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DOE OSTI2023

Analysis of the impact of broad absorption lines on quasar redshift measurements with synthetic observations

ABSTRACT Accurate quasar classifications and redshift measurements are increasingly important to precision cosmology experiments. Broad absorption line (BAL) features are present in 15–20 per cent of all quasars, and these features can introduce systematic redshift errors, and in extreme cases produce misclassifications. We quantitatively investigate the impact of BAL features on quasar classifications and redshift measurements with synthetic spectra that were designed to match observations by the Dark Energy Spectroscopic Instrument (DESI) survey. Over the course of 5 yr, DESI aims to measure spectra for 40 million galaxies and quasars, including nearly three million quasars. Our synthetic quasar spectra match the signal-to-noise ratio and redshift distributions of the first year of DESI observations, and include the same synthetic quasar spectra both with and without BAL features. We demonstrate that masking the locations of the BAL features decreases the redshift errors by about 1 per cent and reduces the number of catastrophic redshift errors by about 80 per cent. We conclude that identifying and masking BAL troughs should be a standard part of the redshift determination step for DESI and other large-scale spectroscopic surveys of quasars.

(galaxies:) quasars: absorption↗

DOE OSTI2020

TBDB: a database of structurally annotated T-box riboswitch:tRNA pairs

Abstract T-box riboswitches constitute a large family of tRNA-binding leader sequences that play a central role in gene regulation in many gram-positive bacteria. Accurate inference of the tRNA binding to T-box riboswitches is critical to predict their cis-regulatory activity. However, there is no central repository of information on the tRNA binding specificities of T-box riboswitches, and de novo prediction of binding specificities requires advanced knowledge of computational tools to annotate riboswitch secondary structure features. Here, we present the T-box Riboswitch Annotation Database (TBDB, https://tbdb.io), an open-access database with a collection of 23,535 T-box riboswitch sequences, spanning the major phyla of 3,632 bacterial species. Among structural predictions, the TBDB also identifies specifier sequences, cognate tRNA binding partners, and downstream regulatory targets. To our knowledge, the TBDB presents the largest collection of feature, sequence, and structural annotations carried out on this important family of regulatory RNA.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2023

Graph Contractions for Calculating Correlation Functions in Lattice QCD

Computing correlation functions for many-particle systems in Lattice QCD is vital to extract nuclear physics observables like the energy spectrum of hadrons such as protons. However, this type of calculation has long been considered to be very challenging and computing-resource intensive because of the complex nature of a hadron composed of quarks with many degrees of freedom. In particular, a correlation function can be calculated through a sum of all possible pairs of quark contractions, each of which is a batched tensor contraction, dictated by Wick's theorem. Because the number of terms of this sum can be very large for any hadronic system of interest, fast evaluation of the sum faces several challenges: an extremely large number of contractions, a huge memory footprint at runtime, and the speed of tensor contractions. In this paper, we present a Lattice QCD analysis software suite, Redstar, which addresses these challenges by utilizing novel algorithmic and software engineering methods targeting modern computing platforms such as many-core CPUs and GPUs. In particular, Redstar represents every term in the sum of a correlation function by a graph, applies efficient graph algorithms to reduce the number of contractions to lower the cost of computations, and minimizes the total memory footprint. Moreover, Redstar carries out the contractions on either CPUs or GPUs utilizing an internal and highly efficient Hadron contraction library. Specifically, we illustrate some important algorithmic optimizations of Redstar, show various key design features of Hadron library, and present the speedup values due to the optimizations along with performance figures for calculating six correlations functions on four computing platforms.

