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At least 1,027 records · Page 57

SU-E-T-386: Evaluation of EBT3 Film Response in Different Batches

Purpose: To investigate the uniformity of film response of EBT3 film of two different film batches. It has been reported that the response of the EBT film family is not homogenous between film batches. The later may have an impact in the dosimetry of small radiotherapy beams. Methods: A solid water phantom was used for dosimetric measurements. EBT3 film irradiation was performed with a 6 MV photon beam at 5 cm depth with a SAD of 100 cm. All irradiations were performed perpendicularly to the film plane covering the dose range 1 to 10 Gy. Three square field sizes were used to analyze the film response energy dependence: 10, 5 and 1 cm{sup 2}. Two batches of film EBT3 were used #A03181302 (B1) and #03031403 (B2). Film read out was carrying out with an Epson Perfection V750-Pro flatbed scanner in transmission mode with a spatial resolution of 72 dpi, with all post-processing and colour management options turned off, using 48 bits RGB colour depth. The scans were analyzed with the red channel. Results: The results shown that there were differences between the film response for each batch. The differences between batches for 1 Gy were 2%, 6% and 12% for 10, 5 and 1 cm2 square field sizes, respectively. The differences found for 10 Gy were 13%, 14% and 13% for 10, 5 and 1 cm{sup 2} square field sizes, respectively. It can be observed that the dependence with field size dismissed for higher doses. The later may be due to film response saturation at 10 Gy. Conclusion: The EBT3 film -as its predecessors-, it suffer for inter-batch variability in the film response. Further research is required to assess the possible impact in small beam dosimetry.

60 APPLIED LIFE SCIENCES↗

Integrating PGAS and MPI-based Graph Analysis

This project demonstrates that Chapel programs can interface with MPI-based libraries written in C++ without storing multiple copies of shared data. Chapel is a language for productive parallel computing using global address spaces (PGAS). We identified two approaches to interface Chapel code with the MPI-based Grafiki and Trilinos libraries. The first uses a single Chapel executable to call a C function that interacts with the C++ libraries. The second uses the mmap function to allow separate executables to read and write to the same block of memory on a node. We also encapsulated the second approach in Docker/Singularity containers to maximize ease of use. Comparisons of the two approaches using shared and distributed memory installations of Chapel show that both approaches provide similar scalability and performance.

97 MATHEMATICS AND COMPUTING↗

Fine-scale evaluation of two standard 16S rRNA gene amplicon primer pairs for analysis of total prokaryotes and archaeal nitrifiers in differently managed soils

The advance of high-throughput molecular biology tools allows in-depth profiling of microbial communities in soils, which possess a high diversity of prokaryotic microorganisms. Amplicon-based sequencing of 16S rRNA genes is the most common approach to studying the richness and composition of soil prokaryotes. To reliably detect different taxonomic lineages of microorganisms in a single soil sample, an adequate pipeline including DNA isolation, primer selection, PCR amplification, library preparation, DNA sequencing, and bioinformatic post-processing is required. Besides DNA sequencing quality and depth, the selection of PCR primers and PCR amplification reactions arguably have the largest influence on the results. This study tested the performance and potential bias of two primer pairs, i.e., 515F (Parada)-806R (Apprill) and 515F (Parada)-926R (Quince) in the standard pipelines of 16S rRNA gene Illumina amplicon sequencing protocol developed by the Earth Microbiome Project (EMP), against shotgun metagenome-based 16S rRNA gene reads. The evaluation was conducted using five differently managed soils. We observed a higher richness of soil total prokaryotes by using reverse primer 806R compared to 926R, contradicting to in silico evaluation results. Both primer pairs revealed various degrees of taxon-specific bias compared to metagenome-derived 16S rRNA gene reads. Nonetheless, we found consistent patterns of microbial community variation associated with different land uses, irrespective of primers used. Total microbial communities, as well as ammonia oxidizing archaea (AOA), the predominant ammonia oxidizers in these soils, shifted along with increased soil pH due to agricultural management. In the unmanaged low pH plot abundance of AOA was dominated by the acid-tolerant NS-Gamma clade, whereas limed agricultural plots were dominated by neutral-alkaliphilic NS-Delta/NS-Alpha clades. This study stresses how primer selection influences community composition and highlights the importance of primer selection for comparative and integrative studies, and that conclusions must be drawn with caution if data from different sequencing pipelines are to be compared.

