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At least 37 records · Page 2

Transformation of the NASA Life Sciences Portal to a FAIR Data Point

The FAIR principles emphasize optimizing metadata, the vast majority of which are textual in nature, and often organized into attribute name-value pairs. This uniformity has led to the development of guidelines and best practices for providing programmatic access to scientific data through their metadata, yielding the first iteration of the FAIR Data Point Specifications (FDPS). A key feature of the FDPS is its support for automated agents seeking and fetching data without first needing to learn a plethora of different application programming interfaces. These software agents can interrogate metadata catalogs that adhere to FDPS in a uniform manner because each catalog describes itself and its metadata schema consistently. This approach enhances the sustainability of data retrieval support, allowing systems to refine and update their metadata schemas as needed and without requiring data-seeking software agents to change how they interrogate FDPS catalogs. An essential aspect of the FDPS is the standardization of data catalog semantics, which formalizes concepts such as “metadata” and “metadata service” and links them to other concepts specifications including the Data Catalog Vocabulary (DCAT), a W3C standard that is also the basis of NASA-STD-2831 “Metadata Standard for Data Discoverability,” authored by NASA’s Office of the Chief Information Officer. The FDPS references DCAT (version 2) elements which focus on the distribution of datasets and support the goal of stream-lined catalog integration across repositories for improved data discovery. Additionally, the FDPS also prescribe the use of Linked Data Platform elements for data catalog-metadata record containment descriptions, allowing users to ascertain which data and metadata belong to which catalogs. NASA’s Life Sciences Portal is implementing the FDPS while formalizing its metadata schema to support the accelerated synthesis of knowledge from space life sciences investigations.

platform↗

An interactive environment for the analysis of large Earth observation and model data sets

Envision is an interactive environment that provides researchers in the earth sciences convenient ways to manage, browse, and visualize large observed or model data sets. Its main features are support for the netCDF and HDF file formats, an easy to use X/Motif user interface, a client-server configuration, and portability to many UNIX workstations. The Envision package also provides new ways to view and change metadata in a set of data files. It permits a scientist to conveniently and efficiently manage large data sets consisting of many data files. It also provides links to popular visualization tools so that data can be quickly browsed. Envision is a public domain package, freely available to the scientific community. Envision software (binaries and source code) and documentation can be obtained from either of these servers: ftp://vista.atmos.uiuc.edu/pub/envision/ and ftp://csrp.tamu.edu/pub/envision/. Detailed descriptions of Envision capabilities and operations can be found in the User's Guide and Reference Manuals distributed with Envision software.

Bowman, Kenneth P.↗

SysCaps (Language Interfaces for Simulation Surrogates of Complex Systems) [SWR-24-97]

You've found the official code repository for the paper "SysCaps: Language Interfaces for Simulation Surrogates of Complex Systems," presented at the Foundation Models for Science: Progress, Opportunities, and Challenges workshop at NeurIPS 2024. Our paper conjectures that interfaces (both text templates as well as conversational) makes interacting with simulation surrogate models for complex systems more intuitive and accessible for both non-experts and experts. "System captions", or SysCaps, are text-based descriptions of systems based on information contained in simulation metadata. Our paper's goal is to train multimodal regression models that take text inputs (SysCaps) and timeseries inputs (exogenous system conditions such as hourly weather) and regress timeseries simulation outputs (e.g. hourly building energy consumption). The experiments in our paper with building and wind farm simulators, which can be reproduced using this codebase, aim to help us understand whether a) accurate regression in this setting is possible and b) if so, how well can we do it. Paper: https://arxiv.org/abs/2405.19653

