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At least 1,693 records · Page 94

A measure of active interfaces in supported catalysts for high-temperature reactions

Formulating knowledge of structure-function relationships in heterogeneous catalysis is central to the design of efficient catalysts; yet, the elucidation of dominant reaction sites has remained as a challenge. Here, in this paper, we present a methodology that can be used to visualize metal-gas and metal-oxide-gas interfaces in three dimensions and to quantify their catalytic activity levels. As a case study, CH 4 oxidation occurring in a Pt/CeO 2 system is chosen. By employing thermally robust Pt@CeO 2 model catalysts with size-tunable and monodisperse cores, and gas-permeable shells, we reconstruct a series of structures in 3D via electron tomography and match the information to activity data and theoretical calculations. This strategy reveals that two different interfaces catalyze the CH 4 oxidation and that their contribution to the overall rate changes with the Pt size, temperature, and gas atmosphere. Our results provide an analytic platform on which to explore reaction pathways and mechanisms applicable to multiple reactions and materials.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Real time side-by-side experimental validation of energy and comfort performance of a zero net energy retrofit package for small commercial buildings

Making buildings zero-net energy (ZNE) is one of the major strategies for achieving carbon emission reduction goals. For this strategy to be successful, it entails a very significant reduction in energy use – 50% or more. In small commercial buildings, however, owners and building management teams usually have limited resources for identifying, analyzing, and procuring appropriate retrofit measures for reducing such use. An approach to overcome this limitation is the development of bundles of energy efficiency measures that can be presented to building owners/operators as a comprehensive package. The research presented in this paper focuses on an experimental evaluation of the impacts of a retrofit package developed for small office buildings in California. Performing this evaluation in a full-scale whole-building integrated systems test facility allowed a side-by-side evaluation in real time, against a reference case, of the impact of the retrofit package not only on energy use but also on visual and thermal comfort. Here, the retrofit package evaluated is comprised of a combination of HVAC, lighting (including daylighting), and plug load measures. The evaluation occurred at different times of the year in order to account for seasonal variations in environmental conditions, including solar angles and weather. The experimental facility allowed testing for two different façade orientations: south and west. Results show that the proposed ZNE retrofit package can save significant amounts of energy for small commercial buildings. During cooling-prevalent periods, total energy savings were 65% for south orientation and 68% for west orientation; during heating-prevalent periods total energy savings were 22% for south orientation and 25% for west orientation. Measurements indicate that the ZNE retrofit package resulted in small but not very significant changes in comfort levels for building occupants.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

POLARIS: Agent-based modeling framework development and implementation for integrated travel demand and network and operations simulations

Here, we discuss the development of an agent-based modelling software development kit, and the implementation and validation of a model using it that integrates dynamic simulation of travel demand, network supply and network operations. A description is given of the core utilities in the kit: a parallel discrete event engine, interprocess exchange engine, and memory allocator, as well as a number of ancillary utilities: visualization library, database IO library, and scenario manager. The overall framework emphasizes the design goals of: generality, code agility, and high performance. This framework allows the modeling of several aspects of transportation system that are typically done with separate stand-alone software applications, in a high-performance and extensible manner. The issue of integrating such models as dynamic traffic assignment and disaggregate demand models has been a long standing issue for transportation modelers. The integrated approach shows a possible way to resolve this difficulty. The simulation model built from the POLARIS framework is a single, shared-memory process for handling all aspects of the integrated urban simulation. The resulting gains in computational efficiency and performance allow planning models to be extended to include previously separate aspects of the urban system, enhancing the utility of such models from the planning perspective. Lastly, initial tests with case studies involving traffic management center impacts on various network events such as accidents, congestion and weather events, show the potential of the system.

