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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 19 records
All sourcesNASA NTRSDOE OSTI
DOE OSTI2020

dCache – Efficient Message Encoding For Inter-Service Communication in dCache: Evaluation of Existing Serialization Protocols as a Replacement for Java Object Serialization

As a well established, large-scale distributed storage system, dCache is used to manage and serve huge amounts of data collected by high energy physics, astrophysics and photon science experiments. Based on a microservices-like architecture, dCache is built as a modular distributed system, where each component provides a different core functionality. These services communicate by passing serialized messages to each other, a core behavior whose performance properties can consequently affect the entire system.This paper compares and evaluates different data serialization protocols in computer science with the objective of replacing and improving upon Java Object Serialization (JOS), which has increasingly presented itself as no longer being sufficiently performant for encoding messages. The criteria for choosing a new framework are collected, analyzed and formalized. The primary motivation for replacing Java serialization for encoding dCache messages is increasing the general speed of message-passing and thereby reducing the round-trip time for user requests. Emphasis is also placed on schema evolution capabilities and framework usability. Approaches for generalizing (de)serialization speed and size measurements based on data structure complexity are introduced, criteria for measuring documentation, learning curve, maintainability and introduction effort are defined. Finally, several selected serialization protocols are evaluated and compared accordingly, concluding with a recommendation for a suitable JOS replacement.

Morschel, Lea↗
NASA NTRS2016

Implementation of a Multichannel Serial Data Streaming Algorithm using the Xilinx Serial RapidIO Solution

In the current world of applications that use reconfigurable technology implemented on field programmable gate arrays (FPGAs), there is a need for flexible architectures that can grow as the systems evolve. A project has limited resources and a fixed set of requirements that development efforts are tasked to meet. Designers must develop robust solutions that practically meet the current customer demands and also have the ability to grow for future performance. This paper describes the development of a high speed serial data streaming algorithm that allows for transmission of multiple data channels over a single serial link. The technique has the ability to change to meet new applications developed for future design considerations. This approach uses the Xilinx Serial RapidIO LOGICORE Solution to implement a flexible infrastructure to meet the current project requirements with the ability to adapt future system designs.

RapidIO↗
DOE OSTI2018

Resolution extension by image summing in serial femtosecond crystallography of two-dimensional membrane-protein crystals

Previous proof-of-concept measurements on single-layer two-dimensional membrane-protein crystals performed at X-ray free-electron lasers (FELs) have demonstrated that the collection of meaningful diffraction patterns, which is not possible at synchrotrons because of radiation-damage issues, is feasible. Here, the results obtained from the analysis of a thousand single-shot, roomtemperature X-ray FEL diffraction images from two-dimensional crystals of a bacteriorhodopsin mutant are reported in detail. The high redundancy in the measurements boosts the intensity signal-to-noise ratio, so that the values of the diffracted intensities can be reliably determined down to the detector-edge resolution of 4 A ° . The results show that two-dimensional serial crystallography at X-ray FELs is a suitable method to study membrane proteins to near-atomic length scales at ambient temperature. The method presented here can be extended to pump–probe studies of optically triggered structural changes on submillisecond timescales in two-dimensional crystals, which allow functionally relevant large-scale motions that may be quenched in three-dimensional crystals.

serial crystallography, free-electron lasers, memb↗
DOE OSTI2017

Adapting the serial Alpgen parton-interaction generator to simulate LHC collisions on millions of parallel threads

As the LHC moves to higher energies and luminosity, the demand for computing resources increases accordingly and will soon outpace the growth of the World- wide LHC Computing Grid. To meet this greater demand, event generation Monte Carlo was targeted for adaptation to run on Mira, the supercomputer at the Argonne Leadership Computing Facility. Alpgen is a Monte Carlo event generation application that is used by LHC experiments in the simulation of collisions that take place in the Large Hadron Collider. This paper details the process by which Alpgen was adapted from a single-processor serial-application to a large-scale parallel-application and the performance that was achieved.