Emami, Patrick↗

Data Model Management for Space Information Systems

The Reference Architecture for Space Information Management (RASIM) suggests the separation of the data model from software components to promote the development of flexible information management systems. RASIM allows the data model to evolve independently from the software components and results in a robust implementation that remains viable as the domain changes. However, the development and management of data models within RASIM are difficult and time consuming tasks involving the choice of a notation, the capture of the model, its validation for consistency, and the export of the model for implementation. Current limitations to this approach include the lack of ability to capture comprehensive domain knowledge, the loss of significant modeling information during implementation, the lack of model visualization and documentation capabilities, and exports being limited to one or two schema types. The advent of the Semantic Web and its demand for sophisticated data models has addressed this situation by providing a new level of data model management in the form of ontology tools. In this paper we describe the use of a representative ontology tool to capture and manage a data model for a space information system. The resulting ontology is implementation independent. Novel on-line visualization and documentation capabilities are available automatically, and the ability to export to various schemas can be added through tool plug-ins. In addition, the ingestion of data instances into the ontology allows validation of the ontology and results in a domain knowledge base. Semantic browsers are easily configured for the knowledge base. For example the export of the knowledge base to RDF/XML and RDFS/XML and the use of open source metadata browsers provide ready-made user interfaces that support both text- and facet-based search. This paper will present the Planetary Data System (PDS) data model as a use case and describe the import of the data model into an ontology tool. We will also describe the current effort to provide interoperability with the European Space Agency (ESA)/Planetary Science Archive (PSA) which is critically dependent on a common data model.

RDF↗

EXCHANGE Campaign Degradation (ECD): Understanding Decomposition Dynamics Across Mid-Atlantic and Great Lakes Coastal Ecosystems

The EXploration of Coastal Hydrobiogeochemistry Across a Network of Gradients and Experiments (EXCHANGE) Degradation Experiment (EXCHANGE-D) is an in situ experiment designed to assess organic matter decomposition rates across coastal terrestrial-aquatic interfaces (TAIs), from coastal uplands through transition zones to wetlands. Through a network of partner scientists and coastal sites, we are testing how environmental gradients shape decomposition and carbon dynamics across terrestrial-aquatic interfaces. Using standardized tea bag substrates deployed across a network of diverse coastal sites, we compare decomposition rates at different fresh- and salt-water TAIs to develop transferable knowledge that improves the representation of organic matter degradation in coastal ecosystem models. For more information, please see https://compass.pnnl.gov/FME/EXCHANGE. This is Version 1 of the data package, which includes: ecd_README.pdf flmd.csv dd.csv ecd_soil_weom_L2.csv ecd_soil_ph_conductivity_L2.csv ecd_soil_gwc_L2.csv ecd_soil_teabag_degradation_L2.csv ecd_readme.pdf

coastal soils↗

Gap-filled methane and carbon dioxide fluxes across two ecosystem states at the US-OWC AmeriFlux site (2015−2016, 2020−2022)

This dataset contains gap-filled measurements of methane flux (FCH4), net ecosystem CO2 exchange (NEE) partitioned into gross primary productivity (GPP) and ecosystem respiration (RE), as well as latent heat flux (LE) from a Great Lakes coastal freshwater wetland at the US-OWC AmeriFlux site. The dataset covers the peak growing seasons (June−September) of 2015−2016, dominated by Typha spp., and 2020−2022, characterized by floating-leaved species (lotus and water lily). These data were generated to investigate how rising water levels and vegetation shifts influence CH4 and CO2 fluxes across two distinct ecosystem states in this wetland. The dataset, provided in CSV format, includes half-hourly gap-filled flux data from June to September for 2015, 2016, 2020, 2021, and 2022. The gap-filled data refers to measurements where missing values due to instrument issues or quality control were filled using artificial neural networks (ANNs).

54 ENVIRONMENTAL SCIENCES↗

Sally Ride EarthKAM - Automated Image Geo-Referencing Using Google Earth Web Plug-In

