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At least 199 records · Page 11

Filling data analysis gaps in time-resolved crystallography by machine learning

There is a growing understanding of the structural dynamics of biological molecules fueled by x-ray crystallography experiments. Time-resolved serial femtosecond crystallography (TR-SFX) with x-ray Free Electron Lasers allows the measurement of ultrafast structural changes in proteins. Nevertheless, this technique comes with some limitations. One major challenge is the quality of data from TR-SFX measurements, which often faces issues like data sparsity, partial recording of Bragg reflections, timing errors, and pixel noise. To overcome these difficulties, conventionally, large volumes of data are collected and grouped into a few temporal bins. The data in each bin are then averaged and paired with the mean of their corresponding jittered timestamps. This procedure provides one structure per bin, resulting in a limited number of averaged structures for the entire time interval spanned by the experiment. Therefore, the information on ultrafast structural dynamics at high temporal resolution is lost. This has initiated research for advanced methods of analyzing experimental TR-SFX data beyond the standard binning and averaging method. To address this problem, we use a machine learning algorithm called Nonlinear Laplacian Spectral Analysis (NLSA), which has emerged as a promising technique for studying the dynamics of complex systems. In this work, we demonstrate the power of this algorithm using synthetic x-ray diffraction snapshots from a protein with significant data incompleteness, timing uncertainties, and noise. Our study confirms that NLSA is a suitable approach that effectively mitigates the effects of these artifacts in TR-SFX data and recovers accurate structural dynamics information hidden in such data.

Trujillo, Justin (ORCID:0000000285505360)↗

What is (quantitative) system dynamics modeling? Defining characteristics and the opportunities they create

A clear definition of system dynamics modeling can provide shared understanding and clarify the impact of the field. We introduce a set of characteristics that define quantitative system dynamics, selected to capture core philosophy, describe theoretical and practical principles, and apply to historical work but be flexible enough to remain relevant as the field progresses. The defining characteristics are: (1) models are based on causal feedback structure, (2) accumulations and delays are foundational, (3) models are equation-based, (4) concept of time is continuous, and (5) analysis focuses on feedback dynamics. We discuss the implications of these principles and use them to identify research opportunities in which the system dynamics field can advance. These research opportunities include causality, disaggregation, data science and AI, and contributing to scientific advancement. Progress in these areas has the potential to improve both the science and practice of system dynamics.

97 MATHEMATICS AND COMPUTING↗

Development of High Speed Imaging and Analysis Techniques Compressible Dynamics Stall

Dynamic stall has limited the flight envelope of helicopters for many years. The problem has been studied in the laboratory as well as in flight, but most research, even in the laboratory, has been restricted to surface measurement techniques such as pressure transducers or skin friction gauges, except at low speed. From this research, it became apparent that flow visualization tests performed at Mach numbers representing actual flight conditions were needed if the complex physics associated with dynamic stall was to be properly understood. However, visualization of the flow field during compressible conditions required carefully aligned and meticulously reconstructed holographic interferometry. As part of a long-range effort focused on exposing of the physics of compressible dynamic stall, a research wind tunnel was developed at NASA Ames Research Center which permits visual access to the full flow field surrounding an oscillating airfoil during compressible dynamic stall. Initially, a stroboscopic schlieren technique was used for visualization of the stall process, but the primary research tool has been point diffraction interferometry(PDI), a technique carefully optimized for use in th is project. A review of the process of development of PDI will be presented in the full paper. One of the most valuable aspects of PDI is the fact that interferograms are produced in real time on a continuous basis. The use of a rapidly-pulsed laser makes this practical; a discussion of this approach will be presented in the full paper. This rapid pulsing(up to 40,000 pulses/sec) produces interferograms of the rapidly developing dynamic stall field in sufficient resolution(both in space and time) that the fluid physics of the compressible dynamic stall flowfield can be quantitatively determined, including the gradients of pressure in space and time. This permits analysis of the influence of the effect of pitch rate, Mach number, Reynolds number, amplitude of oscillation, and other parameters on the dynamic stall process. When interferograms can be captured in real time, the potential for real-time mapping of a developing unsteady flow such as dynamic stall becomes a possibility. This has been achieved in the present case through the use of a high-speed drum camera combined with electronic circuitry which has resulted in a series of interferograms obtained during a single cycle of dynamic stall; images obtained at the rate of 20 KHz will be presented as a part of the formal presentation. Interferometry has been available for a long time; however, most of its use has been limited to visualization. The present research has focused on use of interferograms for quantitative mapping of the flow over oscillating airfoils. Instantaneous pressure distributions can now be obtained semi-automatically, making practical the analysis of the thousands of interferograms that are produced in this research. A review of the techniques that have been developed as part of this research effort will be presented in the final paper.

