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At least 703 records · Page 39

Towards time-resolved MicroED grid preparation using mix-and-inject gas dynamic virtual nozzles

Recent progress in gas dynamic virtual nozzle (GDVN) technologies in combination with high-brilliance synchrotron and X-ray free-electron lasers (XFELs) has allowed the visualization of protein dynamics in crystallo by mixing macromolecular protein crystals with a substrate using tunable mixing times on the order of milliseconds to seconds prior to serial X-ray diffraction data collection. This has become the method of choice for high-resolution structure determination of intermediate states. However, such experiments require large counts of crystals of proper sizes for high-resolution data collection, and premium beam times for screening efforts. Cryogenic microcrystal electron diffraction (MicroED) represents a complementary technique that may be a more accessible avenue for time-resolved nanocrystallography compared with serial X-ray diffraction experiments. MicroED can produce full diffraction datasets from just a few submicrometre-thick crystals, and the approach is more readily accessible, requiring standard cryogenic transmission electron microscopy (TEM) equipment available at many universities and institutes. Cryogenic MicroED, like other forms of cryo-EM, begins with rapidly freezing biological material on electron microscopy grids. In the case of MicroED, micro- to nano-crystals (<500 nm thick) are deposited onto electron microscopy grids and plunge-frozen for subsequent electron diffraction data collection. Here, we have incorporated GDVN technology developed originally for XFEL experiments into the freezing process as a first step towards time-resolved studies. We describe the limited deposition efficiency of the model MicroED protein proteinase K on TEM grids using GDVNs, preceding sample vitrification and successful MicroED data collection. We discuss both the initial results from such experiments and the methodological challenges in developing this approach into a reliable workflow for millisecond-to-second time-resolved structural studies of macromolecules. Our results promise a strategy to deposit crystals on grids using GDVNs and determine high-resolution structures by MicroED, constituting a first step towards development of time-resolved MicroED experiments.

MicroED↗

Hydrogen station in situ back-to-back fueling data for design and modeling

Hydrogen technologies are rapidly spreading, with significant attention to the mobility sector requiring a robust and widespread fueling infrastructure. Hydrogen stations are indeed fundamental to transitioning from pilot projects towards large-scale implementation in many countries. Operating under extreme conditions, the new stations need more informed designs and equipment to meet the growing demand and their more frequent utilization. Via a set of experimental research activities and investigated scenarios carried out at the Cal State LA Hydrogen Research and Fueling Facility, here this paper shares a novel and comprehensive set of data collected over a period of one year on fueling events frequency and refueling process station behaviors. A performance evaluation of the station is presented under different load scenarios in severe conditions during "back-to-back fuelings", with monitoring of fundamental parameters for infrastructure sizing, including dynamic cooling response, pressure levels, thermodynamics, and the state of charge of the vehicle. The presented data analysis could surely contribute as closer-to-reality inputs for a variety of station performance modeling tools.

08 HYDROGEN↗

Temporal patterns of fine‐root dynamics have little influence on seasonal soil CO 2 efflux in a mixed, mesic forest

Among the contributors to soil CO 2 efflux, there remains uncertainty about the contribution of root activity to the overall soil efflux. Soil water and temperature frequently have been used to predict a large portion of the variation in soil CO 2 efflux. We hypothesized that fine-root dynamics explain most of the remaining variability in soil CO 2 efflux that cannot be explained by soil temperature and water content. We anticipated that seasonal increases in root production, mortality via decomposition, and standing crop would result in corresponding increases in soil CO 2 efflux. We tested our hypotheses by collecting and analyzing two years of minirhizotron and soil chamber CO 2 flux data from plots distributed throughout the Shale Hills Catchment of the Susquehanna-Shale Hills Critical Zone Observatory in Central Pennsylvania, USA. Here we showed that: (1) seasonal fluctuations in fine-root dynamics yielded only a very small increase in the predictability of soil CO 2 efflux; (2) fine-root mortality effects on soil CO 2 efflux were strongly tied to soil temperature; (3) fluctuations in fine-root presence or standing mass independent of temperature and moisture had little effect on soil CO 2 efflux; and (4) new fine-root length and root length mortality had limited impacts on soil CO 2 efflux rates. We conclude that, at least in temperate forests on rocky soils, characterizing fine-root dynamics may provide only limited improvement in the estimation of soil CO 2 efflux.

