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At least 1,765 records · Page 98

PNNL-Predictive-Phenomics/ProteoMeter

ProteoMeter is a Python package that assists in the statistical analysis of global proteomics, protein post-translation modification (PTM), and limited proteolysis (LiP) data. It contains batch correction, normalization, and statistical testing methods, as well as functions that "roll up" peptide-level data to the single-site level. It has a robust user configuration system, allowing it to flexibly integrate different types of experiment designs. For basic usage, a simple configuration file provides the essential functionality. Advanced users have access to the entire statistical pipeline for fine-tuning analyses. Processed data is easily exported to many common spreadsheet and data-frame formats.

Rozum, Jordan [Pacific Northwest National Lab]↗

April 2020 Darshan counters from the Summit supercomputer

This dataset is the Darshan counters collected from the Summit supercomputer in a month of April 2020. 1. Description of methods used for collection/generation of data: Job submitted on Summit HPC system when completed successfully and has made I/O calls (captured by Darshan tool) writes a Darshan log file on alpine filesystem. One job can have multiple `jsrun` commands and Darshan will generate separate logs each log corresponding to an `jsrun` command, so a job can have one or more Darshan logs associated with it. 2. Methods for processing the data: To process the data, we first use `darshan-util` tool to parse the Darshan logs. Then we restructure the logs and merge data from multiple Darshan logs if they belong to the same Summit job.

97 MATHEMATICS AND COMPUTING↗

Emergent Nanostructure and Ion Transport in Polyzwitterion/Polyanion Blends

We investigated blends of poly(1-(3-sulfonatopropyl)-2-vinylpyridinium) (P2VPPS) and poly(lithium (trifluoromethane)sulfonimide methacrylate) (poly(MTFSI)Li) at varying molar ratios to gain a mechanistic understanding of ionic conductivity in a miscible polyzwitterion/polyanion system. This dataset contains the raw numerical data corresponding to the figures in the manuscript. The data files include the following information: (1) Experimental Data – includes X-ray and neutron scattering measurements, broadband dielectric spectroscopy (BDS) data, extracted DC conductivity values, differential scanning calorimetry (DSC) and thermogravimetric analysis (TGA) results, extracted glass transition temperatures, etc. (2) CGMD Data – includes molecular dynamics (MD) trajectory files and computed structural correlations. All data files are organized/named according to the figure numbers in the manuscript.

36 MATERIALS SCIENCE↗

SPRUCE Deep Peat Heating (DPH) to Whole Ecosystem Warming (WEW) Metagenomes for Peat Samples Collected June 2016

This data set provides links to the results of metagenomic analyses of 44 peat samples collected on 13 June 2016 from SPRUCE experiment treatment and ambient plots. Experimental plots had received approximately 24 months of belowground warming (deep peat heating (DPH), Hanson et al. 2015) with the last 9 of those months including air warming for implementation of whole ecosystems warming (WEW – Hanson et al. 2016). The SPRUCE experiment site is located in an ombrotrophic bog forest in northern Minnesota, 40 km north of Grand Rapids, in the USDA Forest Service Marcell Experimental Forest (MEF). WEW Metagenomes: Data from these metagenomes are archived in the U.S. Department of Energy Joint Genome Institute (DOE JGI) Integrated Microbial Genomes (IMG) system and are available at the accession numbers provided below (Table 2) and in the accompanying inventory file. The easiest way to find results on IMG is at this link, https://img.jgi.doe.gov/cgi-bin/m/main.cgi, and then enter “June2016WEW” as a search term in the “Quick Genome Search:” box at the top of the page. This work was done in collaboration between ORNL, USFS and the DOE Joint Genome Institute (JGI) study that is targeting understanding the microbial metagenomes of “fungal, bacterial, and archaeal communities mediating C cycling and trace gas flux in peatland ecosystems subject to climate change” (Proposal ID: 1445).