42 ENGINEERING↗

InteraChem: Virtual Reality Visualizer for Reactive Interactive Molecular Dynamics

Interactive molecular dynamics in virtual reality (IMD-VR) simulations provide a digital molecular playground for students as an alternative or complement to traditional molecular modeling kits or 2D illustrations. Previous IMD-VR studies have used molecular mechanics to enable simulations of macromolecules such as proteins and nanostructures for the classroom setting with considerable success. Here, we present the InteraChem molecular visualizer, intended for reactive IMD-VR simulation using semiempirical and ab initio methods. InteraChem visualizes not only the molecular geometry but also (1) isosurfaces such as molecular orbitals and electrostatic potentials and (2) two-dimensional graphs of time-varying simulation quantities such as kinetic/potential energy, internal coordinates, and user-applied force. Additionally, InteraChem employs speech recognition to facilitate user interaction and introduces a novel “atom happiness” visualization using emojis to indicate the energetic feasibility of a particular bonding arrangement. Furthermore, we include a set of accompanying exercises that we have used to teach chemical reactivity in small molecular systems.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Solvation Environment and Interface Dynamics of Li 2 B 12 H 12 and Li 2 B 12 F 12 Electrolytes Uncovered by Theory and Operando Optical and FTIR Spectroelectrochemistry

In this work, we evaluated two closo-borate salts (Li 2 B 12 H 12 and Li 2 B 12 F 12 ) in propylene carbonate from theoretical and experimental perspectives to understand how the coordination environment influences their spectroscopic and electrochemical properties. The coordination environments of the closo-borate salts were modeled via density functional theory (DFT) and molecular dynamics (MD). Vibrational spectra calculated from the predicted coordination environments are in agreement with experimentally measured steady-state FTIR data. This theoretical investigation also suggested that Li 2 B 12 F 12 would possess a higher ionic conductivity than Li 2 B 12 H 12 , which was corroborated experimentally. Additionally, an electrochemical cell was designed and fabricated that enabled operando optical and FTIR spectroelectrochemical (OP-IR-SEC) measurements. This allowed for the simultaneous measurement of the relative changes of species at a lithium electrode-liquid electrolyte interface and the visualization of lithium plating at the electrode surface. This technique could provide new chemical insights and potentially link optical changes at the electrode–electrolyte interface to specific chemical species in similar electrochemical systems. The Li 2 B 12 F 12 electrolyte was found to have a higher thermal stability, which may find utility in applications for batteries that are subject to high-temperature conditions.

36 MATERIALS SCIENCE↗

Virtual finger boosts three-dimensional imaging and microsurgery as well as terabyte volume image visualization and analysis

Three-dimensional (3D) bioimaging, visualization and data analysis are in strong need of powerful 3D exploration techniques. We develop virtual finger (VF) to generate 3D curves, points and regions-of-interest in the 3D space of a volumetric image with a single finger operation, such as a computer mouse stroke, or click or zoom from the 2D-projection plane of an image as visualized with a computer. VF provides efficient methods for acquisition, visualization and analysis of 3D images for roundworm, fruitfly, dragonfly, mouse, rat and human. Specifically, VF enables instant 3D optical zoom-in imaging, 3D free-form optical microsurgery, and 3D visualization and annotation of terabytes of whole-brain image volumes. VF also leads to orders of magnitude better efficiency of automated 3D reconstruction of neurons and similar biostructures over our previous systems. We use VF to generate from images of 1,107 Drosophila GAL4 lines a projectome of a Drosophila brain.

59 BASIC BIOLOGICAL SCIENCES↗

All-optical image denoising using a diffractive visual processor

Abstract Image denoising, one of the essential inverse problems, targets to remove noise/artifacts from input images. In general, digital image denoising algorithms, executed on computers, present latency due to several iterations implemented in, e.g., graphics processing units (GPUs). While deep learning-enabled methods can operate non-iteratively, they also introduce latency and impose a significant computational burden, leading to increased power consumption. Here, we introduce an analog diffractive image denoiser to all-optically and non-iteratively clean various forms of noise and artifacts from input images – implemented at the speed of light propagation within a thin diffractive visual processor that axially spans <250 × λ, where λ is the wavelength of light. This all-optical image denoiser comprises passive transmissive layers optimized using deep learning to physically scatter the optical modes that represent various noise features, causing them to miss the output image Field-of-View (FoV) while retaining the object features of interest. Our results show that these diffractive denoisers can efficiently remove salt and pepper noise and image rendering-related spatial artifacts from input phase or intensity images while achieving an output power efficiency of ~30–40%. We experimentally demonstrated the effectiveness of this analog denoiser architecture using a 3D-printed diffractive visual processor operating at the terahertz spectrum. Owing to their speed, power-efficiency, and minimal computational overhead, all-optical diffractive denoisers can be transformative for various image display and projection systems, including, e.g., holographic displays.