Chen, Jie↗

DOE OSTI2020

Small and mighty: adaptation of superphylum Patescibacteria to groundwater environment drives their genome simplicity

The newly defined superphylum Patescibacteria such as Parcubacteria (OD1) and Microgenomates (OP11) has been found to be prevalent in groundwater, sediment, lake, and other aquifer environments. Recently increasing attention has been paid to this diverse superphylum including > 20 candidate phyla (a large part of the candidate phylum radiation, CPR) because it refreshed our view of the tree of life. However, adaptive traits contributing to its prevalence are still not well known. Results Here, we investigated the genomic features and metabolic pathways of Patescibacteria in groundwater through genome-resolved metagenomics analysis of >600 Gbp sequence data. We observed that, while the members of Patescibacteria have reduced genomes (~ 1 Mbp) exclusively, functions essential to growth and reproduction such as genetic information processing were retained. Surprisingly, they have sharply reduced redundant and nonessential functions, including specific metabolic activities and stress response systems. The Patescibacteria have ultra-small cells and simplified membrane structures, including flagellar assembly, transporters, and two-component systems. Despite the lack of CRISPR viral defense, the bacteria may evade predation through deletion of common membrane phage receptors and other alternative strategies, which may explain the low representation of prophage proteins in their genomes and lack of CRISPR. By establishing the linkages between bacterial features and the groundwater environmental conditions, our results provide important insights into the functions and evolution of this CPR group.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2023

Graph Contractions for Calculating Correlation Functions in Lattice QCD

Chen, Jie↗

DOE OSTI2023

Freeform Hybrid Manufacturing: Binderjet, Structured Light Scanning, Confocal Microscopy, and CNC Machining

This paper describes a hybrid manufacturing approach for silicon carbide (SiC) freeform surfaces using binder jet additive manufacturing (BJAM) to print the preform and machining to obtain the design geometry. Although additive manufacturing (AM) techniques such as BJAM allow for the fabrication of complex geometries, additional machining or grinding is often required to achieve the desired surface finish and shape. Hybrid manufacturing has been shown to provide an effective solution. However, hybrid manufacturing also has its own challenges, depending on the combination of processes. For example, when the subtractive and additive manufacturing steps are performed sequentially on separate systems, it is necessary to define a common coordinate system for part transfer. This can be difficult because AM preforms do not inherently contain features that can serve as datums. Additionally, it is important to confirm that the intended final geometry is contained within the AM preform. The approach described here addresses these challenges by using structured light scanning to create a stock model for machining. Results show that a freeform surface was machined with approximately 70 µm of maximum deviation from that which was planned.

Dvorak, Jake (ORCID:0000000260989944)↗

DOE OSTI2021

Are All Post-starbursts Mergers? HST Reveals Hidden Disturbances in the Majority of PSBs

How do galaxies transform from blue, star-forming spirals to red, quiescent early-type galaxies? To answer this question, we analyzed a set of 26 gas-rich, shocked post-starburst galaxies with Hubble Space Telescope (HST) imaging in $B$, $I$, and $H$ bands and Sloan Digital Sky Survey (SDSS) $i$-band imaging of similar depth but lower resolution. We found that post-starbursts in our sample have intermediate morphologies between disk- and bulge dominated (Sérsic $n$ = ${1.7}_{-0.0}^{+0.3}$ ) and have red bulges, likely due to dust obscuration in the cores. A majority of galaxies in our sample are more morphologically disturbed than regular galaxies (88%, corresponding to >3$σ$ significance) when observed with HST, with asymmetry and Sérsic residual flux fraction being the most successful measures of disturbance. Most disturbances are undetected at the lower resolution of SDSS imaging. Although ~27% galaxies are clear merger remnants, we found that disturbances in another ~30% of the sample are internal, caused by small-scale perturbations or dust substructures rather than tidal features, and require high-resolution imaging to detect. We found 2.8$σ$ evidence that asymmetry features fade on timescales ~200 Myr, and may vanish entirely after ~750 Myr, so we do not rule out a possible merger origin of all post-starbursts given that asymmetric features may have already faded. This work highlights the importance of small-scale disturbances, detected only in high-resolution imaging, in understanding structural evolution of transitioning galaxies.

79 ASTRONOMY AND ASTROPHYSICS↗

NASA NTRS1978

Quasi-optimal control of a moving-base simulator

The optimal control of a degree-of-freedom moving-base simulator is considered. The quasi-optimal control method due to Friedland was utilized. The problem, in broad terms, was to determine a control law for moving the simulator cab so that its motion would: (1) best approximate the desired aircraft response, and (2) not exceed the limited translational capability of the simulator. A variety of optimal responses were obtained by the method which emphasized different features of the response which were thought to be important in motion perception. Examples of such results are given, and the considerations important in initial subjective evaluations by experienced flight personnel are discussed.