54 ENVIRONMENTAL SCIENCES↗

Evolution of the ATLAS TDAQ online software framework towards Phase-II upgrade: Use of Kubernetes as an orchestrator of the ATLAS Event Filter computing farm

The ATLAS experiment at the LHC at CERN continuously evolves its TDAQ system to meet the challenges of new physics goals and technological advancements. As ATLAS prepares for the Phase-II Run 4 of the LHC, significant enhancements in the TDAQ Controls and Configuration (TDAQ-CC) tools have been designed to ensure efficient data collection, processing, and management. This abstract presents the evolution of ATLAS TDAQ-CC system leading up to Phase-II Run 4. As part of the evolution towards Phase-II, Kubernetes has been chosen to orchestrate the Event Filter (EF) farm. By leveraging Kubernetes, ATLAS can dynamically allocate computing resources, scale processing capacity in response to changing data taking conditions and ensure high availability of data processing services. The integration of the Kubernetes with the TDAQ Run Control framework enables perfect synchronisation between the experiment’s data acquisition components and the computing infrastructure. We will discuss the architectural considerations and implementation challenges involved in Kubernetes integration with the ATLAS TDAQ-CC system. We will highlight the benefits of using Kubernetes as an EF farm orchestrator, including improved resource utilization, enhanced fault tolerance, and simplified deployment and management of data processing workflows. In addition, we will report on the extensive testing of Kubernetes that was conducted using a farm of 2500 servers within the experiment data taking environment, demonstrating its scalability and robustness in handling the demands of the ATLAS TDAQ system for Phase-II. The adoption of Kubernetes represents a significant step forward in the evolution of ATLAS TDAQ-CC system, aligning with industry best practices in container orchestration.

Corso Radu, Alina [Univ. of California, Irvine, CA↗

A Privacy Preserving Model-Free Optimization and Control Framework for Demand Response from Residential Thermal Loads

We consider the problem of optimizing the cost of procuring electricity for a large collection of homes managed by a load serving entity, by pre-cooling or pre-heating the thermal inertial loads in the homes to avoid procuring power during periods of peak electricity pricing. We would like to accomplish this objective in a completely privacy-preserving and model-free manner, that is, without direct access to the state variables (temperatures or power consumption) or the dynamical models (thermal characteristics) of individual homes, while guaranteeing personal comfort constraints of the consumers. We propose a two-stage optimization and control framework to address this problem. In the first stage, we use a long short-term memory (LSTM) network to predict hourly electricity prices, based on historical pricing data and weather forecasts. Given the hourly price forecast and thermal models of the homes, the problem of designing an optimal power consumption trajectory that minimizes the total electricity procurement cost for the collection of thermal loads can be formulated as a large-scale integer program (with millions of variables) due to the on-off cyclical dynamics of such loads. We provide a simple heuristic relaxation to make this large-scale optimization problem model-free and computationally tractable. In the second stage, we translate the results of this optimization problem into distributed open-loop control laws that can be implemented at individual homes without measuring or estimating their state variables, while simultaneously ensuring consumer comfort constraints. We demonstrate the performance of this approach on a large-scale test case comprising of 500 homes in the Houston area and benchmark its performance against a direct model-based optimization and control solution.

Sivaranjani, S.↗

Intermediate scattering functions of a rigid body monoclonal antibody protein in solution studied by dissipative particle dynamic simulation

In the past decade, there was increased research interest in studying internal motions of flexible proteins in solution using Neutron Spin Echo (NSE) as NSE can simultaneously probe the dynamics at the length and time scales comparable to protein domain motions. However, the collective intermediate scattering function (ISF) measured by NSE has the contributions from translational, rotational, and internal motions, which are rather complicated to be separated. Widely used NSE theories to interpret experimental data usually assume that the translational and rotational motions of a rigid particle are decoupled and independent to each other. To evaluate the accuracy of this approximation for monoclonal antibody (mAb) proteins in solution, dissipative particle dynamic computer simulation is used here to simulate a rigid-body mAb for up to about 200 ns. The total ISF together with the ISFs due to only the translational and rotational motions as well as their corresponding effective diffusion coefficients is calculated. The aforementioned approximation introduces appreciable errors to the calculated effective diffusion coefficients and the ISFs. For the effective diffusion coefficient, the error introduced by this approximation can be as large as about 10% even though the overall agreement is considered reasonable. Thus, we need to be cautious when interpreting the data with a small signal change. In addition, the accuracy of the calculated ISFs due to the finite computer simulation time is also discussed.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Spent nuclear fuel dynamic performance under normal conditions of transport