Sally Ride EarthKAM is an educational program funded by NASA that aims to provide the public the ability to picture Earth from the perspective of the International Space Station (ISS). A computer-controlled camera is mounted on the ISS in a nadir-pointing window; however, timing limitations in the system cause inaccurate positional metadata. Manually correcting images within an orbit allows the positional metadata to be improved using mathematical regressions. The manual correction process is time-consuming and thus, unfeasible for a large number of images. The standard Google Earth program allows for the importing of KML (keyhole markup language) files that previously were created. These KML file-based overlays could then be manually manipulated as image overlays, saved, and then uploaded to the project server where they are parsed and the metadata in the database is updated. The new interface eliminates the need to save, download, open, re-save, and upload the KML files. Everything is processed on the Web, and all manipulations go directly into the database. Administrators also have the control to discard any single correction that was made and validate a correction. This program streamlines a process that previously required several critical steps and was probably too complex for the average user to complete successfully. The new process is theoretically simple enough for members of the public to make use of and contribute to the success of the Sally Ride EarthKAM project. Using the Google Earth Web plug-in, EarthKAM images, and associated metadata, this software allows users to interactively manipulate an EarthKAM image overlay, and update and improve the associated metadata. The Web interface uses the Google Earth JavaScript API along with PHP-PostgreSQL to present the user the same interface capabilities without leaving the Web. The simpler graphical user interface will allow the public to participate directly and meaningfully with EarthKAM. The use of similar techniques is being investigated to place ground-based observations in a Google Mars environment, allowing the MSL (Mars Science Laboratory) Science Team a means to visualize the rover and its environment.

Andres, Paul M.↗

MSLICE Science Activity Planner for the Mars Science Laboratory Mission

MSLICE (Mars Science Laboratory InterfaCE) is the tool used by scientists and engineers on the Mars Science Laboratory rover mission to visualize the data returned by the rover and collaboratively plan its activities. It enables users to efficiently and effectively search all mission data to find applicable products (e.g., images, targets, activity plans, sequences, etc.), view and plan the traverse of the rover in HiRISE (High Resolution Imaging Science Experiment) images, visualize data acquired by the rover, and develop, model, and validate the activities the rover will perform. MSLICE enables users to securely contribute to the mission s activity planning process from their home institutions using off-the-shelf laptop computers. This software has made use of several plug-ins (software components) developed for previous missions [e.g., Mars Exploration Rover (MER), Phoenix Mars Lander (PHX)] and other technology tasks. It has a simple, intuitive, and powerful search capability. For any given mission, there is a huge amount of data and associated metadata that is generated. To help users sort through this information, MSLICE s search interface is provided in a similar fashion as major Internet search engines. With regard to the HiRISE visualization of the rover s traverse, this view is a map of the mission that allows scientists to easily gauge where the rover has been and where it is likely to go. The map also provides the ability to correct or adjust the known position of the rover through the overlaying of images acquired from the rover on top of the HiRISE image. A user can then correct the rover s position by collocating the visible features in the overlays with the same features in the underlying HiRISE image. MSLICE users can also rapidly search all mission data for images that contain a point specified by the user in another image or panoramic mosaic. MSLICE allows the creation of targets, which provides a way for scientists to collaboratively name features on the surface of Mars. These targets can also be used to convey instrument-pointing information to the activity plan. The software allows users to develop a plan of what they would like the rover to accomplish for a given time period. When developing the plan, the user can input constraints between activities or groups of activities. MSLICE will enforce said constraints and ensure that all mission flight rules are satisfied.

Powell, Mark W.↗

A Global Repository for Planet-Sized Experiments and Observations

Working across U.S. federal agencies, international agencies, and multiple worldwide data centers, and spanning seven international network organizations, the Earth System Grid Federation (ESGF) allows users to access, analyze, and visualize data using a globally federated collection of networks, computers, and software. Its architecture employs a system of geographically distributed peer nodes that are independently administered yet united by common federation protocols and application programming interfaces (APIs). The full ESGF infrastructure has now been adopted by multiple Earth science projects and allows access to petabytes of geophysical data, including the Coupled Model Intercomparison Project (CMIP) output used by the Intergovernmental Panel on Climate Change assessment reports. Data served by ESGF not only include model output (i.e., CMIP simulation runs) but also include observational data from satellites and instruments, reanalyses, and generated images. Metadata summarize basic information about the data for fast and easy data discovery.

