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At least 1,315 records · Page 73

Subsetting and Formatting Landsat-7 LOR ETM+ and Data Products

The Landsat-7 Processing System (LPS) processes Landsat-7 Enhanced Thematic Mapper (ETM+) instrument data into large, contiguous segments called "subintervals" and stores them in Level OR (LOR) data files. The LPS processed subinterval products must be subsetted and reformatted before the Level I processing systems can ingest them. The initial full subintervals produced by the LPS are stored mainly in HDF Earth Observing System (HDF-EOS) format which is an extension to the Hierarchical Data Format (HDF). The final LOR products are stored in native HDF format. Primarily the EOS Core System (ECS) and alternately the DAAC Emergency System (DES) subset the subinterval data for the operational Landsat-7 data processing systems. The HDF and HDF-EOS application programming interfaces (APIs) can be used for extensive data subsetting and data reorganization. A stand-alone subsetter tool has been developed which is based on some of the DES code. This tool makes use of the HDF and HDFEOS APIs to perform Landsat-7 LOR product subsetting and demonstrates how HDF and HDFEOS can be used for creating various configurations of full LOR products. How these APIs can be used to efficiently subset, format, and organize Landsat-7 LOR data as demonstrated by the subsetter tool and the DES is discussed.

Reid, Michael R.↗

Exploiting CRIC to streamline the configuration management of GlideinWMS factories for CMS support

GlideinWMS is a workload management and provisioning system that allows sharing computing resources distributed over independent sites. Based on the requests made by GlideinWMS frontends, a dynamically sized pool of resources is created by GlideinWMS pilot factories via pilot job submission to resource sites’ CEs. More than 400 CEs are currently serving more than ten virtual organizations through GlideinWMS, with CMS being the biggest user with 230 CEs. The complex configurations of the parameters defining resource requests, as submitted to those CEs, have been historically managed by manually editing a set of different XML files. New possibilities arise with CMS adopting the CRIC, an information system that collects, aggregates, stores, and exposes, among other things, computing resource data coming from various data providers. The paper will describe the challenges faced when CMS started to use CRIC to automatically generate the GlideinWMS factory configurations. The architecture of the prototype, and the ancillary tools developed to ease this transition, will be discussed. Finally, future plans and milestones will be outlined.

Dost, Jeffrey↗

Onboard shuttle on-line software requirements system: Prototype

The prototype discussed here was developed as proof of a concept for a system which could support high volumes of requirements documents with integrated text and graphics; the solution proposed here could be extended to other projects whose goal is to place paper documents in an electronic system for viewing and printing purposes. The technical problems (such as conversion of documentation between word processors, management of a variety of graphics file formats, and difficulties involved in scanning integrated text and graphics) would be very similar for other systems of this type. Indeed, technological advances in areas such as scanning hardware and software and display terminals insure that some of the problems encountered here will be solved in the near-term (less than five years). Examples of these solvable problems include automated input of integrated text and graphics, errors in the recognition process, and the loss of image information which results from the digitization process. The solution developed for the Online Software Requirements System is modular and allows hardware and software components to be upgraded or replaced as industry solutions mature. The extensive commercial software content allows the NASA customer to apply resources to solving the problem and maintaining documents.

Kolkhorst, Barbara↗

Optode Images, and Dissolved Oxygen Data from Sand and Sediment Flow-through Column Experiments associated with: "2-D Imaging of Dissolved Oxygen Concentration in Flow-Through Sediment Columns"