The objective of this project is to evaluate the spent nuclear fuel (SNF) vibration integrity under normal condition of transport. The SNF fatigue strength data has been collected from various pressurized water reactors. The CIRFT (Cyclic Integrated Reversible-Bending Fatigue Tester) has been used to simulate transportation environments. CIRFT is an enabling hot-cell testing technology developed at Oak Ridge National Laboratory (ORNL). The CIRFT consists mainly of a U-frame testing setup and a real-time curvature measurement method. The three-component U-frame setup of the CIRFT has two rigid arms and linkages to a universal testing machine. The curvature of rod bending is obtained through a three-point deflection measurement method. Three linear variable differential transformers (LVDTs) are used and clamped to the side connecting plates of the U-frame to capture the deformation of the rod. CIRFT results have provided insight into the fuel/clad system response to transportation related loads. Because of the non-homogeneous composite structure of the SNF system, finite element analyses (FEA) are needed to translate the global moment-curvature measurement into local stress-strain profiles. The detailed mechanisms of the pellet-pellet and pellet-clad interactions and the stress concentration effects at the pellet-pellet interface cannot be readily obtained directly from a CIRFT system measurement. Therefore, detailed FEA is used to understand the global test response. The major findings of CIRFT test on the high burn-up SNF are as follows: -) SNF system interface bonding plays an important role in SNF vibration performance; -) Fuel structure contributes to the SNF system stiffness; -) There are significant variations in stress and curvature of SNF systems during vibration cycles resulting from segment pellets and clad interaction, and -) SNF failure initiates at the pellet-pellet interface region and appears to be spontaneous.

42 ENGINEERING↗

Quantification of Dynamic Scattering Effects in Molecular Crystals using Large Angle Rocking Beam Electron Diffraction

Electron crystallography provides a pathway to solve structure of small crystals (< 1um) in size, and thus overcomes difficult synthesis constraints involved in growing large crystals. Generally, electron diffraction data is collected in the form of integrated intensity using continuous rotation or by precession. The measured intensities in 3D are utilized for structure solution. Using this approach, structure solution of difficult crystals, such as small crystals of zeolites, metal-organic frameworks, molecular crystals, and proteins , can be solved by electron diffraction. However, electron structure solutions are regularly reported with higher Rvalues than x-ray or neutron diffraction. While similar structures are found despite the high R-values, the differences in the measure intensity and theory calculated intensity limit information that can be extracted by electron diffraction. Previous work demonstrated that including multiple-scattering effects significantly reduce the R-values . Thus, it is critical to be able to quantify the dynamical diffraction effects in molecular crystals.

Crystallography↗

Estimation of Thermodynamic and Dynamic Contributions to Sea Ice Growth in the Central Arctic Using ICESat-2 and MOSAiC SIMBA Buoy Data