HEP↗
DOE OSTI2017

High-speed fixed-target serial virus crystallography

Here, we report a method for serial X-ray crystallography at X-ray free-electron lasers (XFELs), which allows for full use of the current 120-Hz repetition rate of the Linear Coherent Light Source (LCLS). Using a micropatterned silicon chip in combination with the high-speed Roadrunner goniometer for sample delivery, we were able to determine the crystal structures of the picornavirus bovine enterovirus 2 (BEV2) and the cytoplasmic polyhedrosis virus type 18 polyhedrin, with total data collection times of less than 14 and 10 min, respectively. Our method requires only micrograms of sample and should therefore broaden the applicability of serial femtosecond crystallography to challenging projects for which only limited sample amounts are available. By synchronizing the sample exchange to the XFEL repetition rate, our method allows for most efficient use of the limited beam time available at XFELs and should enable a substantial increase in sample throughput at these facilities.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Serial femtosecond and serial synchrotron crystallography can yield data of equivalent quality: A systematic comparison

For the two proteins myoglobin and fluoroacetate dehalogenase, we present a systematic comparison of crystallographic diffraction data collected by serial femtosecond (SFX) and serial synchrotron crystallography (SSX). To maximize comparability, we used the same batch of micron-sized crystals, the same sample delivery device, and the same data analysis software. Overall figures of merit indicate that the data of both radiation sources are of equivalent quality. For both proteins, reasonable data statistics can be obtained with approximately 5000 room-temperature diffraction images irrespective of the radiation source. The direct comparability of SSX and SFX data indicates that the quality of diffraction data obtained from these samples is linked to the properties of the crystals rather than to the radiation source. Therefore, for other systems with similar properties, time-resolved experiments can be conducted at the radiation source that best matches the desired time resolution.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2017

Se-SAD serial femtosecond crystallography datasets from selenobiotinyl-streptavidin

We provide a detailed description of selenobiotinyl-streptavidin (Se-B SA) co-crystal datasets recorded using the Coherent X-ray Imaging (CXI) instrument at the Linac Coherent Light Source (LCLS) for selenium single-wavelength anomalous diffraction (Se-SAD) structure determination. Se-B SA was chosen as the model system for its high affinity between biotin and streptavidin where the sulfur atom in the biotin molecule (C 10 H 16 N 2 O 3 S) is substituted with selenium. The dataset was collected at three different transmissions (100, 50, and 10%) using a serial sample chamber setup which allows for two sample chambers, a front chamber and a back chamber, to operate simultaneously. Diffraction patterns from Se-B SA were recorded to a resolution of 1.9 Å. The dataset is publicly available through the Coherent X-ray Imaging Data Bank (CXIDB) and also on LCLS compute nodes as a resource for research and algorithm development.

36 MATERIALS SCIENCE↗
NASA NTRS2010

Serial turbo trellis coded modulation using a serially concatenated coder

Serial concatenated trellis coded modulation (SCTCM) includes an outer coder, an interleaver, a recursive inner coder and a mapping element. The outer coder receives data to be coded and produces outer coded data. The interleaver permutes the outer coded data to produce interleaved data. The recursive inner coder codes the interleaved data to produce inner coded data. The mapping element maps the inner coded data to a symbol. The recursive inner coder has a structure which facilitates iterative decoding of the symbols at a decoder system. The recursive inner coder and the mapping element are selected to maximize the effective free Euclidean distance of a trellis coded modulator formed from the recursive inner coder and the mapping element. The decoder system includes a demodulation unit, an inner SISO (soft-input soft-output) decoder, a deinterleaver, an outer SISO decoder, and an interleaver.

Divsalar, Dariush↗
NASA NTRS2011

Serial turbo trellis coded modulation using a serially concatenated coder

Serial concatenated trellis coded modulation (SCTCM) includes an outer coder, an interleaver, a recursive inner coder and a mapping element. The outer coder receives data to be coded and produces outer coded data. The interleaver permutes the outer coded data to produce interleaved data. The recursive inner coder codes the interleaved data to produce inner coded data. The mapping element maps the inner coded data to a symbol. The recursive inner coder has a structure which facilitates iterative decoding of the symbols at a decoder system. The recursive inner coder and the mapping element are selected to maximize the effective free Euclidean distance of a trellis coded modulator formed from the recursive inner coder and the mapping element. The decoder system includes a demodulation unit, an inner SISO (soft-input soft-output) decoder, a deinterleaver, an outer SISO decoder, and an interleaver.