This data package is associated with the publication "2-D Imaging of Dissolved Oxygen Concentration in Flow-Through Sediment Columns" submitted to Frontiers in Water (Garayburu-Caruso et al., 2022). This work presents a novel application of planar optode technology to sediment columns that allows the study of well-constrained flow fields without the need to assume completely homogeneous flow. We introduce a flow-through column with the interior coated in an oxygen sensing film and a series of sampling ports as a unique tool capable of capturing changes in dissolved oxygen (DO) at high frequency (10 s) and spatial (< 1 mm) resolution across the length of a column. In addition, we provide custom scripts that allows image processing steps to be automated and consistently reproduced over a variety of experimental conditions. This dataset is comprised of four folders (1) 01_Riverbed_Sediment_Experiment, (2) 02_Sand_Experiment, (3) 01_Riverbed_Sediment_Raw_Images, and (4) 02_Sand_Experiment_Raw_Images. 01_Riverbed_Sediment_Experiment contains (1) a subfolder with csv files that contain statistical parameters from the linear regressions applied to each optode image, (2) a subfolder with csv files from DO data measured by in-line sensors, (3) a subfolder with csv files containing column and injection specific input parameters for the image processing script, and (4) a subfolder with scripts used to process the images and create associated figures. 02_Sand_Experiment contains (1) a subfolder with csv files containing column and injection-specific input parameters for the image processing script, and (2) a subfolder with scripts used to process the images and create associated figures. 01_Riverbed_Sediment_Raw_Images (spited in 3 parts due to size) contains a subfolder with raw red, and green images from the optode system during the MilliQ Injection, Vanillin Injection or Vanillin + Sampling Injection respectively. 02_Sand_Experiment_Raw_Images contains a subfolder with raw red, and green images from the optode system. Outside of the main folders there is a csv containing file-level metadata and a csv data dictionary defining column headers for all csv files contained in the data package.

54 ENVIRONMENTAL SCIENCES↗

Automatic Command Sequence Generation

Automatic Sequence Generator (Autogen) Version 3.0 software automatically generates command sequences for the Mars Reconnaissance Orbiter (MRO) and several other JPL spacecraft operated by the multi-mission support team. Autogen uses standard JPL sequencing tools like APGEN, ASP, SEQGEN, and the DOM database to automate the generation of uplink command products, Spacecraft Command Message Format (SCMF) files, and the corresponding ground command products, DSN Keywords Files (DKF). Autogen supports all the major multi-mission mission phases including the cruise, aerobraking, mapping/science, and relay mission phases. Autogen is a Perl script, which functions within the mission operations UNIX environment. It consists of two parts: a set of model files and the autogen Perl script. Autogen encodes the behaviors of the system into a model and encodes algorithms for context sensitive customizations of the modeled behaviors. The model includes knowledge of different mission phases and how the resultant command products must differ for these phases. The executable software portion of Autogen, automates the setup and use of APGEN for constructing a spacecraft activity sequence file (SASF). The setup includes file retrieval through the DOM (Distributed Object Manager), an object database used to store project files. This step retrieves all the needed input files for generating the command products. Depending on the mission phase, Autogen also uses the ASP (Automated Sequence Processor) and SEQGEN to generate the command product sent to the spacecraft. Autogen also provides the means for customizing sequences through the use of configuration files. By automating the majority of the sequencing generation process, Autogen eliminates many sequence generation errors commonly introduced by manually constructing spacecraft command sequences. Through the layering of commands into the sequence by a series of scheduling algorithms, users are able to rapidly and reliably construct the desired uplink command products. With the aid of Autogen, sequences may be produced in a matter of hours instead of weeks, with a significant reduction in the number of people on the sequence team. As a result, the uplink product generation process is significantly streamlined and mission risk is significantly reduced. Autogen is used for operations of MRO, Mars Global Surveyor (MGS), Mars Exploration Rover (MER), Mars Odyssey, and will be used for operations of Phoenix. Autogen Version 3.0 is the operational version of Autogen including the MRO adaptation for the cruise mission phase, and was also used for development of the aerobraking and mapping mission phases for MRO.

