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The NASA Open Science Data Repository: Biomedical Data, Analysis Tools, and Informatic Collaborations

Increased biomedical risks and challenges associated with deep space missions require knowledge discovery, health countermeasures, and biomedical support capabilities. Maximally open-access and reusable data is needed by developers, scientists, and engineers to develop these systems. The NASA Open Science Data Repository (OSDR) is a maximally open access and FAIR database (ie., findable, accessible, interoperable, and reusable), and meets various scientific, technical, and operational needs. It offers users and submitters the ability to upload, download, search, share, analyze, cite, and visualize data across ‘omics, physiological, phenotypic, payload, hardware, behavioral, bioimaging, video, and environmental monitoring telemetry datasets. OSDR is an expanded database, based upon the successes of NASA GeneLab. OSDR has >460 studies with datasets covering model organisms to non-NASA human astronauts. There are ~12 datasets from the Inspiration 4 (I4) mission, spanning metagenomics, comprehensive metabolic panels, clonal hematopoiesis, spatial transcriptomics, proteomics, and cytokine panels. In the interest of data privacy, two I4 datasets with raw files relating to the epitranscriptome, and a new request feature is live in OSDR (with a backend review process established) developed from industry norms. OSDR is collecting and curating biomedical human data from a new sub-orbital research flight and is open to more space life science/biomedical submissions from the international and commercial sectors. OSDR also recently began a collaboration with the European Space Agency (ESA) to collect and curate >200 terabytes of human and model organism data. The OSDR submission portal is designed to ingest and curate ~25 ‘omics and ~50 physiological-phenotypic-imaging assay data types. Tools available for OSDR users include: 1) an Environmental Data Application to compare radiation, CO2, relative humidity, temperature, and other telemetry across missions and subjects, 2) the RadLab database, a collaboration between NASA, ESA, the German and Italian Space Agencies, and the Bulgarian Academy of Sciences, and 3) a Multi-study visualization tool which enables users to look across and combine ‘omics datasets. There are ~600 volunteer OSDR Analysis Working Group (AWG) members providing feedback on scientific data/metadata standards and collaborating to mine-reuse OSDR in research. OSDR/GeneLab has enabled ~60 publications reusing data as of October 2023.

space biology↗

NASA NTRS2017

Hierarchical Data Formats (HDF) Update

In this presentation, we will talk about the latest releases of HDF4 and HDF5 software and tools, new features available in HDF5, and roadmap for the HDF software. We will also solicit feedback from the users of HDF data and HDF application developers on new features and new tools. The talk will cover: Difference between 1.8 and 1.10 releases and how and when to move to the latest release Features of the recent HDF5 1.8.19, 1.10.1 and HDF 4.2.13 Overview of HDF View 3.0 and other enhancements to tools Supported compilers and systems Open discussion of new requirements and wish list of the HDF features Compression library for interoperability with h5py and Pandas and better floating-point data compression.

HDFView↗

NASA NTRS1999

Interactive Sectoring and Animation of Global Change Data

In order to analyze and share results of global change data sets, scientists require a venue in which to exchange their results. One appropriate medium for these collaborative efforts is the world wide web. Intuitive and efficient user interfaces, and background processes have been developed at the Global Hydrology and Climate Center to interactively view weather satellite, radar, global temperature anomaly, and model output data using the world wide web. These tools combine scripts, Java and C code which allows the user to easily interact with data, to create high resolution sector images, and sectored animation sequences. This paper examines the architecture and interfaces and how they are used for collaborative research.

