the system level, the research focus is on the evaluation of multidisciplinary integrated methods, tools, and technologies for achieving the program goal. The participating program members form a diverse group of government, industry, and academic researchers. The program team developed the Research and Test Integration Plan in order to track significant test and evaluation activities, which are important for understanding, demonstrating, and communicating the overall project state and project direction. The Plan is a living document, which allows the project team the flexibility to construct conceptual test scenarios and to track project resources. The Plan also incorporates several desirable feature requirements for Plan users and maintainers. A wiki has proven to be the most efficient and effective means of implementing the feature requirements for the Plan. The wiki has proven very valuable as a research project management tool, and there are plans to expand its scope.

Delaney, Michael M.↗

Assessing and Promoting Functional Resilience in Flight Crews During Exploration Missions

The NASA Human Research Program works to mitigate risks to health and performance on extended missions. However, research should be directed not only to mitigating known risks, but also to providing crews with tools to assess and enhance resilience, as a group and individually. We can draw on ideas from complexity theory to assess resilience. The entire crew or the individual crewmember can be viewed as a complex system composed of subsystems; the interactions between subsystems are of crucial importance. Understanding the interactions can provide important information even in the absence of complete information on the component subsystems. Enabled by advances in noninvasive measurement of physiological and behavioral parameters, subsystem monitoring can be implemented within a mission and during training to establish baselines. Coupled with mathematical modeling, this can provide assessment of health and function. Since the web of physiological systems (and crewmembers) can be interpreted as a network in mathematical terms, we can draw on recent work that relates the structure of such networks to their resilience (ability to self-organize in the face of perturbation). Some of the many parameters and interactions to choose from include: sleep cycles, coordination of work and meal times, cardiorespiratory rhythms, circadian rhythms and body temperature, stress markers and cognition, sleep and performance, immune function and nutritional status. Tools for resilience are then the means to measure and analyze these parameters, incorporate them into models of normal variability and interconnectedness, and recognize when parameters or their couplings are outside of normal limits.

Shelhamer, M.↗

DEPRECATED Hasty [SWR-20-80]

DEPRECATED This repository was archived by the owner on Nov 18, 2022. It is now read-only. The software is a web app to create semantic metadata models, namely, Haystack and Brick. The purpose of Hasty is to assist in the auditing of building mechanical systems and controls. The software is designed to capture mechanical system topology and important information regarding real world controls implementations. The tool is intended to output Brick / Haystack / ASHRAE 223 compliant models.

Mosiman, Cory↗

WELLBASE - An Interactive Platform for Wellbore Material Assessment

This project seeks to build an open-source wellbore material data repository with adequate material performance and contextual data to support Geological Carbon Storage (GCS). By appropriately evaluating the data types as mentioned earlier made available by the WELLBASE tool, stakeholders can make more informed decisions regarding well selections, risk assessment, and economic analysis for geologic carbon storage projects. Advanced Natural Language Processing models and other custom python scripts will be deployed in an automated process to extract unstructured data from documents, reports, and web applications and subsequently parse to more usable formats. The processed data will then be integrated into a robust and comprehensive database architecture, optimizing data accessibility, and usability for analytical purposes. The final data products will be accessible through a user-friendly visualization platform that will allow users to query and visualize the data, as well as download data in usable formats.

Tetteh, Daniel A.↗

Two Phase Flow and Space-Based Applications

A reduced gravity environment offers the ability to remove the effect of buoyancy on two phase flows whereby density differences that normally would promote relative velocities between the phases and also alter the shape of the interface are removed. However, besides being a potent research tool, there are also many space-based technologies that will either utilize or encounter two-phase flow behavior, and as a consequence, several questions must be addressed. This paper presents some of these technologies missions. Finally, this paper gives a description of web-sites for some funding.