Fisher, Forest↗

RAVEN, a New Software for Dynamic Risk Analysis

RAVEN is a generic software driver to perform parametric and probabilistic analysis of code simulating complex systems. Initially developed to provide dynamic risk analysis capabilities to the RELAP-7 code [1] is currently being generalized with the addition of Application Programming Interfaces (APIs). These interfaces are used to extend RAVEN capabilities to any software as long as all the parameters that need to be perturbed are accessible by inputs files or directly via python interfaces. RAVEN is capable to investigate the system response probing the input space using Monte Carlo, grid strategies, or Latin Hyper Cube schemes, but its strength is its focus toward system feature discovery like limit surfaces separating regions of the input space leading to system failure using dynamic supervised learning techniques. The paper will present an overview of the software capabilities and their implementation schemes followed by same application examples.

97 MATHEMATICS AND COMPUTING↗

Aerial Measuring System - Analysis of the Releasable Data Set

This is a collection of spectral data files obtained from AMS flights over areas in and around Las Vegas and the Nevada National Security Site. These are being made available for anyone to analyze and compare results with those in the accompanying report. The data files are attached to the PDF as Excel CSV format files.

99 GENERAL AND MISCELLANEOUS↗

Interactive digital signal processor

The Interactive Digital Signal Processor (IDSP) is examined. It consists of a set of time series analysis Operators each of which operates on an input file to produce an output file. The operators can be executed in any order that makes sense and recursively, if desired. The operators are the various algorithms used in digital time series analysis work. User written operators can be easily interfaced to the sysatem. The system can be operated both interactively and in batch mode. In IDSP a file can consist of up to n (currently n=8) simultaneous time series. IDSP currently includes over thirty standard operators that range from Fourier transform operations, design and application of digital filters, eigenvalue analysis, to operators that provide graphical output, allow batch operation, editing and display information.

Mish, W. H.↗

Performance Analysis of Large Scale HPC Workflows for Earth System Models

Climate assessment reports, such as the Intergovernmental Panel on Climate Change’s 5th assesment report [IPCC AR5; IPCC et al., 2014] or the United States National Climate Assessment [U.S. Global Change Research Program, 2014], increasingly rely on many-ensemble climate projections from fully-coupled Earth system models (ESM) to asses possible future climate states. ESM participate in a large set of Coupled Model Intercomparson Projects (CMIP) to better understand their models and the climate system, so that they may provide credible climate projections. However, fully participating in these intercomparison exercises represents an extremely large computational personnel burden for modeling centers [Eyring et al., 2016, Williams et al., 2016a]. However, there has been little attention within the climate modeling community paid to the in situ performance of ESMs up until now. Recently a computational performance model intercomparison project (CPMIP) for CMIP6 has begun [Balaji et al., 2017], but there has not yet been an effort to gather, process, and analyze the historical performance data that has been saved within archived log files from previous modeling efforts, nor the development of performance analysis system capable of providing detailed statistical analyses or visualizations of this performance data. Therefore, we’ve begun a joint effort to analyze the historical and current performance data on both GFDL and OLCF modeling systems. Here, we have developed a preliminary performance analysis system to captue, analyize, and visualize end-to-end in situ performance data and applied it to NOAA/GFDL’s post-processing system. Through the course of the project a number of performance improvements have been made, with the steps necessary to handle the expected volume of data (Big Data) likely to come out of the CMIP6 exercises (TB to PB) provided. We have also begun developing a statistical workload model that will allow modeling centers to determined their expected scientific throughput in the context of expected resource (computational and personnel) availability and accounting for typical workflow disruptions. This will allow them to develop a CMIP participation strategy and maximize their level of participation in the exercises. We expect this infrastructure, and the data it produces, to ultimately allow us to identify performance issues and workflow errors that exist across Earth system modeling centers, and possibly HPC modeling centers in general. Center-independent solutions to workflow or performance issues would help alleviate the computational burden for CMIP6+ modeling projects and should realize both labor and cost savings benefits throughout the CMIP community.