Meyer, Paul J.↗

NASA NTRS2007

Extravehicular Activity System Sizing Analysis Tool (EVAS_SAT)

An effort was initiated by NASA/JSC in 2001 to develop an Extravehicular Activity System Sizing Analysis Tool (EVAS_SAT) for the sizing of Extravehicular Activity System (EVAS) architecture and studies. Its intent was to support space suit development efforts and to aid in conceptual designs for future human exploration missions. Its basis was the Life Support Options Performance Program (LSOPP), a spacesuit and portable life support system (PLSS) sizing program developed for NASA/JSC circa 1990. EVAS_SAT estimates the mass, power, and volume characteristics for user-defined EVAS architectures, including Suit Systems, Airlock Systems, Tools and Translation Aids, and Vehicle Support equipment. The tool has undergone annual changes and has been updated as new data have become available. Certain sizing algorithms have been developed based on industry standards, while others are based on the LSOPP sizing routines. The sizing algorithms used by EVAS_SAT are preliminary. Because EVAS_SAT was designed for use by members of the EVA community, subsystem familiarity on the part of the intended user group and in the analysis of results is assumed. The current EVAS_SAT is operated within Microsoft Excel 2003 using a Visual Basic interface system.

Brown, Cheryl B.↗

NASA NTRS1993

Design strategies and functionality of the Visual Interface for Virtual Interaction Development (VIVID) tool

Development of interactive virtual environments (VE) has typically consisted of three primary activities: model (object) development, model relationship tree development, and environment behavior definition and coding. The model and relationship tree development activities are accomplished with a variety of well-established graphic library (GL) based programs - most utilizing graphical user interfaces (GUI) with point-and-click interactions. Because of this GUI format, little programming expertise on the part of the developer is necessary to create the 3D graphical models or to establish interrelationships between the models. However, the third VE development activity, environment behavior definition and coding, has generally required the greatest amount of time and programmer expertise. Behaviors, characteristics, and interactions between objects and the user within a VE must be defined via command line C coding prior to rendering the environment scenes. In an effort to simplify this environment behavior definition phase for non-programmers, and to provide easy access to model and tree tools, a graphical interface and development tool has been created. The principal thrust of this research is to effect rapid development and prototyping of virtual environments. This presentation will discuss the 'Visual Interface for Virtual Interaction Development' (VIVID) tool; an X-Windows based system employing drop-down menus for user selection of program access, models, and trees, behavior editing, and code generation. Examples of these selection will be highlighted in this presentation, as will the currently available program interfaces. The functionality of this tool allows non-programming users access to all facets of VE development while providing experienced programmers with a collection of pre-coded behaviors. In conjunction with its existing, interfaces and predefined suite of behaviors, future development plans for VIVID will be described. These include incorporation of dual user virtual environment enhancements, tool expansion, and additional behaviors.

Nguyen, Lac↗

NASA NTRS1989

Integrated tools for control-system analysis

The basic functions embedded within a user friendly software package (MATRIXx) are used to provide a high level systems approach to the analysis of linear control systems. Various control system analysis configurations are assembled automatically to minimize the amount of work by the user. Interactive decision making is incorporated via menu options and at selected points, such as in the plotting section, by inputting data. There are five evaluations such as the singular value robustness test, singular value loop transfer frequency response, Bode frequency response, steady-state covariance analysis, and closed-loop eigenvalues. Another section describes time response simulations. A time response for random white noise disturbance is available. The configurations and key equations used for each type of analysis, the restrictions that apply, the type of data required, and an example problem are described. One approach for integrating the design and analysis tools is also presented.

Ostroff, Aaron J.↗

NASA NTRS2022

Integrating FRET with Copilot: Automated Translation of Natural Language Requirements to Runtime Monitors

Runtime verification (RV) enables monitoring systems at runtime, to detect property violations early and limit their potential consequences. To provide the level of assurance required for ultra-critical systems, monitor specifications must faithfully reflect the original mission requirements, which are often written in ambiguous natural language. This paper presents an end-to-end framework to capture requirements in structured natural language and generate monitors that capture their semantics faithfully. We leverage NASA’s Formal Requirement Elicitation Tool (FRET), and the RV system Copilot. We extend FRET with mechanisms to capture additional information needed to generate monitors, and introduce OGMA, a new tool to bridge the gap between FRET and Copilot. With this framework, users can write requirements in an intuitive format and obtain real-time C monitors suitable for use in embedded systems. Our tool chain is available as open source.