Earth Systems Grid Federation (ESGFC)↗

Datacasting V3.0

Datacasting V3.0 provides an RSSbased feed mechanism for publishing the availability of Earth science data records in real time. It also provides a utility for subscribing to these feeds and sifting through all the items in an automatic manner to identify and download the data records that are required for a specific application. Datacasting is a method by which multiple data providers can publish the availability of new Earth science data and users download those files that meet a predefined need; for example, to only download data files related to a specific earthquake or region on the globe. Datacasting is a server-client architecture. The server-side software is used by data providers to create and publish the metadata about recently available data according to the Datacasting RSS (Really Simple Syndication) specification. The client software subscribes to the Datacasting RSS and other RSS-based feeds. By configuring filters associated with feeds, data consumers can use the client to identify and automatically download files that meet a specific need. On the client side, a Datacasting feed reader monitors the server for new feeds. The feed reader will be tuned by the user, via a graphical user interface (GUI), to examine the content of the feeds and initiate a data pull after some criteria are satisfied. The criteria might be, for example, to download sea surface temperature data for a particular region that has cloud cover less than 50% and during daylight hours. After the granule is downloaded to the client, the user will have the ability to visualize the data in the GUI. Based on the popular concept of podcasting, which gives listeners the capability to download only those MP3 files that match their preference, Earth science Datacasting will give users a method to download only the Earth science data files that are required for a particular application.

Bingham, Andrew W.↗

Coping with all the earth science data

A report on the NASA-sponsored Earth Science and Applications Data Systems (ESADS) Workshop is presented. The ESADS report is reviewed and the task groups of the workshop are listed. The program set up to implement the recommendations of the workshop is discussed. The priorities of the ESADS committee recommendations include the development of standards and guidelines for data and metadata exchange, the creation of interoperable catalogs and directories, the development of guidelines for ancillary data archives, development of standard user interfaces, providing greater bandwidth in the user environment, collecting information about data storage technologies, and providing improved network connectivity.

Kahn, Ralph↗

Label-based Virtual Directories In dCache

Traditional filesystems organize data in directories. These directories are typically a collection of files whose grouping is based on a single criterion, e.g., the starting date of an experiment, experiment name, beamline ID, measurement device, or instrument. However, each file in a directory can belong to several logical groups, such as a special event type, experiment condition, or a part of a selected dataset. dCache is a storage system developed to store large amounts of scientific data, used by many HEP and Photon Science experiments. With recent developments in dCache, we have introduced a concept of file tagging, which dynamically groups files with the same label into virtual directories. The file labels can be added, removed, renamed, and deleted through the admin interface or via REST API. The files in virtual directories are exposed through all protocols supported by dCache. This contribution will describe the details of the implementation for file tagging in dCache and present our future development plans on automatic metadata extractions, a feature that will significantly simplify data management. Additionally, we are exploring the future use of virtual directories as a way to translate scientific data catalogs into filesystem views for direct data analysis.

Sahakyan, Marina [DESY]↗

ISAIA: Interoperable Systems for Archival Information Access

The ISAIA project was originally proposed in 1999 as a successor to the informal AstroBrowse project. AstroBrowse, which provided a data location service for astronomical archives and catalogs, was a first step toward data system integration and interoperability. The goals of ISAIA were ambitious: '...To develop an interdisciplinary data location and integration service for space science. Building upon existing data services and communications protocols, this service will allow users to transparently query hundreds or thousands of WWW-based resources (catalogs, data, computational resources, bibliographic references, etc.) from a single interface. The service will collect responses from various resources and integrate them in a seamless fashion for display and manipulation by the user.' Funding was approved only for a one-year pilot study, a decision that in retrospect was wise given the rapid changes in information technology in the past few years and the emergence of the Virtual Observatory initiatives in the US and worldwide. Indeed, the ISAIA pilot study was influential in shaping the science goals, system design, metadata standards, and technology choices for the virtual observatory. The ISAIA pilot project also helped to cement working relationships among the NASA data centers, US ground-based observatories, and international data centers. The ISAIA project was formed as a collaborative effort between thirteen institutions that provided data to astronomers, space physicists, and planetary scientists. Among the fruits we ultimately hoped would come from this project would be a central site on the Web that any space scientist could use to efficiently locate existing data relevant to a particular scientific question. Furthermore, we hoped that the needed technology would be general enough to allow smaller, more-focused community within space science could use the same technologies and standards to provide more specialized services. A major challenge to searching for data across a broad community is that information that describe some data products are either not relevant to other data or not applicable in the same way. Some previous metadata standard development efforts (e.g., in the earth science and library communities) have produced standards that are very large and difficult to support. To address this problem, we studied how a standard may be divided into separable pieces. Data providers that wish to participate in interoperable searches can support only those parts of the standard that are relevant to them. We prototyped a top-level metadata standard that was small and applicable to all space science data.