The fine spatial resolution of the ICESat-2 (IS2) satellite altimeter allows monitoring the evolution of sea ice thickness with detailed dynamic information (e.g. ridges and leads). In this study, we first assess the ability of IS2 to estimate thermodynamic ice growth and dynamic thickening during the ice-growing season in the central Arctic Ocean. As an indicator of the thermodynamic ice growth, we use 10 thermistor string-based sea ice mass balance array (SIMBA) buoys deployed at a scale of ~ 50 km from the Icebreaker Polarstern during the Multidisciplinary drifting Observatory for the Study of Arctic Climate (MOSAiC) expedition. We collect IS2 data within 20 km buffer distance from the individual buoys, and calculate the mode, median, and mean of the IS2-derived ice thickness. The IS2 modal thickness shows the least bias (−0.169 m) with the buoy ice thickness, representing level ice thickness. In addition, the increasing rate of the IS2 modal thickness is close to the thermodynamic ice growth with a small bias of −0.054 cm/day. However, the increasing rates of the IS2 median and mean thickness are greater than the thermodynamic ice growth by about 0.114 cm/day and 0.198 cm/day, respectively, because they also include ice growth caused by thickness redistribution during dynamic deformation. The dynamic contributions may account for 26.1 ± 10.3% and 34.4 ± 10.1% of the total increase of the IS2 median and mean thickness, respectively. Within a ~ 50 km radius area from the MOSAiC Central Observatory, IS2 measurements exhibit that the ridge fraction increased from <2% in November to ~ 4% in March (~0.029%/day of average increasing rate) and ridge height increased about 0.047 cm/day during the same period. However, lead formation does not show significant contributions to the dynamic ice thickening because leads are temporary features lasting only 2–3 days. Although there are considerable uncertainties in IS2 ice thickness estimation and IS2-buoy thickness comparison, this study emphasizes the importance of combining measurements by IS2 and SIMBA buoys to explain the regional sea ice mass balance with separating the thermodynamic and dynamic contributions.

satellite altimeter↗

Exploring Electrode-Level State-of-Charge and State-of-Health Dynamics in Lithium-Ion Battery Cells: Modeling and Experimental Identification

A computationally efficient model serves as a critical prerequisite for battery performance analysis and advanced battery management algorithm design. Although battery models that capture cell-level behavior have been widely explored in existing literature, electrode-level battery models have received much lesser attention till to date. However, such electrode-level models can significantly increase battery performance and life by enabling electrode-level health-conscious control. Such electrode-level control can effectively expand usable energy and power limits of the battery cells by utilizing the knowledge of individual electrodes' charge and health. In this context, this paper presents a comprehensive battery model developed with a reference electrode insertion that captures (i) electrode-level charge/discharge dynamics, (ii) stoichiometric and temporal dependencies of electrode-level resistances, (iii) solid electrolyte interface (SEI) layer growth as key degradation phenomenon, and (iv) capacity fade and resistance rise in each electrode due to nominal battery aging. The proposed model is identified, and a preliminary validation is performed utilizing terminal voltage and negative electrode potential data collected from a pouch cell under one continuous cycling and accelerated aging conditions where the cell experienced 14% capacity loss.

aging↗

APR-2 Tropical Cyclone Observations

The Second Generation Airborne Precipitation Radar (APR-2) participated in the Genesis and Rapid Intensification Processes (GRIP) experiment in August and September of 2010, collecting a large volume of data in several tropical systems, including Hurricanes Earl and Karl. Additional measurements of tropical cyclone have been made by APR-2 in experiments prior to GRIP (namely, CAMEX-4, NAMMA, TC4); Table 1 lists all the APR-2 tropical cyclone observations. The APR-2 observations consist of the vertical structure of rain reflectivity at 13.4 and 35.6 GHz, and at both co-polarization and crosspolarization, as well as vertical Doppler measurements and crosswind measurements. APR-2 normally flies on the NASA DC-8 aircraft, as in GRIP, collecting data with a downward looking, cross-track scanning geometry. The scan limits are 25 degrees on either side of the aircraft, resulting in a roughly 10-km swath, depending on the aircraft altitude. Details of the APR-2 observation geometry and performance can be found in Sadowy et al. (2003).The multiparameter nature of the APR-2 measurements makes the collection of tropical cyclone measurements valuable for detailed studies of the processes, microphysics and dynamics of tropical cyclones, as well as weaker systems that are associated with tropical cyclone formation. In this paper, we give a brief overview of how the APR-2 data are processed. We also discuss use of the APR-2 cross-track winds to estimate various quantities of interest in in studies of storm intensification. Finally, we show examples of the standard products and derived information.

radar↗

Stem CO2 Efflux measurements from Manaus, Brazil, 2017

This data was collected in order to test the effects of temperatures on the autotrophic respiratory process in the tropics. This data package contains raw real-time stem CO2 efflux files during the night and day from 3 different species near the K34 in Manaus during the day and the night. Raw and derived data files are included in the format of .csv and .xlsx and information about the canopy trees and temperatures recorded can be found in the field event log using microsoft excel. The data was collected from three canopy dominant trees in the central Amazon near the K34 tower. Real-time stem CO2 efflux was determined using a Li7000 gas analyzer configured in differential mode and connected to a dynamic stem chamber secured to the stem at breast height using straps to generate a reasonable seal. Ambient air was continuously pumped into the stem chamber and CO2 concentrations of the air entering and exiting the chamber were continuously monitored. CO2 efflux was calculated based on the CO2 concentration difference between ambient and stem chambers, the flow rate of air through the chamber, and the area of the enclosed stem. Additional auxiliary data, including sap flow and crown temperature were also measured. No data processing or QA/QC was done on the raw data packages.