54 ENVIRONMENTAL SCIENCES↗

Systems design and comparative analysis of large antenna concepts

Conceptual designs are evaluated and comparative analyses conducted for several large antenna spacecraft for Land Mobile Satellite System (LMSS) communications missions. Structural configurations include trusses, hoop and column and radial rib. The study was conducted using the Interactive Design and Evaluation of Advanced Spacecraft (IDEAS) system. The current capabilities, development status, and near-term plans for the IDEAS system are reviewed. Overall capabilities are highlighted. IDEAS is an integrated system of computer-aided design and analysis software used to rapidly evaluate system concepts and technology needs for future advanced spacecraft such as large antennas, platforms, and space stations. The system was developed at Langley to meet a need for rapid, cost-effective, labor-saving approaches to the design and analysis of numerous missions and total spacecraft system options under consideration. IDEAS consists of about 40 technical modules efficient executive, data-base and file management software, and interactive graphics display capabilities.

Garrett, L. B.↗

Software Engineering Laboratory (SEL) Data Base Maintenance System (DBAM) user's guide and system description

The Software Engineering Laboratory (SEL) Data Base Maintenance System (DBAM) is explained. The various software facilities of the SEL, DBAM operating procedures, and DBAM system information are described. The relationships among DBAM components (baseline diagrams), component descriptions, overlay descriptions, indirect command file listings, file definitions, and sample data collection forms are provided.

Lo, P. S.↗

The New Cloud Absorption Radiometer (CAR) Software: One Model for NASA Remote Sensing Virtual Instruments

The Cloud Absorption Radiometer (CAR) instrument has been the most frequently used airborne instrument built in-house at NASA Goddard Space Flight Center, having flown scientific research missions on-board various aircraft to many locations in the United States, Azores, Brazil, and Kuwait since 1983. The CAR instrument is capable of measuring scattered light by clouds in fourteen spectral bands in UV, visible and near-infrared region. This document describes the control, data acquisition, display, and file storage software for the new version of CAR. This software completely replaces the prior CAR Data System and Control Panel with a compact and robust virtual instrument computer interface. Additionally, the instrument is now usable for the first time for taking data in an off-aircraft mode. The new instrument is controlled via a LabVIEW v5. 1.1-developed software interface that utilizes, (1) serial port writes to write commands to the controller module of the instrument, and (2) serial port reads to acquire data from the controller module of the instrument. Step-by-step operational procedures are provided in this document. A suite of other software programs has been developed to complement the actual CAR virtual instrument. These programs include: (1) a simulator mode that allows pretesting of new features that might be added in the future, as well as demonstrations to CAR customers, and development at times when the instrument/hardware is off-location, and (2) a post-experiment data viewer that can be used to view all segments of individual data cycles and to locate positions where 'start' and stop' byte sequences were incorrectly formulated by the instrument controller. The CAR software described here is expected to be the basis for CAR operation for many missions and many years to come.

Roth, Don J.↗

Software for Processing Flight and Simulated Data of the ATIC Experiment

ATIC (Advanced Thin Ionization Calorimeter) is a balloon borne experiment designed to measure the cosmic ray composition for elements from hydrogen to iron and their energy spectra from approx.50 GeV to near 100 TeV. It consists of a Si-matrix detector to determine the charge of a CR particle, a scintillator hodoscope for tracking, carbon interaction targets and a fully active BGO calorimeter. ATIC had its first flight from McMurdo, Antarctica from 28/12/2000 to 13/01/2001. The ATIC flight collected approximately 25 million events. A C++-class library for building different programs for processing flight and simulated data of the ATIC balloon experiment is described. This library is compatible with the ROOT-system and includes classes and methods for solving a number of problems as the following: Reading data files in different formats (raw-data format, ROOT-format, ASCII-format, different formats for simulated data); Transferring all these formats to the only inner format of the library; Reconstruction of trajectories of primary particles with BGO calorimeter only. The Monte-Carlo simulations with GEANT code were used to obtain the basic tables for computing error corridors and chi(sup 2)-values for the trajectories. Obtaining error corridors for searching for signal of primary particle in the Si-matrix; Searching for hit of primary particle in the Si-matrix with using of error corridor and other criteria (chi(sup 2)-values, agreement between signals in Si-matrix and in the upper layer of scintillator and others); Determination of charge of primary particle; Determination of energy deposit in BGO calorimeter.