FRET↗

NASA NTRS2010

Human Factors in Training: Space Medical Proficiency Training

The early Constellation space missions are expected to have medical capabilities very similar to those currently on the Space Shuttle and the International Space Station (ISS). For Crew Exploration Vehicle (CEV) missions to the ISS, medical equipment will be located on the ISS, and carried into CEV in the event of an emergency. Flight surgeons (FS) on the ground in Mission Control will be expected to direct the crew medical officer (CMO) during medical situations. If there is a loss of signal and the crew is unable to communicate with the ground, a CMO would be expected to carry out medical procedures without the aid of a FS. In these situations, performance support tools can be used to reduce errors and time to perform emergency medical tasks. The space medical training work is part of the Human Factors in Training Directed Research Project (DRP) of the Space Human Factors Engineering (SHFE) Project under the Space Human Factors and Habitability (SHFH) Element of the Human Research Program (HRP). This is a joint project consisting of human factors team from the Ames Research Center (ARC) with Immanuel Barshi as Principal Investigator and the Johnson Space Center (JSC). Human factors researchers at JSC have recently investigated medical performance support tools for CMOs on-orbit, and FSs on the ground, and researchers at the Ames Research Center performed a literature review on medical errors. Work on medical training has been conducted in collaboration with the Medical Training Group at the Johnson Space Center (JSC) and with Wyle Laboratories that provides medical training to crew members, biomedical engineers (BMEs), and to flight surgeons under the Bioastronautics contract. One area of research building on activities from FY08, involved the feasibility of just-in-time (JIT) training techniques and concepts for real-time medical procedures. A second area of research involves FS performance support tools. Information needed by the FS during the ISS mission support, especially for an emergency situation (e.g., fire onboard ISS), may be located in many different places around the FS s console. A performance support tool prototype is being developed to address this issue by bringing all of the relevant information together in one place. The tool is designed to include procedures and other information needed by a FS during an emergency, as well as procedures and information to be used after the emergency is resolved. Several walkthroughs of the prototype with FSs have been completed within a mockup of an ISS FS console. Feedback on the current tool design as well as recommendations for existing ISS FS displays were captured. The tool could have different uses depending on the situation and the skill of the user. An experienced flight surgeon could use it during an emergency situation as a decision and performance support tool, whereas a new flight surgeon could use it as JITT, or part of his/her regular training. The work proposed for FY10 continues to build on this strong collaboration with the Space Medical Training Group and previous research.

Byrne, Vicky E.↗

NASA NTRS2013

Advanced Query and Data Mining Capabilities for MaROS

The Mars Relay Operational Service (MaROS) comprises a number of tools to coordinate, plan, and visualize various aspects of the Mars Relay network. These levels include a Web-based user interface, a back-end "ReSTlet" built in Java, and databases that store the data as it is received from the network. As part of MaROS, the innovators have developed and implemented a feature set that operates on several levels of the software architecture. This new feature is an advanced querying capability through either the Web-based user interface, or through a back-end REST interface to access all of the data gathered from the network. This software is not meant to replace the REST interface, but to augment and expand the range of available data. The current REST interface provides specific data that is used by the MaROS Web application to display and visualize the information; however, the returned information from the REST interface has typically been pre-processed to return only a subset of the entire information within the repository, particularly only the information that is of interest to the GUI (graphical user interface). The new, advanced query and data mining capabilities allow users to retrieve the raw data and/or to perform their own data processing. The query language used to access the repository is a restricted subset of the structured query language (SQL) that can be built safely from the Web user interface, or entered as freeform SQL by a user. The results are returned in a CSV (Comma Separated Values) format for easy exporting to third party tools and applications that can be used for data mining or user-defined visualization and interpretation. This is the first time that a service is capable of providing access to all cross-project relay data from a single Web resource. Because MaROS contains the data for a variety of missions from the Mars network, which span both NASA and ESA, the software also establishes an access control list (ACL) on each data record in the database repository to enforce user access permissions through a multilayered approach.