54 ENVIRONMENTAL SCIENCES↗

Snow Depth Datasets for Snodgrass Catchment, Colorado, Water Year 2022-2023

This data package presents snow depths data from distributed temperature probes at 18 locations near Snodgrass catchment, Colorado. These data show that snow melt-out dates are approximately one or two weeks later under evergreen forests compared to other vegetation types even at the same elevation. These data were collected to understand how snowmelt heterogeneity impacts headwater hydrology, including streamflow and groundwater levels. They were also used to compare with process-based model simulations of snow depth to evaluate whether the model accurately represents snowmelt dynamics and their effects on headwater hydrology. Snow_DTPs_locations.csv includes all probes locations and their associated elevation and vegetation types. Snow_Depth_Snodgrass_WY2022_2023.csv includes processed snow depths datasets for Water Year (WY) 2022 and 2023. This dataset also includes a file-level metadata (flmd.csv) file that lists each file contained in the dataset with associated metadata and a data dictionary (dd.csv) file that contains column/row headers used throughout the files along with a definition, units, and data type. Several probes have recordings for WY 2021.

54 ENVIRONMENTAL SCIENCES↗

Assessment of CO 2 trapping mechanisms in partially depleted oil-bearing sands

The goal of this work is to evaluate various CO 2 sequestration mechanisms occurring in the Morrow B Sandstone in the Farnsworth Unit. A history-matched numerical simulation model was created using extensive geological, petrophysical, and operational data collected from the field. The numerical model is competent to investigate the impact of residual, structural-stratigraphic, solubility, and mineral trapping mechanisms on the fluid transportation dynamics and petrophysical property variations. The model forecasts the field response of 20 years of WAG injections. Afterward, all wells were shut-in, and the reservoir was allowed to evolve for 1000 years to investigate the fate of injected CO 2 . In this paper, we assess the impacts of various trapping mechanisms on oil recovery and CO 2 storage efficacy. By analyzing the results reported from the numerical simulation model, the in-situ fluid composition and mineralogy changes are also investigated. More importantly, we seek to confirm the petrophysical property variations due to the CO 2 injection with observations from laboratory measurements. The experiences gained from this study provide valuable insights regarding physiochemical storage induced by the CO 2 injection activities and serve as a benchmark case for future CO 2 enhanced oil recovery (EOR) projects involving reactive solute transport.

42 ENGINEERING↗

Experimental test of a predicted dynamics–structure–thermodynamics connection in molecularly complex glass-forming liquids

Significance The physical origin of cooperative activated relaxation in glass-forming liquids, which underlies the huge growth of viscosity and suppression of diffusion with cooling, remains elusive. Understanding this problem is of fundamental scientific interest and can assist in the design of new materials. We combine experimental relaxation time and equation-of-state data of molecular liquids to provide strong evidence for the recent theoretical prediction that activated relaxation, though causally driven by dynamically coupled cage-scale hopping and nonlocal collective elasticity quantified by local structural correlations, is well captured based on a thermodynamic description with dimensionless compressibility as the key variable. A mechanistic deduction is the crossover from fragile to strong (e.g., inorganic networks) relaxation behavior arises from the irrelevance of long-range elasticity effects.