54 ENVIRONMENTAL SCIENCES↗

The Environment for Application Software Integration and Execution (EASIE) version 1.0. Volume 4: System installation and maintenance guide

The Environment for Application Software Integration and Execution (EASIE) provides both a methodology and a set of software utility programs to ease the task of coordinating engineering design and analysis codes. This document provides necessary information for installing the EASIE software on a host computer system. The target host is a DEX VAX running VMS version 4; host dependencies are noted when appropriate. Relevant directories and individual files are identified, and compile/load/execute sequences are specified. In the case of the data management utilities, database management system (DBMS) specific features are described in an effort to assist the maintenance programmer in converting to a new DBMS. The document also describes a sample EASIE program directory structure to guide the program implementer in establishing his/her application dependent environment.

Randall, Donald P.↗

Lessons Learned From Developing Three Generations of Remote Sensing Science Data Processing Systems

The Biospheric Information Systems Branch at NASA s Goddard Space Flight Center has developed three generations of Science Investigator-led Processing Systems for use with various remote sensing instruments. The first system is used for data from the MODIS instruments flown on NASA s Earth Observing Systems @OS) Terra and Aqua Spacecraft launched in 1999 and 2002 respectively. The second generation is for the Ozone Measuring Instrument flying on the EOS Aura spacecraft launched in 2004. We are now developing a third generation of the system for evaluation science data processing for the Ozone Mapping and Profiler Suite (OMPS) to be flown by the NPOESS Preparatory Project (NPP) in 2006. The initial system was based on large scale proprietary hardware, operating and database systems. The current OMI system and the OMPS system being developed are based on commodity hardware, the LINUX Operating System and on PostgreSQL, an Open Source RDBMS. The new system distributes its data archive across multiple server hosts and processes jobs on multiple processor boxes. We have created several instances of this system, including one for operational processing, one for testing and reprocessing and one for applications development and scientific analysis. Prior to receiving the first data from OMI we applied the system to reprocessing information from the Solar Backscatter Ultraviolet (SBUV) and Total Ozone Mapping Spectrometer (TOMS) instruments flown from 1978 until now. The system was able to process 25 years (108,000 orbits) of data and produce 800,000 files (400 GiB) of level 2 and level 3 products in less than a week. We will describe the lessons we have learned and tradeoffs between system design, hardware, operating systems, operational staffing, user support and operational procedures. During each generational phase, the system has become more generic and reusable. While the system is not currently shrink wrapped we believe it is to the point where it could be readily adopted, with substantial cost savings, for other similar tasks.

Tilmes, Curt↗

Constraints on Future Analysis Metadata Systems in High Energy Physics

In high energy physics (HEP), analysis metadata comes in many forms—from theoretical cross-sections, to calibration corrections, to details about file processing. Correctly applying metadata is a crucial and often time-consuming step in an analysis, but designing analysis metadata systems has historically received little direct attention. Among other considerations, an ideal metadata tool should be easy to use by new analysers, should scale to large data volumes and diverse processing paradigms, and should enable future analysis reinterpretation. This document, which is the product of community discussions organised by the HEP Software Foundation, categorises types of metadata by scope and format and gives examples of current metadata solutions. Important design considerations for metadata systems, including sociological factors, analysis preservation efforts, and technical factors, are discussed. A list of best practices and technical requirements for future analysis metadata systems is presented. These best practices could guide the development of a future cross-experimental effort for analysis metadata tools.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Dataset and scripts for manuscript "Using Neural Network Ensembles to Separate Ocean Biogeochemical and Physical Drivers of Phytoplankton Biogeography in Earth System Models"

Please note: The title of this version contains an updated title for the manuscript compared to the previous version of this dataset. This is only due to title updates during the peer review process for the manuscript. The zip file contains the scripts, functions, and source files for the manuscript titled "Using Neural Network Ensembles to Separate Ocean Biogeochemical and Physical Drivers of Phytoplankton Biogeography in Earth System Models." The manuscript has been submitted for peer review. Please consult the README file for information on the specifications of the files. These files may occasionally be updated to add annotations to the scripts to make them more user friendly and to correct any errors.