16S rRNA gene amplicon Illumina sequencing↗

Study of blood flow sensing with microwave radiometry

A study and experimental investigation has been performed to determine the feasibility of measuring regional blood flow and volume in man by means of microwave radiometry. An indication was expected of regional blood flow from measurement of surface and subsurface temperatures with a sensitive radiometer. Following theoretical modeling of biological tissue, to determine the optimum operating frequency for adequate sensing depth, a sensitive microwave radiometer was designed for operation at 793 MHz. A temperature sensitivity of of 0.06 K rms was realized in this equipment. Measurements performed on phantom tissue models, consisting of beef fat and lean beefsteak showed that the radiometer was capable of sensing temperatures from a depth between 3.8 and 5.1 cm. Radiometric and thermodynamic temperature measurements were also performed on the hind thighs of large dogs. These showed that the radiometer could sense subsurface temperatures from a depth of, at least, 1.3 cm. Delays caused by externally-generated RF interference, coupled with the lack of reliable blood flow measurement equipment, prevented correlation of radiometer readings with reginal blood flow. For the same reasons, it was not possible to extend the radiometric observations to human subjects.

Porter, R. A.↗

Programmable data communications controller requirements

The design requirements for a Programmable Data Communications Controller (PDCC) that reduces the difficulties in attaching data terminal equipment to a computer are presented. The PDCC is an interface between the computer I/O channel and the bit serial communication lines. Each communication line is supported by a communication port that handles all line control functions and performs most terminal control functions. The port is fabricated on a printed circuit board that plugs into a card chassis, mating with a connector that is joined to all other card stations by a data bus. Ports are individually programmable; each includes a microprocessor, a programmable read-only memory for instruction storage, and a random access memory for data storage.

Source record↗

Towards Real-time, On-board, Hardware-Supported Sensor and Software Health Management for Unmanned Aerial Systems

Unmanned aerial systems (UASs) can only be deployed if they can effectively complete their missions and respond to failures and uncertain environmental conditions while maintaining safety with respect to other aircraft as well as humans and property on the ground. In this paper, we design a real-time, on-board system health management (SHM) capability to continuously monitor sensors, software, and hardware components for detection and diagnosis of failures and violations of safety or performance rules during the flight of a UAS. Our approach to SHM is three-pronged, providing: (1) real-time monitoring of sensor and/or software signals; (2) signal analysis, preprocessing, and advanced on the- fly temporal and Bayesian probabilistic fault diagnosis; (3) an unobtrusive, lightweight, read-only, low-power realization using Field Programmable Gate Arrays (FPGAs) that avoids overburdening limited computing resources or costly re-certification of flight software due to instrumentation. Our implementation provides a novel approach of combining modular building blocks, integrating responsive runtime monitoring of temporal logic system safety requirements with model-based diagnosis and Bayesian network-based probabilistic analysis. We demonstrate this approach using actual data from the NASA Swift UAS, an experimental all-electric aircraft.

System & Software Health Management↗

SEE Test Results for SAMA5D3

ARM processors power a class of high-performance, lower power system on a chip devices. In the absence of radiation effects, these devices are highly desirable for space use. The processor core architecture for ARM devices is licensed to provide computing on multiple hardware platforms. The A5 processor is in a unique pioneering space for providing detailed radiation response data to explore the baseline performance of these devices. These data can help set options for ARM processors and possibly impact design choices for the next generation of ARM fault tolerance capabilities. The SAMA5D3 was tested to establish general SEE performance for a relatively simple implementation of the ARM A5 core. This testing observed SRAM sensitivity starting at an LET of about 3 MeV-cm2/mg, with a saturated cross section of about 2x10-8cm2/bit, and this was determined by both active write and read of the caches, in addition to the use of a debugger to provide test results. Crash/SEFI data was collected using both Linux and bare metal C-code. The onset LET for crashes was about LET 1.5 MeV-cm2/mg, with saturated cross sections of about 2x10-5 cm2 for bare metal (low utilization), and 2x10-4cm2 for Linux (high utilization) tests.