Chandrasekhara, M. S.↗

Detailed biomass fast pyrolysis kinetics integrated to computational fluid dynamic (CFD) and discrete element modeling framework: Predicting product yields at the bench-scale

Fast pyrolysis is an intricate process due to the variability and anisotropy of lignocellulosic biomass and the complicated chemistry and physics during conversion in a bubbling fluidized bed reactor (BFBR). The complexity of biomass fast pyrolysis lends itself well to computational fluid dynamics (CFD) and discrete element (DEM) analysis, which promises to reduce experimental time and its associated cost. This work investigated switchgrass fast pyrolysis simulated by computational fluid dynamics coupled with a discrete element method to track individual reacting biomass particles throughout a bench-scale BFBR reactor. We accounted for the fast pyrolysis chemistry through a comprehensive reaction scheme with secondary cracking reactions. We performed a three-step reduction for secondary cracking reactions to convert the full cracking scheme into a reduced scheme easily incorporated into our model. We assessed the impact of operational conditions on the steady-state yields of liquid bio-oil, non-condensable gases (NCG), at 550 °C over a range of fluidization numbers (2 – 6 Umf), reported as a ratio to the minimum fluidization velocity (Umf). At steady-state, the volatile bio-oil yield had a range of 49.3–50.4 wt%. Levoglucosan was the primary volatile component present with 21 wt% of the bio-oil while water was the second largest with 20 wt%. The reduction of the secondary reaction schemes did not appreciably affect the overall yields of switchgrass pyrolysis compared to the full secondary scheme.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Nonlinear Dynamic Models in Advanced Life Support

To facilitate analysis, ALS systems are often assumed to be linear and time invariant, but they usually have important nonlinear and dynamic aspects. Nonlinear dynamic behavior can be caused by time varying inputs, changes in system parameters, nonlinear system functions, closed loop feedback delays, and limits on buffer storage or processing rates. Dynamic models are usually cataloged according to the number of state variables. The simplest dynamic models are linear, using only integration, multiplication, addition, and subtraction of the state variables. A general linear model with only two state variables can produce all the possible dynamic behavior of linear systems with many state variables, including stability, oscillation, or exponential growth and decay. Linear systems can be described using mathematical analysis. Nonlinear dynamics can be fully explored only by computer simulations of models. Unexpected behavior is produced by simple models having only two or three state variables with simple mathematical relations between them. Closed loop feedback delays are a major source of system instability. Exceeding limits on buffer storage or processing rates forces systems to change operating mode. Different equilibrium points may be reached from different initial conditions. Instead of one stable equilibrium point, the system may have several equilibrium points, oscillate at different frequencies, or even behave chaotically, depending on the system inputs and initial conditions. The frequency spectrum of an output oscillation may contain harmonics and the sums and differences of input frequencies, but it may also contain a stable limit cycle oscillation not related to input frequencies. We must investigate the nonlinear dynamic aspects of advanced life support systems to understand and counter undesirable behavior.