36 MATERIALS SCIENCE↗

First look at neutron emission shape characteristics of ignition hotspots at the National Ignition Facility (invited)

The nuclear imaging system has been capturing neutron images of inertial confinement fusion (ICF) driven implosions for over a decade at the National Ignition Facility. This imaging system has evolved from one to three nearly orthogonal lines-of-sight, allowing for the study of three-dimensional shape characteristics of ignition shots. Limited-view tomography algorithms help visualize the burning hotspot in 3D and assess neutron source geometry using Legendre mode parameters. With its neutron, gamma-ray, and x-ray image reconstruction capabilities, NIS has provided critical insight into mechanisms that have limited implosion performance, such as fill tube diameter for ignition-type targets. This comprehensive diagnostic suite opens a window into the shape characteristics of ignition shots and how symmetry affects ICF implosion performance. In more recent ignition shots, neutron yields have visibly increased. Analyzing the shape and size of the reconstructed neutron source has shown an expansion of the burn volume, which is indicative of more efficient alpha heating during the implosion process.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

SPOCS: Software for Predicting and Visualizing Orthology/Paralogy Relationships Among Genomes

At the rate that prokaryotic genomes can now be generated, comparative genomics studies require a flexible method for quickly and accurately predicting orthologs among the rapidly changing set of genomes available. SPOCS implements a graph-based ortholog prediction method to generate a simple tab-delimited table of orthologs and in addition, html files that provide a visualization of the predicted ortholog/paralog relationships to which gene/protein expression metadata may be overlaid. AVAILABILITY AND IMPLEMENTATION: A SPOCS web application is freely available at http://cbb.pnnl.gov/portal/tools/spocs.html. Source code for Linux systems is also freely available under an open source license at http://cbb.pnnl.gov/portal/software/spocs.html; the Boost C++ libraries and BLAST are required.

comparative genomics↗

DynaM: Dynamic Multiresolution Data Representation for Large-Scale Scientific Analysis

Fast growing large-scale systems enable scientific applications to run at a much larger scale and accordingly produce gigantic volumes of simulation output. Such data imposes a grand challenge to post-processing tasks such as visualization and data analysis, because these tasks are often performed at a host machine that is remotely located and equipped with much less memory and storage resources. During the simulation runs, it is also desirable for scientists to be able to interactively monitor and steer the progress of simulation. This requires scientific data to be represented in an efficient form for initial exploration and computation steering. In this paper, we propose DynaM a software framework that can represent scientific data in a multiresolution form, and dynamically organize data blocks into an optimized layout for efficient scientific analysis. DynaM supports a convolution-based multiresolution data representation for abstracting scientific data for visualization at a wide spectrum of resolution. To support the efficient generation and retrieval of different data granularities from such representation, a dynamic data organization in DynaM is enabled to cater distinct peculiarities of different size data blocks for efficient and balanced I/O performance. Our experimental results demonstrate that DynaM can efficiently represent large scientific dataset and speed up the visualization of multidimensional scientific data. An up to 29 times speedup is achieved on Jaguar supercomputer at Oak Ridge National Laboratory.

Tian, Yuan↗

Preliminary results on the feasibility of using ultrasound to monitor intrafractional motion during radiation therapy for pancreatic cancer