Daniel, Andrew C.↗

A New Source Biasing Approach in ADVANTG

The ADVANTG code has been developed at Oak Ridge National Laboratory to generate biased sources and weight window maps for MCNP using the CADIS and FW-CADIS methods. In preparation for an upcoming RSICC release, a new approach for generating a biased source has been developed. This improvement streamlines user input and improves reliability. Previous versions of ADVANTG generated the biased source from ADVANTG input, writing an entirely new general fixed-source definition (SDEF). Because volumetric sources were translated into SDEF-format as a finite set of points, the user had to perform a convergence study to determine whether the number of source points used accurately represented the source region. Further, the large number of points that must be written in SDEF-format made the MCNP input and output files excessively long and difficult to debug. ADVANTG now reads SDEF-format distributions and generates corresponding source biasing cards, eliminating the need for a convergence study. Many problems of interest use complicated source regions that are defined using cell rejection. In cell rejection, the source distribution in space is defined using an arbitrarily complex cell and a simple bounding region. Source positions are sampled within the bounding region but accepted only if they fall within the cell; otherwise, the position is resampled entirely. When biasing in space is applied to sources that use rejection sampling, current versions of MCNP do not account for the rejection in setting the source weight of histories, resulting in an 'unfair game'. This problem was circumvented in previous versions of ADVANTG by translating volumetric sources into a finite set of points, which does not alter the mean history weight ({bar w}). To use biasing parameters without otherwise modifying the original cell-rejection SDEF-format source, ADVANTG users now apply a correction factor for {bar w} in post-processing. A stratified-random sampling approach in ADVANTG is under development to automatically report the correction factor with estimated uncertainty. This study demonstrates the use of ADVANTG's new source biasing method, including the application of {bar w}.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Electronics for the far-forward CMS muon detector upgrade, ME0

Abstract With the High Luminosity upgrade of the Large Hadron Collider (LHC) we expect increased instantaneous luminosities up to 7.5 × 10 34 cm −2 s −1 , or five times more than the original values. In order to maintain performance of the Compact Muon Solenoid (CMS) experiment under these conditions, ME0 is one of three new muon sub-detectors being added, along with GE1/1 and GE2/1, which use the triple Gas Electron Multiplier (GEM) technology. ME0 is designed to cover the forward region of 2.0 < | η | < 2.8, thus improving muon reconstruction at high background rates by supplementing other overlapping muon subsystems up to | η | = 2.4, while also extending the acceptance for the first time to | η | = 2.8. The readout electronics for ME0 must be designed to accommodate high data rates and be sufficiently radiation hard to operate close to the beamline. The Optohybrid (OH) board for ME0, which reads out data from the front-end VFAT3b ASICs, has therefore been designed to operate without an FPGA (unlike GE1/1 and GE2/1) to ensure radiation hardness. The ME0 OH uses the radiation-hard CERN-designed lpGBT ASIC and VTRx+ optical transceiver module for high bandwidth optical links up to 10.24 Gb/s. The backend system is based on the ATCA standard. The design and development status of the readout electronics for ME0 is presented, along with recent results from integration tests performed using the first prototypes.

Instruments & Instrumentation↗

Engine performance and the determination of absolute ceiling

This report contains a brief study of the variation of engine power with temperature and pressure. The variation of propeller efficiency in standard atmosphere is obtained from the general efficiency curve which is developed in NACA report no. 168. The variation of both power available and power required are then determined and curves plotted, so that the absolute ceiling may be read directly from any known sea-level value of the ratio of power available to power required.