Panov, A. D.↗

Schema for Spacecraft-Command Dictionary

An Extensible Markup Language (XML) schema was developed as a means of defining and describing a structure for capturing spacecraft command- definition and tracking information in a single location in a form readable by both engineers and software used to generate software for flight and ground systems. A structure defined within this schema is then used as the basis for creating an XML file that contains command definitions.

Laubach, Sharon↗

Comparison of Two Digital Stethoscopes with the Traditional Stethoscope Used on International Space Station

A traditional stethoscope is currently flown on the International Space Station (ISS). The background noise on the ISS is much higher than a normal exam room, and the literature shows that traditional stethoscopes are unable to function effectively in high noise environments. Digital stethoscopes provide amplification which improves the audibility in a quiet environment. This study is designed to determine if digital stethoscopes offer any advantage over traditional stethoscopes in being able to identify normal and abnormal sounds in the ISS noise environment. Methods: An ISS noise simulation facility was created to reproduce ISS noise profiles by modifying pink noise with a software-based graphic equalizer. The files were played in a continuous loop on a computer, amplified through a high-end stereo system and adjusted using a sound level meter. Nine caregiver analogues were given the same auscultation lesson received by astronauts. They began testing by becoming familiar with normal and abnormal sounds on a Student Auscultation Manikin . They then used two digital stethoscopes and a traditional stethoscope identical to the one flown on the ISS to auscultate the manikin sounds in the noise facility. They identified the sounds on a questionnaire and picked which of the three stethoscopes they preferred. Results: Evaluators displayed equivalent accuracy in sound identification when using either the 3M model 4000 digital stethoscope or traditional stethoscope. However, the 3M was preferred 2 to 1 by the evaluators, primarily because of additional amplification of the sounds. Discussion: Although our results show that the current ISS stethoscope and the "best-of-breed" digital stethoscope provide essentially the same auscultation utility, the latter has the advantage of recording and transmitting sounds to a remote physician. Since the astronaut caregivers are non-physiCians, this capability may be worth the additional expense and effort needed to certify the digital stethoscope for flight.

Rasbury, Jack↗

Structural Analysis Using NX Nastran 9.0

NX Nastran is a powerful Finite Element Analysis (FEA) software package used to solve linear and non-linear models for structural and thermal systems. The software, which consists of both a solver and user interface, breaks down analysis into four files, each of which are important to the end results of the analysis. The software offers capabilities for a variety of types of analysis, and also contains a respectable modeling program. Over the course of ten weeks, I was trained to effectively implement NX Nastran into structural analysis and refinement for parts of two missions at NASA's Kennedy Space Center, the Restore mission and the Orion mission.

NX Nastran↗

GOES-R Series GEO Side-Lobe Capable GPSR Post-Launch Refinements and Operational Capabilities