Stewart, E. C.↗

NASA NTRS1979

Visual observations over oceans

Important factors in locating, identifying, describing, and photographing ocean features from space are presented. On the basis of crew comments and other findings, the following recommendations can be made for Earth observations on Space Shuttle missions: (1) flyover exercises must include observations and photography of both temperate and tropical/subtropical waters; (2) sunglint must be included during some observations of ocean features; (3) imaging remote sensors should be used together with conventional photographic systems to document visual observations; (4) greater consideration must be given to scheduling earth observation targets likely to be obscured by clouds; and (5) an annotated photographic compilation of ocean features can be used as a training aid before the mission and as a reference book during space flight.

Terry, R. D.↗

NASA NTRS1981

Performance deterioration: An airline perspective

Certain features of engine design and installation are clearly demonstrating important advantages in engine performance retention. Bearing arrangement no doubt has an important role in performance retention. Four bearings seem to be insufficient while six are probably more than are required. A well designed five-bearing system would seem to be an optimum configuration. Bearings with over-hung components such as fans, should be designed to minimize such over-hang to limit associated wobble, which in turn leads to shroud rub, or to allow closer running clearances. Almost any effort to improve stiffness and generally reduce flexing of the engine structure will pay off significantly in performance retention, even at a weight penalty. For this reason cowl load sharing to provide additional rigidity at a low cost in additional weight and complexity is favored.

Andersen, N. B.↗

NASA NTRS1981

Proceedings, Conference on the Computing Environment for Mathematical Software

Recent advances in software and hardware technology which make it economical to create computing environments appropriate for specialized applications are addressed. Topics included software tools, FORTRAN standards activity, and features of languages, operating systems, and hardware that are important for the development, testing, and maintenance of mathematical software.

Source record↗

NASA NTRS1982

Recent developments in thermal radiation system analyzer (Trasys)

Changes in the thermal radiation analyzer system (TRASYS) computer program are discussed. New capabilities were added while keeping intact the same data input structure. An overview of the program structure and general capabilities is given. Where appropriate, assessments are made of new features. The application of TRASYS peripheral programs and the importance they have in developing a totally integrated thermal analysis system are discussed. Form factor computations times were reduced approximately 40 percent, and the longer flux runs were reduced 50 percent when shadow tables were used.

Vogt, R. A.↗

NASA NTRS1982

State of the art: Design for noise I

The engineering management strategy involved in designing helicopters to meet a noise requirement is discussed. A different perspective is given on how designs were accomplished in the past, how a new design would be carried out today, and how knowledge gained through acoustics R&D will have two important effects. It will lead to invention of quieter features to be incorporated, and it will improve the ability to predict accurately the noise levels of new designs before they are built. Each of these effects changes the basic design process.

Jenny, D. S.↗

NASA NTRS1985

Structure and function of isozymes: Evolutionary aspects and role of oxygen in eucaryotic organisms

Oxygen is not only one of the most abundant elements on the Earth, but it is also one of the most important elements for life. In terms of composition, the feature of the atmosphere that most distinguishes Earth from other planets is the presence of abundant amounts of oxygen. The first forms of life may have been similar to present day anaerobic bacteria such as clostridium. The relationship between prokaryotes and eukaryotes, if any, has been a topic of much speculation. With only a few exceptions eukaryotes are oxygen-utilizing organisms. This research eukaryotes or eukaryotic biochemical processes requiring oxygen, could have arisen quite early in evolution and utilized the small quantities of photocatalytically produced oxygen which are thought to have been present on the Earth prior to the evolution of massive amounts of photosynthetically-produced oxygen.