Diehl, Walter S↗

Performance of a broad-band, high-resolution, transition-edge sensor spectrometer for x-ray astrophysics

Future x-ray astrophysics experiments require multiplexed readout of high-fill-factor, kilo-pixel arrays of transition-edge sensors (TESs), with very high spectral resolution over a broad range of energies. In this paper we report on a prototype kilo pixel array of Mo/Au TESs read out with 8-column by 32-row time-division multiplexing (TDM). This system is being used to demonstrate the critical detector and readout technology for ESA’s Athena X-IFU, and when complete will used to laboratory astrophysics experiments. Our array and TDM readout has demonstrated a combined energy resolution, including > 200 pixels, of: 1.95 eV for Ti-K (4.5 keV), 1.97 eV for Mn-K (5.9 keV), 2.16 eV for Co-Kα (6.9 keV), 2.33 eV for Cu-Kα (8 keV), 3.26 eV for Br-Kα (11.9 keV). The 1 sigma error is  0.01 eV for all spectra. These results meet the broad-band resolution requirements for X-IFU.

Stephen J. Smith↗

Strain-Gauge Measurement of Weight of Fluid in a Tank

A method of determining the amount of fluid in a tank is based on measurement of strains induced in tank supports by the weight of the fluid. Unlike most prior methods, this method is nonintrusive: there is no need to insert instrumentation in the tank and, hence, no need to run wires, cables, or tubes through the tank wall. Also unlike most prior methods, this method is applicable even if the fluid in the tank is at supercritical pressure and temperature, because it does not depend on the presence of a liquid/gas interface (as in liquid-level-measuring methods). The strain gauges used in this method are of two types: foil and fiber-optic. Four foil gauges and one or more fiber-optic gauges are mounted on each of the tank-supporting legs. An additional fiber-optic gauge is mounted on an object, made of the same material as that of the tank-supporting legs, that is not subjected to any mechanical load. The reading obtained by the additional fiber-optic gauge is used to compensate for apparent strains caused by changes in temperature. The signals from the foil and fiber-optic gauges are conditioned, then digitized for input to a computer. As the tank is filled or emptied, the deformation in each leg increases or decreases, respectively. Measured deformations of all legs are added to obtain a composite deformation indicative of the change in weight of the tank plus fluid. An initial calibration is performed by recording data at two points (usually, empty and full) for which the mass or weight of fluid is known. It is assumed that the deformations are elastic, so that the line passing through the two points can be used as a calibration curve of mass (or weight) of fluid versus deformation. At the time of reporting the information for this article, a set of foil gauges had been tested on the supports of a 500-gallon (1,900-liter) tank. The gauges were found to be capable of measuring the deformations (up to 22 microstrain) that occurred during filling and emptying the tank. The fluid masses calculated from the gauge readings were found to be accurate within 4.5 percent. It has been estimated that once the fiber-optic gauges are put into operation, it should be possible to determine fluid masses with 3 percent or less. It may be possible to increase accuracy further by increasing the signal-to-noise ratio through the use of more deformable tank supporting legs.

Figueroa, Jorge↗

The HPS electromagnetic calorimeter

The Heavy Photon Search experiment (HPS) is searching for a new gauge boson, the so-called "heavy photon". Through its kinetic mixing with the Standard Model photon, this particle could decay into an electron-positron pair. It would then be detectable as a narrow peak in the invariant mass spectrum of such pairs, or, depending on its lifetime, by a decay downstream of the production target. The HPS experiment is installed in Hall-B of Jefferson Lab. This article presents the design and performance of one of the two detectors of the experiment, the electromagnetic calorimeter, during the runs performed in 2015-2016. The calorimeter's main purpose is to provide a fast trigger and reduce the copious background from electromagnetic processes through matching with a tracking detector. Finally, the detector is a homogeneous calorimeter, made of 442 lead-tungsten (PbWO$_4$) scintillating crystals, each read-out by an avalanche photodiode coupled to a custom trans-impedance amplifier.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Escaping the fate of Sisyphus: assessing resistome hybridization baits for antimicrobial resistance gene capture