Purpose: Substantial intrafraction organ motion during radiation therapy (RT) for pancreatic cancer is well recognized as a major limiting factor for accurate delivery of RT. The aim of this work is to determine the feasibility of monitoring the intrafractional motion of the pancreas or surrounding structures using ultrasound for RT delivery. Methods: Transabdominal ultrasound (TAUS) and 4DCT data were acquired on ten pancreatic cancer patients during radiation therapy process in a prospective study. In addition, TAUS and MRI were collected for five healthy volunteers. The portal vein (PV) and the head of the pancreas (HP) along with other structures were contoured on these images. Volume changes, distance between the HP and PV, and motion difference between the HP and PV were measured to examine whether PV can be used as a motion surrogate for HP. TAUS images were acquired and processed using a research version of the Clarity autoscan ultrasound system (CAUS). Motion monitoring was performed with the ultrasound probe mounted on an arm fixed to the couch. Video segments of the monitoring sessions were captured. Results: On TAUS, PV is better visualized than HP. The measured mean volume deviation for all patients for the HP and PV was 1.4 and 0.6 ml, respectively. The distance between the HP and PV was close to a constant with 0.22 mm mean deviation throughout the ten breathing phases. The mean of the absolute motion difference for all patients was 1.7 ± 0.8 mm in LR, 1.5 ± 0.5 mm in AP, and 2.3 ± 0.7 mm in SI, suggesting that the PV is a good surrogate for HP motion estimation. By using this surrogate, the HP motion tracking using TAUS was demonstrated. Conclusions: Large intrafractional organ motion due to respiratory and/or bowel motion is a limiting factor in administering curative radiation doses to pancreatic tumors. The authors investigate the use of real-time ultrasound to track pancreas motion. Due to the poor visibility of the pancreas head on an ultrasound image, the portal vein is identified as a surrogate. The authors have demonstrated the feasibility of tracking HP motion through the localization of the PV using TAUS. This will potentially allow real-time tracking of intrafractional motion to justify small PTV-margins and to account for unusual motions, thus, improving normal tissue sparing.

60 APPLIED LIFE SCIENCES↗

Synthesis, Characterization, Crystal Structure, and Hirshfeld Surface Analysis of Ethyl 2-(4-bromophenyl)-1-cyclohexyl-1H-benzo[d]imidazole-5-carboxylate

The title compound, C{sub 22}H{sub 23}N{sub 2}BrO{sub 2} was synthesized via one-pot reductive cyclization method and characterized by CNH analysis, FT-IR, UV-visible, mass, {sup 1}H and {sup 13}C NMR spectra, thermogravimetric analysis (TGA) and single crystal X-ray diffraction method. The compound crystallizes in monoclinic crystal system: sp. gr. P2{sub 1}/c, Z = 4. The crystal data reveals that the intermolecular interactions of the C–H···π and π···π type connect the molecules which was also visualized with the help of Hirshfeld surface analysis.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Time-Periodic Solutions of Driven-Damped Trimer Granular Crystals

We consider time-periodic structures of granular crystals consisting of alternate chrome steel (S) and tungsten carbide (W) spherical particles where each unit cell follows the pattern of a 2 : 1 trimer: S-W-S. The configuration at the left boundary is driven by a harmonic in-time actuation with given amplitude and frequency while the right one is a fixed wall. Similar to the case of a dimer chain, the combination of dissipation, driving of the boundary, and intrinsic nonlinearity leads to complex dynamics. For fixed driving frequencies in each of the spectral gaps, we find that the nonlinear surface modes and the states dictated by the linear drive collide in a saddle-node bifurcation as the driving amplitude is increased, beyond which the dynamics of the system becomes chaotic. While the bifurcation structure is similar for solutions within the first and second gap, those in the first gap appear to be less robust. We also conduct a continuation in driving frequency, where it is apparent that the nonlinearity of the system results in a complex bifurcation diagram, involving an intricate set of loops of branches, especially within the spectral gap. The theoretical findings are qualitatively corroborated by the experimental full-field visualization of the time-periodic structures.

36 MATERIALS SCIENCE↗

Gamma-ray imaging and holdup assays of 235-F PuFF cells 1 & 2

Savannah River National Laboratory (SRNL) Nuclear Measurements (L4120) was tasked with performing enhanced characterization of the holdup in the PuFF shielded cells. Assays were performed in accordance with L16.1-ADS-2460 using two high-resolution gamma-ray detectors. The first detector, an In Situ Object Counting System (ISOCS)-characterized detector, was used in conjunction with the ISOCS Geometry Composer software to quantify grams of holdup. The second detector, a Germanium Gamma-ray Imager (GeGI), was used to visualize the location and relative intensity of the holdup in the cells. Carts and collimators were specially designed to perform optimum assays of the cells. Thick, pencil-beam tungsten collimators were fabricated to allow for extremely precise targeting of items of interest inside the cells. Carts were designed with a wide range of motion to position and align the detectors. A total of 24 measurements were made, each typically 24 hours or longer to provide sufficient statistical precision. This report presents the results of the enhanced characterization for cells 1 and 2. The measured gram values agree very well with results from the 2014 study. In addition, images were created using both the 2014 data and the new GeGI data. The GeGI images of the cells walls reveal significant Pu-238 holdup on the surface of the walls in cells 1 and 2. Additionally, holdup is visible in the two pass-throughs from cell 1 to the wing cabinets. This report documents the final element (exterior measurements coupled with gamma-ray imaging and modeling) of the enhanced characterization of cells 1-5 (East Cell Line).