Wang, Paul↗

NASA NTRS2003

Information Power Grid (IPG) Tutorial 2003

For NASA and the general community today Grid middleware: a) provides tools to access/use data sources (databases, instruments, ...); b) provides tools to access computing (unique and generic); c) Is an enabler of large scale collaboration. Dynamically responding to needs is a key selling point of a grid. Independent resources can be joined as appropriate to solve a problem. Provide tools to enable the building of a frameworks for application. Provide value added service to the NASA user base for utilizing resources on the grid in new and more efficient ways. Provides tools for development of Frameworks.

Meyers, George↗

NASA NTRS2024

Forced Response Aeromechanics Analysis in MATLAB®-Based Environment Code With Application to Distortion-Tolerant Fan R24 Blade Geometry

Researchers at the NASA Glenn Research Center have developed a research-level code for forced response analysis for turbomachinery that provides a streamlined framework for aeromechanics analysis, as well as for generating Goodman diagrams. The Forced Response Aeromechanics Analysis in a MATLAB-Based Environment (FRAAME, Version 1) code is designed to accept blade surface unsteady pressure time histories generated by three-dimensional (3D) Unsteady Reynolds-Averaged Navier-Stokes (URANS) code TURBO and modal displacements, modal stresses, and static stresses generated via expanded ANSYS® (Ansys, Inc.) cyclic symmetry analysis. The code’s looping structure allows for largescale analyses, including many blade surface pressure files, modal displacements, and modal stress files for full annulus forced response analysis, including a modal summation method for multiple engine orders and modes. This code is applied to the R24 fan geometry for the Boundary Layer Ingesting Inlet/Distortion-Tolerant Fan (BLI2DTF) project, a propulsion system being developed to increase the fuel efficiency of future aircraft, to serve as validation of experimental data as well as external simulation results. This tool’s functional, modular form is intended to allow users to make modifications easily. Those modifications can include requests for information for any step in the analysis process, as well as adding various functions to compute additional information of interest. It is also written, given sufficient input information, as a general blade geometry forced response solver that is not necessarily specific to the R24 geometry but is used here for verification of code functionality and accuracy. Although forced response analysis tools are also available in commercially available code packages, the post-processing FRAAME code offers reliable, fast, and scalable forced response analysis and Goodman diagram generation for large cases utilizing, specifically, TURBO and ANSYS® results information in an effort to streamline forced response and high cycle fatigue analyses.

Aeromechanics↗

NASA NTRS1989

Experimenting With Multiprocessor Simulator Concepts

Multiple microcomputer system used to investigate application of parallel processing to real-time simulation. With dual-base architecture, each microcomputer communicates with corresponding microcomputer on opposite bus through dual-port interface memory. Transfers of data to and from front-end processor occur on interactive information bus. Transfers of data related to simulation calculations occur on real-time-information bus. System, called the real-time multiprocessor simulator (RTMPS), is tool for developing low-cost, portable, user-friendly simulators.

Blech, Richard A.↗

NASA NTRS1991

Programs For Modeling Fault-Tolerant Computing Systems

Pade Approximation with Scaling, (PAWS) and Scaling Taylor Exponential Matrix (STEM) computer programs are software tools for design and validation. Provide flexible, user-friendly, language-based interface for input of Markov mathematical methods describing behaviors of fault-tolerant computer systems. Markov models include both recovery from faults via reconfiguration and behaviors of such systems when faults occur. PAWS and STEM produce exact solutions of probability of system failure and provide conservative estimate of number of significant digits in solution. Written in PASCAL and FORTRAN.

Butler, Ricky W.↗

NASA NTRS1990

The environment power system analysis tool development program

The Environment Power System Analysis Tool (EPSAT) is being developed to provide space power system design engineers with an analysis tool for determining system performance of power systems in both naturally occurring and self-induced environments. The program is producing an easy to use computer aided engineering (CAE) tool general enough to provide a vehicle for technology transfer from space scientists and engineers to power system design engineers. The results of the project after two years of a three year development program are given. The EPSAT approach separates the CAE tool into three distinct functional units: a modern user interface to present information, a data dictionary interpreter to coordinate analysis; and a data base for storing system designs and results of analysis.