Divsalar, Dariush↗
DOE OSTI2019

No Increased Mortality After TIPS Compared with Serial Large Volume Paracenteses in Patients with Higher Model for End-Stage Liver Disease Score and Refractory Ascites

Purpose: To compare survival after transjugular intrahepatic portosystemic shunt (TIPS) creation versus serial large volume paracenteses (LVP) in patients with refractory ascites and higher Model for End-Stage Liver Disease (MELD) scores. Materials and Methods: In this retrospective study, from 1/1/2013 to 10/1/2018, 478 patients (294 male; mean age 58, range 23–89) underwent serial LVP (n = 386) or TIPS (n = 92) for ascites. Propensity-matched cohorts were constructed based on age, MELD, Charlson comorbidity index, varices, and hepatic encephalopathy. Survival was analyzed using a Cox proportional hazards model in which MELD score and TIPS were treated as time-dependent covariates. An interaction term was used to assess the impact of TIPS versus serial LVP on survival as a function of increasing MELD. Results: In the overall patient sample, higher MELD score predicted worse survival after either serial LVP or TIPS [hazard ratio (HR) = 1.13; p < 0.001], but there was no significant interaction between TIPS and higher MELD score conferring worse survival (HR = 1.01; p = 0.55). In 92 propensity-matched serial LVP and 92 TIPS patients, higher MELD score predicted worse survival after either serial LVP or TIPS (HR = 1.19; p < 0.001), but there was no significant survival interaction between TIPS and higher MELD (HR = 0.97; p = 0.22). In 30 propensity-matched serial LVP patients and 30 TIPS patients with baseline MELD greater than 18, TIPS did not predict worse survival (HR = 0.97; p = 0.94). Conclusion: Higher MELD predicts poorer survival after either serial LVP or TIPS, but TIPS creation is not associated with worse survival compared to serial LVP in patients with higher MELD scores Level of Evidence: Level 4, case series.

62 RADIOLOGY AND NUCLEAR MEDICINE↗
NASA NTRSDate not supplied

Spectral Measurement Errors due to CCD Serial Pixel-to-Pixel Readout Interference in the Ocean Color Instrument of the NASA PACE Mission

The Ocean Color Instrument on NASA’s PACE mission is a hyperspectral imager with a spatial resolution of 1km x 1km and spectral resolution of 5nm in 2.5nm steps over 320-890nm. The detection system is based on two Charge-Coupled Devices (CCDs) operating in Time Delay Integration (TDI) mode to achieve high signal-to-noise ratio. The front-end optical imager is a rotating mirror-based system that images the ground-scene onto a slit with a field of view of 16km x 1km. The slit-image is re-imaged and wavelength dispersed on the CCDs. As the ground-scene moves through the slit, it moves along the CCD columns as charge is moved along with it. The accumulated charge at the end of each column is collected in a serial pixel. Each of the 16 CCD outputs read out 32 columns of the same ground scene spaced 0.625nm apart. The 32-pixel serial register is swiftly read out before the next TDI cycle. The telescope is spinning at 5.77Hz to achieve the required spatial resolution. This results in a serial pixel readout speed of 8.5MHz. Each serial read-cycle goes through a reset and video period that are each sampled to create a low-noise correlated double sample value. This only allows 59ns for the reset and video to be asserted and settled before sampling. Due to the short time period, the response of the CCD exhibits serial pixel-to-pixel readout interference as the reset and video signals do not have time to fully settle before sampling. Each serial pixel value therefore has a dependence on the value of the preceding pixel value. This leads to a spectral measurement error of up to 0.3%. We explain the operation of the detection system, the behavior of the interference and the resulting wavelength error with results from ground testing and on-orbit characterization.

Ulrik B Gliese↗