McQuillen, John↗

Unstructured Grid Adaptation and Solver Technology for Turbulent Flows

Unstructured grid adaptation is a tool to control Computational Fluid Dynamics (CFD) discretization error. However, adaptive grid techniques have made limited impact on production analysis workflows where the control of discretization error is critical to obtaining reliable simulation results. Issues that prevent the use of adaptive grid methods are identified by applying unstructured grid adaptation methods to a series of benchmark cases. Once identified, these challenges to existing adaptive workflows can be addressed. Unstructured grid adaptation is evaluated for test cases described on the Turbulence Modeling Resource (TMR) web site, which documents uniform grid refinement of multiple schemes. The cases are turbulent flow over a Hemisphere Cylinder and an ONERA M6Wing. Adaptive grid force and moment trajectories are shown for three integrated grid adaptation processes with Mach interpolation control and output error based metrics. The integrated grid adaptation process with a finite element (FE) discretization produced results consistent with uniform grid refinement of fixed grids. The integrated grid adaptation processes with finite volume schemes were slower to converge to the reference solution than the FE method. Metric conformity is documented on grid/metric snapshots for five grid adaptation mechanics implementations. These tools produce anisotropic boundary conforming grids requested by the adaptation process.

Park, Michael A.↗

An Expertise Recommender using Web Mining

This report explored techniques to mine web pages of scientists to extract information regarding their expertise, build expertise chains and referral webs, and semi automatically combine this information with directory information services to create a recommender system that permits query by expertise. The approach included experimenting with existing techniques that have been reported in research literature in recent past , and adapted them as needed. In addition, software tools were developed to capture and use this information.

Joshi, Anupam↗

Integration of Dynamic Models in Range Operations

This work addresses the various model interactions in real-time to make an efficient internet based decision making tool for Shuttle launch. The decision making tool depends on the launch commit criteria coupled with physical models. Dynamic interaction between a wide variety of simulation applications and techniques, embedded algorithms, and data visualizations are needed to exploit the full potential of modeling and simulation. This paper also discusses in depth details of web based 3-D graphics and applications to range safety. The advantages of this dynamic model integration are secure accessibility and distribution of real time information to other NASA centers.

Bardina, Jorge↗

Interactive Multi-Instrument Database of Solar Flares

The fundamental motivation of the project is that the scientific output of solar research can be greatly enhanced by better exploitation of the existing solar/heliosphere space-data products jointly with ground-based observations. Our primary focus is on developing a specific innovative methodology based on recent advances in "big data" intelligent databases applied to the growing amount of high-spatial and multi-wavelength resolution, high-cadence data from NASA's missions and supporting ground-based observatories. Our flare database is not simply a manually searchable time-based catalog of events or list of web links pointing to data. It is a preprocessed metadata repository enabling fast search and automatic identification of all recorded flares sharing a specifiable set of characteristics, features, and parameters. The result is a new and unique database of solar flares and data search and classification tools for the Heliophysics community, enabling multi-instrument/multi-wavelength investigations of flare physics and supporting further development of flare-prediction methodologies.

Heliophysics↗

NASA biological and physical sciences databases: who’s the FAIRest of them all?

Conceptual models are a key part of the foundation of scientific study. Scientific data discovery and retrieval are often inaccurate and incomplete because these models are not sufficiently well-incorporated into data retrieval systems. Systems often don’t provide the necessary tools to those producing scientific data to fully and unambiguously annotate them and the result is consumers of the data cannot find them efficiently. The capability of data archives to provide these tools to link data to underlying conceptual models is one of dimensions of the recently developed “FAIR” principles (https://www.go-fair.org/fair-principles/ ), and is key to many automated processes being able to operate on these data, particularly analytics involving artificial intelligence. We used an open-source web service to measure the FAIR compliance of the three data archives operated by NASA for the biological and physical sciences: the Life Sciences Data Archive, the Physical Sciences Informatics database, and GeneLab. The service ingests references to data sets in these archives, and then executes domain-non-specific examinations of these data and metadata that test compliance to the FAIR principles. Of the 22 metrics tested, GeneLab passed 11 (50%), and PSI and LSDA each passed 7 (32%). These data were gathered using only one representative data set from each archive and we anticipate variability in results as we continue to apply these metrics to other data. A preliminary study of the failure traces for each metric suggests there is a wide range of effort and complexity in the enhancements required for each system to elevate FAIR compliance, and this is the subject of continued investigation. This information has been and will likely continue to be important information in planning these enhancements, with the goal of increased readiness of the data for automated processes.