Jongeward, Gary A.↗

NASA NTRS1991

Software technology testbed softpanel prototype

The following subject areas are covered: analysis of using Ada for the development of real-time control systems for the Space Station; analysis of the functionality of the Application Generator; analysis of the User Support Environment criteria; analysis of the SSE tools and procedures which are to be used for the development of ground/flight software for the Space Station; analysis if the CBATS tutorial (an Ada tutorial package); analysis of Interleaf; analysis of the Integration, Test and Verification process of the Space Station; analysis of the DMS on-orbit flight architecture; analysis of the simulation architecture.

Source record↗

NASA NTRS1993

The ParaScope parallel programming environment

The ParaScope parallel programming environment, developed to support scientific programming of shared-memory multiprocessors, includes a collection of tools that use global program analysis to help users develop and debug parallel programs. This paper focuses on ParaScope's compilation system, its parallel program editor, and its parallel debugging system. The compilation system extends the traditional single-procedure compiler by providing a mechanism for managing the compilation of complete programs. Thus, ParaScope can support both traditional single-procedure optimization and optimization across procedure boundaries. The ParaScope editor brings both compiler analysis and user expertise to bear on program parallelization. It assists the knowledgeable user by displaying and managing analysis and by providing a variety of interactive program transformations that are effective in exposing parallelism. The debugging system detects and reports timing-dependent errors, called data races, in execution of parallel programs. The system combines static analysis, program instrumentation, and run-time reporting to provide a mechanical system for isolating errors in parallel program executions. Finally, we describe a new project to extend ParaScope to support programming in FORTRAN D, a machine-independent parallel programming language intended for use with both distributed-memory and shared-memory parallel computers.

Cooper, Keith D.↗

NASA NTRS1994

CLIPS, AppleEvents, and AppleScript: Integrating CLIPS with commercial software

Many of today's intelligent systems are comprised of several modules, perhaps written in different tools and languages, that together help solve the user's problem. These systems often employ a knowledge-based component that is not accessed directly by the user, but instead operates 'in the background' offering assistance to the user as necessary. In these types of modular systems, an efficient, flexible, and eady-to-use mechanism for sharing data between programs is crucial. To help permit transparent integration of CLIPS with other Macintosh applications, the AI Research Branch at NASA Ames Research Center has extended CLIPS to allow it to communicate transparently with other applications through two popular data-sharing mechanisms provided by the Macintosh operating system: Apple Events (a 'high-level' event mechanism for program-to-program communication), and AppleScript, a recently-released scripting language for the Macintosh. This capability permits other applications (running on either the same or a remote machine) to send a command to CLIPS, which then responds as if the command were typed into the CLIPS dialog window. Any result returned by the command is then automatically returned to the program that sent it. Likewise, CLIPS can send several types of Apple Events directly to other local or remote applications. This CLIPS system has been successfully integrated with a variety of commercial applications, including data collection programs, electronics forms packages, DBMS's, and email programs. These mechanisms can permit transparent user access to the knowledge base from within a commercial application, and allow a single copy of the knowledge base to service multiple users in a networked environment.

Compton, Michael M.↗

NASA NTRS1994

An intelligent ground operator support system

This paper presents first results of the project 'Technologien fuer die intelligente Kontrolle von Raumfahrzeugen' (TIKON). The TIKON objective was the demonstration of feasibility and profit of the application of artificial intelligence in the space business. For that purpose a prototype system has been developed and implemented for the operation support of the Roentgen Satellite (ROSAT), a scientific spacecraft designed to perform the first all-sky survey with a high-resolution X-ray telescope and to investigate the emission of specific celestial sources. The prototype integrates a scheduler and a diagnosis tool both based on artificial intelligence techniques. The user interface is menu driven and provides synoptic displays for the visualization of the system status. The prototype has been used and tested in parallel to an already existing operational system.

Goerlach, Thomas↗