Jones, Harry↗

Application of Reduced Order Transonic Aerodynamic Influence Coefficient Matrix for Design Optimization

Supporting the Aeronautics Research Mission Directorate guidelines, the National Aeronautics and Space Administration [NASA] Dryden Flight Research Center is developing a multidisciplinary design, analysis, and optimization [MDAO] tool. This tool will leverage existing tools and practices, and allow the easy integration and adoption of new state-of-the-art software. Today s modern aircraft designs in transonic speed are a challenging task due to the computation time required for the unsteady aeroelastic analysis using a Computational Fluid Dynamics [CFD] code. Design approaches in this speed regime are mainly based on the manual trial and error. Because of the time required for unsteady CFD computations in time-domain, this will considerably slow down the whole design process. These analyses are usually performed repeatedly to optimize the final design. As a result, there is considerable motivation to be able to perform aeroelastic calculations more quickly and inexpensively. This paper will describe the development of unsteady transonic aeroelastic design methodology for design optimization using reduced modeling method and unsteady aerodynamic approximation. The method requires the unsteady transonic aerodynamics be represented in the frequency or Laplace domain. Dynamically linear assumption is used for creating Aerodynamic Influence Coefficient [AIC] matrices in transonic speed regime. Unsteady CFD computations are needed for the important columns of an AIC matrix which corresponded to the primary modes for the flutter. Order reduction techniques, such as Guyan reduction and improved reduction system, are used to reduce the size of problem transonic flutter can be found by the classic methods, such as Rational function approximation, p-k, p, root-locus etc. Such a methodology could be incorporated into MDAO tool for design optimization at a reasonable computational cost. The proposed technique is verified using the Aerostructures Test Wing 2 actually designed, built, and tested at NASA Dryden Flight Research Center. The results from the full order model and the approximate reduced order model are analyzed and compared.

Pak, Chan-gi↗

The Discovery of the Long-Period, Eccentric Planet Kepler-88 d and System Characterization with Radial Velocities and Photodynamical Analysis

We present the discovery of Kepler-88 d (P{sub d} = 1403±14 days, Msini{sub d}=965±44 M{sub ⊕}=3.04±0.13 M{sub J}, e{sub d}=0.41±0.03) based on six years of radial velocity (RV) follow-up from the W. M. Keck Observatory High Resolution Echelle Spectrometer spectrograph. Kepler-88 has two previously identified planets. Kepler-88 b (KOI-142.01) transits in the NASA Kepler photometry and has very large transit timing variations (TTVs). Nesvorný et al. performed a dynamical analysis of the TTVs to uniquely identify the orbital period and mass of the perturbing planet (Kepler-88 c), which was later was confirmed with RVs from the Observatoire de Haute-Provence (OHP). To fully explore the architecture of this system, we performed photodynamical modeling on the Kepler photometry combined with the RVs from Keck and OHP and stellar parameters from spectroscopy and Gaia. Planet d is not detectable in the photometry, and long-baseline RVs are needed to ascertain its presence. A photodynamical model simultaneously optimized to fit the RVs and Kepler photometry yields the most precise planet masses and orbital properties yet for b and c: P{sub b}=10.91647±0.00014 days, M{sub b}=9.5±1.2 M{sub ⊕}, P{sub c}=22.2649±0.0007 days, and M{sub c}=214.0±5.3 M{sub ⊕}. The photodynamical solution also finds that planets b and c have low eccentricites and low mutual inclination, are apsidally anti-aligned, and have conjunctions on the same hemisphere of the star. Continued RV follow-up of systems with small planets will improve our understanding of the link between inner planetary system architectures and giant planets.