54 ENVIRONMENTAL SCIENCES↗

Knowledge-based machine indexing from natural language text: Knowledge base design, development, and maintenance

One strategy for machine-aided indexing (MAI) is to provide a concept-level analysis of the textual elements of documents or document abstracts. In such systems, natural-language phrases are analyzed in order to identify and classify concepts related to a particular subject domain. The overall performance of these MAI systems is largely dependent on the quality and comprehensiveness of their knowledge bases. These knowledge bases function to (1) define the relations between a controlled indexing vocabulary and natural language expressions; (2) provide a simple mechanism for disambiguation and the determination of relevancy; and (3) allow the extension of concept-hierarchical structure to all elements of the knowledge file. After a brief description of the NASA Machine-Aided Indexing system, concerns related to the development and maintenance of MAI knowledge bases are discussed. Particular emphasis is given to statistically-based text analysis tools designed to aid the knowledge base developer. One such tool, the Knowledge Base Building (KBB) program, presents the domain expert with a well-filtered list of synonyms and conceptually-related phrases for each thesaurus concept. Another tool, the Knowledge Base Maintenance (KBM) program, functions to identify areas of the knowledge base affected by changes in the conceptual domain (for example, the addition of a new thesaurus term). An alternate use of the KBM as an aid in thesaurus construction is also discussed.

Genuardi, Michael T.↗

Digital Elevation Model, 0.25 m, Barrow Environmental Observatory, Utqiagvik (Barrow), Alaska, 2013

This 0.25m horizontal resolution digital elevation model (DEM) was developed from Airborne Laser Altimetry flown by Aerometric Inc, now known as Quantum Spatial, Inc. on July 12, 2013. One Mission was flown and the data jointly processed with LANL personnel to produce a 0.25m DEM covering a region approximately 2.8km wide and 12.4km long extending from the coast above North Salt Lagoon to south of Gas Well Road. This DEM encompasses a diverse range of hydrologic, geomorphic, geophysical and biological features typical of the Barrow Peninsula. Vertical accuracy at the 95% confidence interval was computed as 0.143m. The coordinate system, datum, and geoid for this DEM are UTM Zone 4N, NAD83 (2011), NAVD88 (GEOID09). This dataset includes a variety of file types.The Next-Generation Ecosystem Experiments: Arctic (NGEE Arctic), was a research effort to reduce uncertainty in Earth System Models by developing a predictive understanding of carbon-rich Arctic ecosystems and feedbacks to climate. NGEE Arctic was supported by the Department of Energy's Office of Biological and Environmental Research.The NGEE Arctic project had two field research sites: 1) located within the Arctic polygonal tundra coastal region on the Barrow Environmental Observatory (BEO) and the North Slope near Utqiagvik (Barrow), Alaska and 2) multiple areas on the discontinuous permafrost region of the Seward Peninsula north of Nome, Alaska.Through observations, experiments, and synthesis with existing datasets, NGEE Arctic provided an enhanced knowledge base for multi-scale modeling and contributed to improved process representation at global pan-Arctic scales within the Department of Energy's Earth system Model (the Energy Exascale Earth System Model, or E3SM), and specifically within the E3SM Land Model component (ELM).