This paper addresses three topics: 1) EOPP (EOP (Earth Orientation Prediction) Parameters) file modification, 2) Kalman filter parameter tuning regarding maneuvers and 3) off-pointing GPS (Global Positioning System) tracking capability. GOES-R (Geostationary Operational Environmental Satellite-R Series) is the first in a 4-part series of new weather satellites set to replace and upgrade the older GOES constellation. Two GOES-R series have been launched to date, GOES-S and GOES-R. GOES-R is operational over the Eastern United States and GOES-S over the West. The Global Positioning System Receiver (GPSR) on board this geostationary weather satellite is a mission critical enabling technology which has been both tested on the ground and evaluated on-orbit to verify its effectivity. Since becoming operational in November 2016, the GPSR onboard has performed extremely well under nominal circumstances. Further refinements regarding a variety of facets have taken place since the launch of GOES-R. One such refinement was the implementation of a modified EOP (Earth Orientation Prediction) parameter set to improve ECEF (Earth Centered Earth Fixed) to ECI (Earth Centered Inertial) transformation by restoring zonal tides removed from the EOP parameter fit per tech note 36. Another relevant refinement combined thermal consideration with Kalman filter tuning to improve orbit determination performance during maneuvers. Now with two years of data and two vehicles in orbit many capabilities of the GPSR have been identified and defined to a higher degree. For example, metrics on side-lobe tracking and off-Nadir tracking capabilities have been quantified to a high degree. This paper will seek to supplement the ESA (European Space Agency) GNC 2017 GOES-R GPSR performance paper as a deeper dive on specific tracking capabilities and performance improvements now implemented on the GOES-R and GOES-S vehicles.

GPS Receiver↗

System and method for generating a relationship network

A computer-implemented system and process for generating a relationship network is disclosed. The system provides a set of data items to be related and generates variable length data vectors to represent the relationships between the terms within each data item. The system can be used to generate a relationship network for documents, images, or any other type of file. This relationship network can then be queried to discover the relationships between terms within the set of data items.

97 MATHEMATICS AND COMPUTING↗

Distributed Computing for the Project 8 Experiment

The Project 8 collaboration aims to measure the absolute neutrino mass or improve on the current limit by measuring the tritium beta decay electron spectrum. We present the current distributed computing model for the Project 8 experiment. Project 8 is in its second phase of data taking with a near continuous data rate of 1Gbps. The current computing model uses DIRAC (Distributed Infrastructure with Remote Agent Control) for its workflow and data management. A detailed meta-data assignment using the DIRAC File Catalog is used to automate raw data transfers and subsequent stages of data processing. The DIRAC system is deployed on containers managed using a Kubernetes cluster to provide a scalable infrastructure. A modified DIRAC Site Director provides the ability to submit jobs using Singularity on opportunistic High-Performance Computing (HPC) sites.

Distributed Computing, Kubernetes, DIRAC, Project ↗

Analysis of NCERC Critical Experiments with ENDF/B Nuclear Data Libraries

Nuclear data (ND) libraries are the backbone of the nuclear industry, as they are the collections of tabulated probabilities that define sub-atomic particle interactions with matter. In the areas of criticality safety and experiments, no evaluated nuclear data files (ENDF) are more important than those containing neutron cross section data. It is upon these files, and accompanying radiation transport codes, that practitioners are enabled to safely design both subcritical and critical systems. Likewise, in a symbiotic fashion, it is the same critical assemblies which are used primarily to validate that the cross sections are correct. The ENDF/B library, the United States’ national library maintained by the National Nuclear Data Center (NNDC) at Brookhaven National Laboratory (BNL), is soon releasing a new version, ENDF/B-VIII.1. Prior to the official release, several beta versions of the library were prepared and tested in simulation suites. The work presented here are results comparing the newest ENDF/B beta release (ENDF/B-VIII.1b3) and ENDF/B-VIII.0 with recent experiments done at the National Criticality Experiments Research Center (NCERC) as well as correlated experiments from the Los Alamos Critical Experiments Facility (LACEF). These NCERC and LACEF experiments were performed in part to provide validation for various cross sections that were identified as insufficient in the ENDF/B-VIII.0. In particular, lead, copper, fluorine, and chlorine, as well as the major actinides, were targeted from the last decade of critical experiments.