database↗

Low-Earth Orbit Flight Test of an Inflatable Decelerator (LOFTID) Aeroshell Performance

On November 10, 2022, NASA launched the Low-earth Orbit Flight Test of an Inflatable Decelerator (LOFTID) vehicle as a secondary payload mounted inside the launch vehicle adaptor on an Atlas V 401 out of the Vandenburg Space Force Base (VSFB). The primary payload, Joint Polar Satellite System-2 (JPSS-2), was delivered successfully to a sun synchronous trajectory shortly after launch, at which point the Centaur upper stage performed a burn to de-orbit the system. Once on the desired trajectory to enter the atmosphere the top of the payload adaptor was ejected to expose the LOFTID vehicle, then the LOFTID aeroshell, a Hypersonic Inflatable Aerodynamic Decelerator (HIAD), was deployed and inflated without issue. The Centaur pointed the LOFTID to the desired attitude to enter the atmosphere, spun the assembly to three rpm, separated the reentry vehicle, and finally performed a collision avoidance maneuver to prevent the Centaur from re-contacting the LOFTID after atmospheric entry. The LOFTID vehicle maintained the design attitude and spin rate from separation to atmospheric entry, roughly 30 minutes, demonstrating the aeroshell did not experience any energy damping from inflatable structure flexibility. The LOFTID vehicle entered the atmosphere over Alaska at >8km/sec and decelerated as designed demonstrating stable flight from hypersonic entry through subsonic parachute deployment. On-board visible light cameras captured the reactions of the heatshield through all phases of flight, and co-located infrared light cameras captured the temperature distribution of the aft side of the heat shield anchored to a distribution of thermocouples on the inflatable structure (IS) in the field of view. Thermocouples were also embedded in the forward side of the aeroshell both in the Flexible Thermal Protection System (FTPS) as well as the IS. This paper will discuss aeroshell response to the atmospheric entry. The visible light cameras captured mechanical response of the deployable aeroshell to the loads applied in the different phases of entry. Events seen on the visible light cameras correlate with the response of the load cell pins on webbing elements that attach the aeroshell to the centerbody structure. Thermocouple data captured verifies the aerothermal response of the aeroshell was in-kind with pre-flight analysis predictions although somewhat lower in most locations. This data will allow the improvement of the aeroshell modeling tools predictive capability. Post-flight inspection of the aeroshell after splash down and ocean recovery shows that all the aeroshell materials and manufacturing techniques developed over the past 15 years of HIAD technology development performed as designed at large scale, a scale which cannot be replicated in ground test facilities. The HIAD supported the LOFTID vehicle high in the water after touching down under parachute and maintained buoyancy and integrity for the hour it took to position the recovery vessel near the LOFTID after splash down. There was no indication the HIAD would have experienced an issue maintaining buoyancy for many more hours after water impact as the component maintained adequate inflation pressure more than 24 hours after water extraction with no additional inflation gas in tanks, as the inflation gas remaining in the tank was vented prior to impact.

Entry Descent Landing Atmospheric Entry Deployable↗

Technical Note: NASAaccess – A Tool for Access, Reformatting, and Visualization of Remotely Sensed Earth Observation and Climate Data