54 ENVIRONMENTAL SCIENCES↗

Identifying Predictive Factors for Incident Reports in Patients Receiving Radiation Therapy

Purpose: To describe radiation therapy cases during which voluntary incident reporting occurred; and identify patient- or treatment-specific factors that place patients at higher risk for incidents. Methods and Materials: We used our institution's incident learning system to build a database of patients with incident reports filed between January 2011 and December 2013. Patient- and treatment-specific data were reviewed for all patients with reported incidents, which were classified by step in the process and root cause. A control group of patients without events was generated for comparison. Summary statistics, likelihood ratios, and mixed-effect logistic regression models were used for group comparisons. Results: The incident and control groups comprised 794 and 499 patients, respectively. Common root causes included documentation errors (26.5%), communication (22.5%), technical treatment planning (37.5%), and technical treatment delivery (13.5%). Incidents were more frequently reported in minors (age <18 years) than in adult patients (37.7% vs 0.4%, P<.001). Patients with head and neck (16% vs 8%, P<.001) and breast (20% vs 15%, P=.03) primaries more frequently had incidents, whereas brain (18% vs 24%, P=.008) primaries were less frequent. Larger tumors (17% vs 10% had T4 lesions, P=.02), and cases on protocol (9% vs 5%, P=.005) or with intensity modulated radiation therapy/image guided intensity modulated radiation therapy (52% vs 43%, P=.001) were more likely to have incidents. Conclusions: We found several treatment- and patient-specific variables associated with incidents. These factors should be considered by treatment teams at the time of peer review to identify patients at higher risk. Larger datasets are required to recommend changes in care process standards, to minimize safety risks.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

Crystal structure of lubiprostone Polymorph B, C 20 H 32 F 2 O 5

The crystal structure of lubiprostone has been refined using synchrotron X-ray powder diffraction data, and optimized using density functional techniques. Lubiprostone crystallizes in space group P 1 (#1) with a = 9.02025(2), b = 10.72121(2), c = 12.32817(4) Å, α = 78.5566(2), β = 69.6858(2), γ = 77.3292(2)°, V = 1081.069(3) Å 3 , and Z = 2. The two independent molecules occur in an extended conformation, aligned approximately along the c -axis. The hydrophobic side chains are adjacent to each other, resulting in layers parallel to the ac plane. The two carboxylic acid groups form an eight-membered ring, resulting in dimers of the two independent molecules. Each hydroxyl group acts as a hydrogen bond donor to the ketone of the fused ring system. The powder pattern is included in the Powder Diffraction File™ as entry 00-066-1622.

Kaduk, James A. (ORCID:000000016610541X)↗

TU-C-17A-03: An Integrated Contour Evaluation Software Tool Using Supervised Pattern Recognition for Radiotherapy

Purpose: Radiotherapy (RT) contours delineated either manually or semiautomatically require verification before clinical usage. Manual evaluation is very time consuming. A new integrated software tool using supervised pattern contour recognition was thus developed to facilitate this process. Methods: The contouring tool was developed using an object-oriented programming language C# and application programming interfaces, e.g. visualization toolkit (VTK). The C# language served as the tool design basis. The Accord.Net scientific computing libraries were utilized for the required statistical data processing and pattern recognition, while the VTK was used to build and render 3-D mesh models from critical RT structures in real-time and 360° visualization. Principal component analysis (PCA) was used for system self-updating geometry variations of normal structures based on physician-approved RT contours as a training dataset. The inhouse design of supervised PCA-based contour recognition method was used for automatically evaluating contour normality/abnormality. The function for reporting the contour evaluation results was implemented by using C# and Windows Form Designer. Results: The software input was RT simulation images and RT structures from commercial clinical treatment planning systems. Several abilities were demonstrated: automatic assessment of RT contours, file loading/saving of various modality medical images and RT contours, and generation/visualization of 3-D images and anatomical models. Moreover, it supported the 360° rendering of the RT structures in a multi-slice view, which allows physicians to visually check and edit abnormally contoured structures. Conclusion: This new software integrates the supervised learning framework with image processing and graphical visualization modules for RT contour verification. This tool has great potential for facilitating treatment planning with the assistance of an automatic contour evaluation module in avoiding unnecessary manual verification for physicians/dosimetrists. In addition, its nature as a compact and stand-alone tool allows for future extensibility to include additional functions for physicians’ clinical needs.

62 RADIOLOGY AND NUCLEAR MEDICINE↗