97 MATHEMATICS AND COMPUTING↗

The Global DAS Month of February 2023

During February 2023, a total of 32 individual distributed acoustic sensing (DAS) systems acted jointly as a global seismic monitoring network. The aim of this Global DAS Month campaign was to coordinate a diverse network of organizations, instruments, and file formats to gain knowledge and move toward the next generation of earthquake monitoring networks. During this campaign, 156 earthquakes of magnitude 5 or larger were reported by the U.S. Geological Survey and contributors shared data for 60 min after each event’s origin time. Participating systems represent a variety of manufacturers, a range of recording parameters, and varying cable emplacement settings (e.g., shallow burial, borehole, subaqueous, and dark fiber). Monitored cable lengths vary between 152 and 120,129 m, with channel spacing between 1 and 49 m. The data has a total size of 6.8 TB, and are available for free download. Finally, organizing and executing the Global DAS Month has produced a unique dataset for further exploration and highlighted areas of further development for the seismological community to address.

58 GEOSCIENCES↗

Surface elevation, snow depth, vegetation height, and color imagery from multiple UAV surveys from 2018 to 2023 across a watershed near Teller road mile marker 27, Seward Peninsula, Alaska

Multiple photogrammetric surveys using an unoccupied aerial system (UAS) were performed across a watershed along Teller road on the Seward Peninsula (Alaska) to investigate terrain, vegetation and snowpack properties. This work was led by the environmental geophysics team from Lawrence Berkeley National Laboratory as part of the Next-Generation Ecosystem Experiments: Arctic (NGEE Arctic). The multiple photogrammetric surveys used mostly a DJI Matrice 210 UAS with a DJI X5S camera, Ground Control Points (GCPs) surveyed with a Real Time Kinematic (RTK)-GPS, and a structure from motion (SfM) technique for photogrammetric reconstruction. Digital Surface elevation Models (DSMs) were inferred at various times of year, including near peak in plant and leaf density (July 19 2017), close to peak in snow depth (April 1 2019 and April 11 2022), and at low plant and leaf density of tall after the first bare-ground date (June 9 2019). Snow and canopy height were obtained by subtracting DSMs from a Digital Terrain Model (DTM) proxy inferred from the June 9 2019 survey. The derived products include ortho-mosaiced RGB map, DSMs, a DTM proxy, snow depth (April 2019 and 2022) and canopy height (July 2017). Unprocessed and processed data products are included in this package (processing levels 0-2). Data and metadata are provided as text (*.csv), image (*.jpg), and GeoTiff (*.tif) formats. This metadata document contains a description of the survey and processing steps and the inferred products.The Next-Generation Ecosystem Experiments: Arctic (NGEE Arctic) was a 15-year research effort (2012-2027) 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↗

Automatic variable selection in ecological niche modeling: A case study using Cassin’s Sparrow (Peucaea cassinii)

MERRA/Max provides a feature selection approach to dimensionality reduction that enables direct use of global climate model outputs in ecological niche modeling. The system accomplishes this reduction through a Monte Carlo optimization in which many independent MaxEnt runs, operating on a species occurrence file and a small set of randomly selected variables in a large collection of variables, converge on an estimate of the top contributing predictors in the larger collection. These top predictors can be viewed as potential candidates in the variable selection step of the ecological niche modeling process. MERRA/Max’s Monte Carlo algorithm operates on files stored in the underlying filesystem, making it scalable to large data sets. Its software components can run as parallel processes in a high-performance cloud computing environment to yield near real-time performance. In tests using Cassin’s Sparrow (Peucaea cassinii) as the target species, MERRA/Max selected a set of predictors from Worldclim’s Bioclim collection of 19 environmental variables that have been shown to be important determinants of the species’ bioclimatic niche. It also selected biologically and ecologically plausible predictors from a more diverse set of 86 environmental variables derived from NASA’s Modern-Era Retrospective Analysis for Research and Applications Version 2 (MERRA-2) reanalysis, an output product of the Goddard Earth Observing System Version 5 (GEOS-5) modeling system. We believe these results point to a technological approach that could expand the use global climate model outputs in ecological niche modeling, foster exploratory experimentation with otherwise difficult-to-use climate data sets, streamline the modeling process, and, eventually, enable automated bioclimatic modeling as a practical, readily accessible, low-cost, commercial cloud service.

John L. Schnase↗