79 ASTRONOMY AND ASTROPHYSICS↗

Disruption event characterization and forecasting in tokamaks

Disruption prediction and avoidance is a critical need for next-step tokamaks, such as ITER. Disruption Event Characterization and Forecasting (DECAF) research fully automates analysis of tokamak data to determine chains of events that lead to disruptions and to forecast their evolution allowing sufficient time for mitigation or complete avoidance of the disruption. Disruption event chains related to local rotating or global magnetohydrodynamic (MHD) modes and vertical instability are examined with warnings issued for many off-normal physics events, including density limits, plasma dynamics, confinement transitions, and profile variations. Along with Greenwald density limit evaluation, a local radiative island power balance theory is evaluated and compared to the observation of island growth. Automated decomposition and analysis of rotating tearing modes produce physical event chains leading to disruptions. A total MHD state warning model comprised of 15 separate criteria produces a disruption forecast about 180 ms before a standard locked mode detector warning. Single DECAF event analyses have begun on KSTAR, MAST, and NSTX/-U databases with thousands of shot seconds of device operation using from 0.5 to 1 × 10 6 tested sample times per device. An initial multi-device database comparison illustrates a highly important result that plasma disruptivity does not need to increase as βN increases. Global MHD instabilities, such as resistive wall modes (RWMs), can give the briefest time period of warning before disruption compared to other physics events. In an NSTX database with unstable RWMs, the mode onset, loss of boundary and current control, and disruption event warnings are found in all cases and vertical displacement events are found in 91% of cases. An initial time-dependent reduced physics model of kinetic RWM stabilization created to forecast the disruption chain predicts instability 84% of the time for experimentally unstable cases with a relatively low false positive rate. Instances of the disruption event chain analysis illustrate dynamics including H–L back transitions for rotating MHD and global RWM triggering events. Furthermore, disruption warnings are issued with sufficient time before the disruption (on transport timescales) to potentially allow active profile control for disruption avoidance, active mode control, or mitigation.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Dynamic mode decomposition for gyrokinetic eigenmode analysis

Dynamic mode decomposition (DMD) is a post-processing approach to decompose a complex time series into a set of modes via spectral analysis. DMD provides a new and powerful method to recover gyrokinetic drift-wave eigenfrequencies and eigenfunctions based only on the solution of the gyrokinetic-Maxwell initial value problem with almost no added cost to the initial value solver. In the present paper, DMD is applied to the CGYRO gyrokinetic code using a newly-developed CGYRO-DMD post-processor. CGYRO-DMD is numerically efficient, even on a single CPU. It does not set any restrictions on the plasma shape, beta (ratio of the plasma pressure to the magnetic field pressure), collisionality or number of species, and allows one to resolve numerous eigenmodes, even of comparable growth rates. In addition, DMD is not limited to unstable modes, but rather can capture stable and unstable branches simultaneously. In this work, we illustrate the accuracy of DMD through gyrokinetic analysis of mode transition for electromagnetic drift wave instabilities.

drift-wave eigenmodes↗

Engineering micromotion in Floquet prethermalization via space-time symmetries

We present a systematic framework for Floquet prethermalization under strong resonant driving, emphasizing the pivotal role of dynamical space-time symmetries. Our approach demonstrates how dynamical space-time symmetries map onto the projective static symmetry group of the prethermal Hamiltonian governing the prethermal regime. We introduce techniques for detecting dynamical symmetries through the time evolution of local observables, facilitating a detailed analysis of micromotion within each period and surpassing the limitations of conventional stroboscopic Floquet prethermal dynamics. To implement this framework, we present a prethermal protocol that preserves order-2 dynamical symmetry in a spin-ladder model, confirming the predicted relationships between the expectation values of local observables at distinct temporal points in the Floquet cycle, linked by this symmetry.

floquet systems↗

CSPlib

This computational singular perturbation library (CSPlib) software is useful for analysis of chemical kinetic systems. The code is used to analyze and describe the dynamical landscape underlying the time evolution of a chemical system. Given a database of state vectors, it allows the analysis of the source term and Jacobian matrix of the chemical system, the identification and decoupling of fast and slow processes, and the analysis of cause-and-effect relationships in the coupled system dynamics. Sandia National Laboratories is a multimission laboratory managed and operated by National Technology & Engineering Solutions of Sandia, LLC, a wholly owned subsidiary of Honeywell International Inc., for the U.S. Department of Energy’s National Nuclear Security Administration under contract DE-NA0003525. SAND2021-2391 O

Najm, HabibN.↗

Reactive control and reasoning assistance for scientific laboratory instruments

Scientific laboratory instruments that are involved in chemical or physical sample identification frequently require substantial human preparation, attention, and interactive control during their operation. Successful real-time analysis of incoming data that supports such interactive control requires: (1) a clear recognition of variance of the data from expected results; and (2) rapid diagnosis of possible alternative hypotheses which might explain the variance. Such analysis then aids in decisions about modifying the experiment protocol, as well as being a goal itself. This paper reports on a collaborative project at the NASA Ames Research Center between artificial intelligence researchers and planetary microbial ecologists. Our team is currently engaged in developing software that autonomously controls science laboratory instruments and that provides data analysis of the real-time data in support of dynamic refinement of the experiment control. the first two instruments to which this technology has been applied are a differential thermal analyzer (DTA) and a gas chromatograph (GC). coupled together, they form a new geochemicstry and microbial analysis tool that is capable of rapid identification of the organiz and mineralogical constituents in soils. The thermal decomposition of the minerals and organics, and the attendance release of evolved gases, provides data about the structural and molecular chemistry of the soil samples.