Satyanarayana, T.↗

NASA NTRS1984

Vegetation and soils field research data base: Experiment summaries

Understanding of the relationships between the optical, spectral characteristics and important biological-physical parameters of earth-surface features can best be obtained by carefully controlled studies over fields and plots where complete data describing the condition of targets are attainable and where frequent, timely spectral measurement can be obtained. Development of a vegetation and soils field research data base was initiated in 1972 at Purdue University's Laboratory for Applications of Remote Sensing and expanded in the fall of 1974 by NASA as part of LACIE. Since then, over 250,000 truck-mounted and helicopter-borne spectrometer/multiband radiometer observations have been obtained of more than 50 soil series and 20 species of crops, grasses, and trees. These data are supplemented by an extensive set of biophysical and meteorological data acquired during each mission. The field research data form one of the most complete and best-documented data sets acquired for agricultural remote sensing research. Thus, they are well-suited to serve as a data base for research to: (1) quantiatively determine the relationships of spectral and biophysical characteristics of vegetation, (2) define future sensor systems, and (3) develop advanced data analysis techniques.

Biehl, L. L.↗

NASA NTRS1989

Autonomous exploration system: Techniques for interpretation of multispectral data

An on-board autonomous exploration system that fuses data from multiple sensors, and makes decisions based on scientific goals is being developed using a series of artificial neural networks. Emphasis is placed on classifying minerals into broad geological categories by analyzing multispectral data from an imaging spectrometer. Artificial neural network architectures are being investigated for pattern matching and feature detection, information extraction, and decision making. As a first step, a stereogrammetry net extracts distance data from two gray scale stereo images. For each distance plane, the output is the probable mineral composition of the region, and a list of spectral features such as peaks, valleys, or plateaus, showing the characteristics of energy absorption and reflection. The classifier net is constructed using a grandmother cell architecture: an input layer of spectral data, an intermediate processor, and an output value. The feature detector is a three-layer feed-forward network that was developed to map input spectra to four geological classes, and will later be expanded to encompass more classes. Results from the classifier and feature detector nets will help to determine the relative importance of the region being examined with regard to current scientific goals of the system. This information is fed into a decision making neural net along with data from other sensors to decide on a plan of activity. A plan may be to examine the region at higher resolution, move closer, employ other sensors, or record an image and transmit it back to Earth.

Yates, Gigi↗

NASA NTRS1992

SRMAFTE facility checkout model flow field analysis

The Solid Rocket Motor Air Flow Equipment (SRMAFTE) facility was constructed for the purpose of evaluating the internal propellant, insulation, and nozzle configurations of solid propellant rocket motor designs. This makes the characterization of the facility internal flow field very important in assuring that no facility induced flow field features exist which would corrupt the model related measurements. In order to verify the design and operation of the facility, a three-dimensional computational flow field analysis was performed on the facility checkout model setup. The checkout model measurement data, one-dimensional and three-dimensional estimates were compared, and the design and proper operation of the facility was verified. The proper operation of the metering nozzles, adapter chamber transition, model nozzle, and diffuser were verified. The one-dimensional and three-dimensional flow field estimates along with the available measurement data are compared.

Dill, Richard A.↗

NASA NTRS1993

Joint Acoustic Propagation Experiment (JAPE)

The Joint Acoustic Propagation Experiment (JAPE), performed under the auspices of NATO and the Acoustics Working Group, was conducted at White Sands Missile Range, New Mexico, USA, during the period 11-28 Jul. 1991. JAPE consisted of 220 trials using various acoustic sources including speakers, propane cannon, various types of military vehicles, helicopters, a 155mm howitzer, and static high explosives. Of primary importance to the performance of these tests was the intensive characterization of the atmosphere before and during the trials. Because of the wide range of interests on the part of the participants, JAPE was organized in such a manner to provide a broad cross section of test configurations. These included short and long range propagation from fixed and moving vehicles, terrain masking, and vehicle detection. A number of independent trials were also performed by individual participating agencies using the assets available during JAPE. These tests, while not documented in this report, provided substantial and important data to those groups. Perhaps the most significant feature of JAPE is the establishment of a permanent data base which can be used by not only the participants but by others interested in acoustics. A follow-on test was performed by NASA LaRC during the period 19-29 Aug. 1991 at the same location. These trials consisted of 59 overflights of supersonic aircraft in order to establish the relationship between atmospheric turbulence and the received sonic boom energy at the surface.

Carnes, Benny L.↗