Finding, characterizing and monitoring reservoirs for antimicrobial resistance (AMR) is vital to protecting public health. Hybridization capture baits are an accurate, sensitive and cost-effective technique used to enrich and characterize DNA sequences of interest, including antimicrobial resistance genes (ARGs), in complex environmental samples. We demonstrate the continued utility of a set of 19 933 hybridization capture baits designed from the Comprehensive Antibiotic Resistance Database (CARD)v1.1.2 and Pathogenicity Island Database (PAIDB)v2.0, targeting 3565 unique nucleotide sequences that confer resistance. We demonstrate the efficiency of our bait set on a custom-made resistance mock community and complex environmental samples to increase the proportion of on-target reads as much as >200-fold. However, keeping pace with newly discovered ARGs poses a challenge when studying AMR, because novel ARGs are continually being identified and would not be included in bait sets designed prior to discovery. Here we provide imperative information on how our bait set performs against CARDv3.3.1, as well as a generalizable approach for deciding when and how to update hybridization capture bait sets. This research encapsulates the full life cycle of baits for hybridization capture of the resistome from design and validation (both in silico and in vitro) to utilization and forecasting updates and retirement.

59 BASIC BIOLOGICAL SCIENCES↗

Development and evaluation of a Novel RT‐PCR system for reliable and rapid SARS‐CoV ‐2 screening of blood donations

Abstract Background The ongoing outbreak of severe acute respiratory syndrome coronavirus 2 (SARS‐CoV‐2) has caused great global concerns. In contrast to SARS, some SARS‐CoV‐2–infected people can be asymptomatic or have only mild nonspecific symptoms. Furthermore, there is evidence that SARS‐CoV‐2 may be infectious during an asymptomatic incubation period. With the discovery that SARS‐CoV‐2 can be detected in plasma or serum, blood safety is worthy of consideration. Study Design and Methods We developed a nucleic acid test (NAT) screening system for SARS‐CoV‐2 targeting nucleocapsid protein (N) and open reading frame 1ab (ORF 1ab) gene that could screen 5076 samples every 24 hours. The 2019 novel coronavirus RNA standard was used to evaluate linearity of standard curves. Diagnostic sensitivity and reproducibility were evaluated using artificial SARS‐CoV‐2. Specificity was evaluated with 61 other respiratory pathogens. Diagnostic performance was evaluated by testing two sputum and nine oropharyngeal swab specimens. The reverse transcription polymerase chain reaction (RT‐PCR) assay was used to screen SARS‐CoV‐2 RNA in blood donor specimens collected during the outbreak of SARS‐CoV‐2 in Chengdu. Results Limits of detection of the SARS‐CoV‐2 RT‐PCR assay for N and ORF 1ab gene were 12.5 and 27.58 copies/mL, respectively. Intra‐assay and interassay for the SARS‐CoV‐2 RT‐PCR assay based on cycle threshold were acceptably low. No cross‐reactivity was observed with other respiratory virus and bacterial isolates. The overall agreement value between the SARS‐CoV‐2 RT‐PCR assay and clinical diagnostic results was 100%. A total of 16 287 blood specimens collected from blood donors during SARS‐CoV‐2 surveillance were tested negative. Conclusions A high‐throughput NAT screening system was developed for SARS‐CoV‐2 screening of blood donations during the outbreak of SARS‐CoV‐2.