Hanisch, Robert J.↗

Increasing Accessibility of the Runs-on-Request Metadata, Data, and Services at the Community Coordinated Modeling Center

Space weather models are essential to our ability to understand and predict space weather events. For over 20 years, the Community Coordinated Modeling Center (CCMC, https://ccmc.gsfc.nasa.gov) has been providing transformative tools and platforms for hosting space weather models and associated services, free and open to anyone interested in studying space weather. Runs-on-Request system (ROR) is one of the popular services at CCMC that permits researchers and other end-users to exercise cutting-edge hosted heliophysics and space weather models using a simple web interface, as well as collaborate on an extensive and continuously growing archive of over 28,000 model run results. Similar to other projects at CCMC, ROR has grown as a community project that strives to be open and transparent to its users. In this poster, we discuss some of our recent efforts to further expose ROR data, metadata, and services to the end users through both custom and community-developed access protocols. We also discuss how in-house science support provided by the CCMC team plays a paramount role in making ROR data and services truly accessible by the community.

Maksym Petrenko↗

Real-Time Exposure Control and Instrument Operation With the NEID Spectrograph GUI

The NEID spectrograph on the WIYN 3.5-m telescope at Kitt Peak has completed its first full year of science operations and is reliably delivering sub-m/s precision radial velocity measurements. The NEID instrument control system uses the TIMS package (Bender et al. 2016), which is a client-server software system built around the twisted python software stack. During science observations, interaction with the NEID spectrograph is handled through a pair of graphical user interfaces (GUIs), written in PyQT, which wrap the underlying instrument control software and provide straightforward and reliable access to the instrument. Here, we detail the design of these interfaces and present an overview of their use for NEID operations. Observers can use the NEID GUIs to set the exposure time, signal-to-noise ratio (SNR) threshold, and other relevant parameters for observations, configure the calibration bench and observing mode, track or edit observation metadata, and monitor the current state of the instrument. These GUIs facilitate automatic spectrograph configuration and target ingestion from the nightly observing queue, which improves operational efficiency and consistency across epochs. By interfacing with the NEID exposure meter, the GUIs also allow observers to monitor the progress of individual exposures and trigger the shutter on user-defined SNR thresholds. In addition, inset plots of the instantaneous and cumulative exposure meter counts as each observation progresses allow for rapid diagnosis of changing observing conditions as well as guiding failure and other emergent issues.

Arvind F Gupta↗

New GES DISC Services Shortening the Path in Science Data Discovery

The Current GES DISC available services only allow user to select variables from a single dataset at a time and too many variables from a dataset are displayed, choice is hard. At American Geophysical Union (AGU) 2016 Fall Meeting, Goddard Earth Sciences Data Information Services Center (GES DISC) unveiled a new service: Datalist. A Datalist is a collection of predefined or user-defined data variables from one or more archived datasets. Our science support team curated predefined datalist and provided value to the user community. Imagine some novice user wants to study hurricane and typed in hurricane in the search box. The first item in the search result is GES DISC provided Hurricane Datalist. It contains scientists recommended variables from multiple datasets like TRMM, GPM, MERRA, etc. Datalist uses the same architecture as that of our new website, which also provides one-stop shopping for data, metadata, citation, documentation, visualization and other available services.We implemented Datalist with new GES DISC web architecture, one single web page that unified all user interfaces. From that webpage, users can find data by either type in keyword, or browse by category. It also provides user with a sophisticated integrated data and services package, including metadata, citation, documentation, visualization, and data-specific services, all available from one-stop shopping.