The National Aeronautics and Space Administration (NASA) has launched a new initiative, the Open-Source Science Initiative (OSSI), to enable and support science towards openness. The OSSI supports open-source software development and dissemination. In this work, we present NASAaccess, which is an open-source software package and web-based environmental modeling application for earth observation data accessing, reformatting, and presenting quantitative data products. The main objective of developing the NASAaccess platform is to facilitate exploration, modeling, and understanding of earth data for scientists, stakeholders, and concerned citizens whose objectives align with the new OSSI goals. The NASAaccess platform is available as software packages (i.e., the R and conda packages) as well as an interactive-format web-based environmental modeling application for earth observation data developed with Tethys Platform. NASAaccess has been envisioned as lowering the technical barriers and simplifying the process of accessing scalable distributed computing resources and leveraging additional software for data and computationally intensive modeling frameworks. Specifically, NASAaccess has been developed to meet the need for seamless earth observation remote-sensing and climate data ingestion into various hydrological modeling frameworks. Moreover, NASAaccess is also contributing to keeping interested parties and stakeholders engaged with environmental modeling, accessing the information available in various remote-sensing products. NASAaccess' current capabilities cover various NASA datasets and products that include the Global Precipitation Measurement (GPM) data products, the Global Land Data Assimilation System (GLDAS) land surface states and fluxes, and the NASA Earth Exchange Global Daily Downscaled Projections (NEX-GDDP) Coupled Model Intercomparison Project Phase 5 (CMIP5) and Coupled Model Intercomparison Project Phase 6 (CMIP6) climate change dataset products.

Ibrahim Nourein Mohammed↗

Modeling Atmospheric Science Knowledge from Research Publications

NASA Earth Science Data Centers contain enormous amounts of remote sensing digital data. It is often a significant challenge for users to find data suitable for their research topic in these vast archives. One of the approaches is the usage-driven dataset discovery, where users seek publications on projects similar to their intended study. For this approach to be effective, users need a clear connection between the underlying data in the publications and the study objectives; this is not often apparent to non-expert users. Tools and methodologies that can help facilitate and organize these connections are therefore valuable for creating improved knowledge mappings, which can be further used by search engines to suggest data or publications best tailored to a user’s specific research goal. As an illustration of these challenges, in this work we focus on the atmospheric chemistry processes related to Earth environmental impacts such as ozone depletion, aerosols, smog formation, acid rain, and radiative forcing. We further limit our study to publications that use data from the Microwave Limb Sounder (MLS) instrument flown on the Aura Earth Observing System. To create knowledge representations of science carried out in these publications, we use existing ontologies such as the Global Change Master Directory (GCMD) and Semantic Web for Earth and Environmental Terminology (SWEET). These ontologies together encompass term dictionaries that include measured variables, names of molecules or radicals, mission and instrument names, locations, action words, among many others. Based on these terms acknowledge graph database was populated with the terms retrieved from scientific publications that study atmospheric chemistry. These databases can be used to further enhance the automation of knowledge discovery and facilitate machine learning and artificial intelligence algorithms or applications. These tools and methods can also be extended to apply to content from other related Earth science domains.

Irina Gerasimov↗

MyCrunchGPT: A LLM Assisted Framework for Scientific Machine Learning

Scientific machine learning (SciML) has advanced recently across many different areas in computational science and engineering. Here, the objective is to integrate data and physics seamlessly without the need of employing elaborate and computationally taxing data assimilation schemes. However, preprocessing, problem formulation, code generation, postprocessing, and analysis are still time- consuming and may prevent SciML from wide applicability in industrial applications and in digital twin frameworks. Here, we integrate the various stages of SciML under the umbrella of ChatGPT, to formulate MyCrunchGPT, which plays the role of a conductor orchestrating the entire workflow of SciML based on simple prompts by the user. Specifically, we present two examples that demonstrate the potential use of MyCrunchGPT in optimizing airfoils in aerodynamics, and in obtaining flow fields in various geometries in interactive mode, with emphasis on the validation stage. To demonstrate the flow of the MyCrunchGPT, and create an infrastructure that can facilitate a broader vision, we built a web app based guided user interface, that includes options for a comprehensive summary report. The overall objective is to extend MyCrunchGPT to handle diverse problems in computational mechanics, design, optimization and controls, and general scientific computing tasks involved in SciML, hence using it as a research assistant tool but also as an educational tool. While here the examples focus on fluid mechanics, future versions will target solid mechanics and materials science, geophysics, systems biology, and bioinformatics.

97 MATHEMATICS AND COMPUTING↗