36 MATERIALS SCIENCE↗

Generalization of soft phonon modes

Soft phonon modes describe a collective movement of atoms that transform a higher-symmetry crystal structure into a lower-symmetry crystal structure. Such structural transformations occur at finite temperatures, where the phonons (i.e., the low-temperature vibrational modes) and the static perfect crystal structures provide an incomplete picture of the dynamics. In this paper, principal vibrational modes (PVMs) are introduced as descriptors of the dynamics of a material system with $N$ atoms. The PVMs represent the independent collective movements of the atoms at a given temperature. Molecular dynamics (MD) simulations, here in the form of quantum MD using density functional theory calculations, provide both the data describing the atomic motion and the data used to construct the PVMs. The leading mode, ${\mathrm{PVM}}_{0}$, represents the $3N$-dimensional direction in which the system moves with greatest amplitude. For structural phase transitions, ${\mathrm{PVM}}_{0}$ serves as a generalization of soft phonon modes. At low temperatures, ${\mathrm{PVM}}_{0}$ reproduces the soft phonon mode in systems where one phonon dominates the phase transformation. In general, multiple phonon modes combine to describe a transformation, in which case ${\mathrm{PVM}}_{0}$ culls these phonon modes. Moreover, while soft phonon modes arise in the higher-symmetry crystal structure, ${\mathrm{PVM}}_{0}$ can be equally well calculated on either side of the structural phase transition. Finally, two applications demonstrate these properties: first, transitions into and out of bcc titanium, and, second, the two crystal structures proposed for the ${\beta}$ phase of uranium, the higher-symmetry structure of which stabilizes with temperature.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Extreme Scale Infrasound Inversion and Prediction for Weather Characterization and Acute Event Detection

Accurate and timely weather predictions are critical to many aspects of society with a profound impact on our economy, general well-being, and national security. In particular, our ability to forecast severe weather systems is necessary to avoid injuries and fatalities, but also important to minimize infrastructure damage and maximize mitigation strategies. The weather community has developed a range of sophisticated numerical models that are executed at various spatial and temporal scales in an attempt to issue global, regional, and local forecasts in pseudo real time. The accuracy however depends on the time period of the forecast, the nonlinearities of the dynamics, and the target spatial resolution. Significant uncertainties plague these predictions including errors in initial conditions, material properties, data, and model approximations. To address these shortcomings, a continuous data collection occurs at an effort level that is even larger than the modeling process. It has been demonstrated that the accuracy of the predictions depends on the quality of the data and is independent to a certain extent on the sophistication of the numerical models. Data assimilation has become one of the more critical steps in the overall weather prediction business and consequently substantial improvements in the quality of the data would have transformational benefits. This paper describes the use of infrasound inversion technology, enabled through exascale computing, that could potentially achieve orders of magnitude improvement in data quality and therefore transform weather predictions with significant impact on many aspects of our society.

58 GEOSCIENCES↗

Retrospective Analysis of Backwater Habitat Availability Using Remote Sensing

Low-velocity channel-margin habitats serve as important nursery habitats for the endangered Colorado pikeminnow (Ptychocheilus lucius) in the middle Green River between Jensen and Ouray, Utah. These habitats, known as backwaters, are associated with emergent sandbars, and are shaped and reformed annually by peak flows. Our recent knowledge about backwater characteristics and dynamics that is summarized in the synthesis report (Grippo et al. 2015) was based on detailed annual survey data from a relatively small sample of backwaters that were collected from 2003 to 2014 and reach-wide evaluations of backwater surface area based on manual interpretation of aerial and satellite imagery. Methods that bridge the gap between the detailed surveys from a small number of backwaters and the reach-wide assessment of their surface area would enable an assessment of the availability of backwater habitats that meet the minimum depth requirements for suitable habitat for Colorado pikeminnow. In 2015 Argonne National Laboratory (Argonne) tested three regression models—linear, multiple, and partial least square (PLS) regression models—for estimating backwater depth using National Agriculture Imagery Program (NAIP) imagery collected in July 2006 that covered the Jensen-Ouray reach of the Green River (Hamada and LaGory 2016). The results suggested that a PLS regression model showed high correlation with the reference depth (R 2 = 0.69) and had the most unbiased and consistent estimate of backwater depth. The results also indicated that the PLS model would provide reasonable estimates of the amount of habitat providing a minimum suitable depth of 30 cm for young-of-the-year Colorado pikeminnow, even though absolute depth estimates may be uncertain for backwater areas deeper than approximately 40 cm. The study also provided insights regarding the amount and the selection of calibration and validation (cal-val) data needed for improving the accuracy of depth prediction.

54 ENVIRONMENTAL SCIENCES↗