Datalist↗

New developments in space radiation research at NASA: Annotating data using a novel radiation biology ontology

Like many interdisciplinary sciences, data producers and consumers in the field of radiation biology often use a wide variety of terminology to describe their experiments and data. Furthermore, space systems and technologies are rapidly evolving, and a shared understanding and common terminology for these is also lacking. The efficiency of research organizations can be enhanced by standardizing metadata through the use of knowledge resources like ontologies. Employing a sophisticated model such as a formal ontology to standardize metadata enables automated data acquisition processes and supports more complete, accurate meta-analysis through more efficient and complete data discovery and retrieval, particularly when using multiple data sources. Thus, we developed the Radiation Biology Ontology (RBO) in order to improved radiation biology metadata uniformity and transparency. We used open-source software (the Ontology Development Kit, Protégé and WebProtégé) and worked within the OBO Foundry framework, which includes a set of ontology development principles and practices for ontology consistency, uniformity, and accountability. The RBO has now been incorporated into two radiation research data repositories, NASA’s GeneLab omics database (https://genelab.nasa.gov), and the European Commission STORE database (https://www.storedb.org/). Continuous build integration tools allowed our international RBO collaboration to be more efficient and focus its efforts on semantic model design. Currently, the RBO contains over 300 annotated classes and individuals specific to the study of radiation on biological systems, as well as imports of many additional classes from other OBO Foundry ontologies that relate to and/or provide context for these RBO entities. We publish the RBO through the OBO Foundry, so that it is available for browsing, download, and querying through NCBI Bioportal web site and application programming interface. The NASA Ames Life Science Data Archive (ALSDA) is also in the process of adopting use of the RBO, taking NASA one step closer to a knowledge-based system for space biology data. It is our hope that the global communities of radiation research Investigators, data curators and data analysts can similarly leverage the RBO and will contribute to its further development.

radiation↗

Interdisciplinary Research Scenario Testing of EOSDIS

During the reporting period, the Principle Investigator (PI) has continued to serve on numerous review panels, task forces and committees with the goal of providing input and guidance for the Earth Observing System Data and Information System (EOSDIS) program at NASA Headquarters and NASA GSFC. In addition, the PI has worked together with personnel at the University of Virginia and the subcontractor (Simpson Weather Associates (SWA)) to continue to evaluate the latest releases of various versions of the user interfaces to the EOSDIS. Finally, as part of the subcontract, SWA has created an on-line Hierarchial Data Format (HDF) tutorial for non-HDF experts, particularly those that will be using EOSDIS and future EOS data products. A summary of these three activities is provided. The topics include: 1) Participation on EODIS Panels and Committees; 2) Evaluation and Tire Kicking of EODIS User Interfaces; and 3) An On-line HDF Tutorial. The report also includes attachments A, B, and C. Attachment A: Report From the May 1999 Science Data Panel. The topics include: 1) Summary of Data Panel Meeting; and 2) Panel's Comments/Recommendations. Attachment B: Survey Requesting Integrated Design Systems (IDS) Teams Input on the Descoping and Rescoping of the EODIS; and Attachment C: An HDF Tutorial for Beginners: EODIS Users and Small Data Providers (HTML Version). The topics include: 1) Tutorial Overview; 2) An introduction to HDF; 3) The HDF Library: Software and Hardware; 4) Methods of Working with HDF Files; 5) Scientific Data API; 6) Attributes and Metadata; 7) Writing a SDS to an HDF file; 8) Obtaining Information on Existing HDF Files; 9) Reading a Scientific Data Set from an HDF file: 10) Example Programs; 11) Browsing and Visualizing HDF Data; and 12) Laboratory (Question and Answer).

Emmitt, G. D.↗