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

CMS Outer Tracker Module QA

The High Luminosity Large Hadron Collider is a planned upgrade to the LHC that will allow it to take up to 7 times as much data. Upgrades to all detector systems, including the Outer Tracker, are necessary to allow them to handle the increased radiation and pileup. Fermilab has been tasked with assembling modules for the Outer Tracker system. This presentation discusses the QA tests performed on these modules and the integration procedure required to ensure all modules work in sync. The QA tests include sensor IV curves, MaPSA testing, visual inspection, skeleton testing, and module testing. There are additional tests that can only be performed on integrated modules that are working in sync, and developing an understanding of the timing and latency of the modules is necessary to perform this synchronization.

Hobbeheydar, Samuel [Fermilab; Carnegie Mellon U. ↗

CMS Outer Tracker Module QA

The High Luminosity Large Hadron Collider is a planned upgrade to the LHC that will allow it to take up to 7 times as much data. Upgrades to all detector systems, including the Outer Tracker, are necessary to allow them to handle the increased radiation and pileup. Fermilab has been tasked with assembling modules for the Outer Tracker system. This presentation discusses the QA tests performed on these modules and the integration procedure required to ensure all modules work in sync. The QA tests include sensor IV curves, MaPSA testing, visual inspection, skeleton testing, and module testing. There are additional tests that can only be performed on integrated modules that are working in sync, and developing an understanding of the timing and latency of the modules is necessary to perform this synchronization.

Hobbeheydar, Samuel [Fermilab; Carnegie Mellon U. ↗

Deep Water Impact Ensemble Data Set

Asteroids of various sizes, speeds, and compositions are zipping around the solar system with potential future Earth engagements. Most of the earth is covered in ocean and impacts would likely occur in deep ocean water. The IEEE SciVis Contest 2018 is dedicated to the visualization and analysis of simulations designed to study asteroid impacts in deep ocean water.

"asteroid impact" meteor "in situ" visualization↗

WHONDRS-GUI: a web application for global survey of surface water metabolites

Background The Worldwide Hydrobiogeochemistry Observation Network for Dynamic River Systems (WHONDRS) is a consortium that aims to understand complex hydrologic, biogeochemical, and microbial connections within river corridors experiencing perturbations such as dam operations, floods, and droughts. For one ongoing WHONDRS sampling campaign, surface water metabolite and microbiome samples are collected through a global survey to generate knowledge across diverse river corridors. Metabolomics analysis and a suite of geochemical analyses have been performed for collected samples through the Environmental Molecular Sciences Laboratory (EMSL). The obtained knowledge and data package inform mechanistic and data-driven models to enhance predictions of outcomes of hydrologic perturbations and watershed function, one of the most critical components in model-data integration. To support efforts of the multi-domain integration and make the ever-growing data package more accessible for researchers across the world, a Shiny/R Graphical User Interface (GUI) called WHONDRS-GUI was created. Results The web application can be run on any modern web browser without any programming or operational system requirements, thus providing an open, well-structured, discoverable dataset for WHONDRS. Together with a context-aware dynamic user interface, the WHONDRS-GUI has functionality for searching, compiling, integrating, visualizing and exporting different data types that can easily be used by the community. The web application and data package are available at https://data.ess-dive.lbl.gov/view/doi:10.15485/1484811 , which enables users to simultaneously obtain access to the data and code and to subsequently run the web app locally. The WHONDRS-GUI is also available for online use at Shiny Server ( https://xmlin.shinyapps.io/whondrs/ ).

59 BASIC BIOLOGICAL SCIENCES↗