Li, Meng↗

Eye-tracking of nodule detection in lung CT volumetric data

Purpose: Signal detection on 3D medical images depends on many factors, such as foveal and peripheral vision, the type of signal, and background complexity, and the speed at which the frames are displayed. In this paper, the authors focus on the speed with which radiologists and naïve observers search through medical images. Prior to the study, the authors asked the radiologists to estimate the speed at which they scrolled through CT sets. They gave a subjective estimate of 5 frames per second (fps). The aim of this paper is to measure and analyze the speed with which humans scroll through image stacks, showing a method to visually display the behavior of observers as the search is made as well as measuring the accuracy of the decisions. This information will be useful in the development of model observers, mathematical algorithms that can be used to evaluate diagnostic imaging systems. Methods: The authors performed a series of 3D 4-alternative forced-choice lung nodule detection tasks on volumetric stacks of chest CT images iteratively reconstructed in lung algorithm. The strategy used by three radiologists and three naïve observers was assessed using an eye-tracker in order to establish where their gaze was fixed during the experiment and to verify that when a decision was made, a correct answer was not due only to chance. In a first set of experiments, the observers were restricted to read the images at three fixed speeds of image scrolling and were allowed to see each alternative once. In the second set of experiments, the subjects were allowed to scroll through the image stacks at will with no time or gaze limits. In both static-speed and free-scrolling conditions, the four image stacks were displayed simultaneously. All trials were shown at two different image contrasts. Results: The authors were able to determine a histogram of scrolling speeds in frames per second. The scrolling speed of the naïve observers and the radiologists at the moment the signal was detected was measured at 25–30 fps. For the task chosen, the performance of the observers was not affected by the contrast or experience of the observer. However, the naïve observers exhibited a different pattern of scrolling than the radiologists, which included a tendency toward higher number of direction changes and number of slices viewed. Conclusions: The authors have determined a distribution of speeds for volumetric detection tasks. The speed at detection was higher than that subjectively estimated by the radiologists before the experiment. The speed information that was measured will be useful in the development of 3D model observers, especially anthropomorphic model observers which try to mimic human behavior.

60 APPLIED LIFE SCIENCES↗

Intelligent data reduction for autonomous power systems

Since 1984 Marshall Space Flight Center was actively engaged in research and development concerning autonomous power systems. Much of the work in this domain has dealt with the development and application of knowledge-based or expert systems to perform tasks previously accomplished only through intensive human involvement. One such task is the health status monitoring of electrical power systems. Such monitoring is a manpower intensive task which is vital to mission success. The Hubble Space Telescope testbed and its associated Nickel Cadmium Battery Expert System (NICBES) were designated as the system on which the initial proof of concept for intelligent power system monitoing will be established. The key function performed by an engineer engaged in system monitoring is to analyze the raw telemetry data and identify from the whole only those elements which can be considered significant. This function requires engineering expertise on the functionality of the system, the mode of operation and the efficient and effective reading of the telemetry data. Application of this expertise to extract the significant components of the data is referred to as data reduction. Such a function possesses characteristics which make it a prime candidate for the application of knowledge-based systems' technologies. Such applications are investigated and recommendations are offered for the development of intelligent data reduction systems.

Floyd, Stephen A.↗

Visual Vestibular Interaction in the Dynamic Visual Acuity Test during Voluntary Head Rotation

Although intact vestibular function is essential in maintaining spatial orientation, no good screening tests of vestibular function are available to the aviation community. High frequency voluntary head rotation was selected as a vestibular stimulus to isolate the vestibulo-ocular reflex (VOR) from visual influence. A dynamic visual acuity test that incorporates voluntary head rotation was evaluated as a potential vestibular function screening tool. Twenty-seven normal subjects performed voluntary sinusoidal head rotation at frequencies from 0.7-4.0 Hz under three different visual conditions: visually-enhanced VOR, normal VOR, and visually suppressed VOR. Standardized Baily-Lovie chart letters were presented on a computer monitor in front of the subject, who then was asked to read the letters while rotating his head horizontally. The electro-oculogram and dynamic visual acuity score were recorded and analyzed. There were no significant differences in gain or phase shift among three visual conditions in the frequency range of 2.8 to 4.0 Hz. The dynamic visual acuity score shifted less than 0.3 logMAR at frequencies under 2.0 Hz. The dynamic visual acuity test at frequencies a round 2.0 Hz can be recommended for evaluating vestibular function.

VISUAL ACUITY↗