Thompson, David E.↗

Training data selection for event classification in a highly variable environment

A problem of interest for nuclear nonproliferation is monitoring activities at nuclear facilities, where proliferation events may only take place a few times and often under variable conditions. Machine learning has revolutionized data analytics by enabling the use of measurable signatures to generate predictive models of facility operations. However, traditional methods for training these models require large, reliable data sets with labeled observations, a challenge for nonproliferation. Highly variable conditions further complicate this as events from training data may have occurred in conditions quite different from the event of interest. Our hypothesis is that when events occur in a highly variable environment, careful training data selection for each test event could outperform the standard approach of using all available training data. We developed a method to optimize training data selection for the given test event and applied it to predicting the power level of the High Flux Isotope Reactor (HFIR) at Oak Ridge National Laboratory. In this study, the reactor startup exhibits variability between occurrences due to natural variability in environmental conditions and operational procedures. Using a combination of analysis techniques, a similitude assessment was performed on data collected from HFIR to isolate clusters that were optimal for training a predictive model. Concepts such as dynamic time warping and Jaccard similarity were used in conjunction with clustering analysis. In order to validate this approach, the model was trained on every combination of unique training events and the predictive performance was compared to the performance using a subset of the training data selected by isolated clusters found through the similitude assessment.

Iyer, A↗

Semantics-enabled Spatio-Temporal Modeling of Earth Observation Data: An application to Flood Monitoring

Extreme events such as urban floods are dynamic in nature, i.e. they evolve with time. The spatiotemporal analysis of such disastrous events is important for understanding the resiliency of an urban system during these events. Remote Sensing (RS) data is one of the crucial earth observation (EO) data sources that can facilitate such spatiotemporal analysis due to its wide spatial coverage and high temporal availability. In this paper, we propose a discrete mereotopology (DM) based approach to enable representation and querying of spatiotemporal information from a series of multitemporal RS images that are acquired during a flood disaster event. We represent this spatiotemporal information using a semantic model called Dynamic Flood Ontology (DFO). To establish the effectiveness and applicability of the proposed approach, spatiotemporal queries relevant during an urban flood scenario such as, show me road segments that were partially flooded during the time interval t1 have been demonstrated with promising results.

Kurte, Kuldeep↗

Enabling topography-resolving structural dynamic contact simulation

Damping of structures and systems is often dominated by frictional dissipation in connections, the prediction of which remains a longstanding scientific challenge. Previous studies have shown that the actual topography of contact interfaces may have a strong effect, especially in the partial slip/liftoff regime. We recently proposed a multi-scale method, which couples finite element and boundary element modeling. The primary benefit of this approach is that it permits to analyze the effect of the actual contact topography on the dynamics of jointed structures. While this multi-scale modeling method was initially developed for quasi-static analysis, we demonstrate herein how it can be used for time step integration and Harmonic Balance analysis. We cross-verify those fully dynamic analysis methods against each other and quasi-static results, for the S4 Beam benchmark. We compare the multi-scale method against state-of-the-art full-FE analysis, in terms of numerical damping and computational performance. Some discrepancy is found to be of physical origin. Depending on the load history, it is shown that the system settles to a slightly different equilibrium. Finally, transient multi-scale simulations enable the prediction of this interesting phenomenon, for the first time, for a structure with bolted joints.

Frictional-unilateral contact↗

Hubble Space Telescope Pointing Performance Due to Micro-Dynamic Disturbances from the NICMOS Cryogenic Cooler

The Vibration Admittance Test (VET) was performed to measure the emitted disturbances of the Near Infrared Camera and Multi-Object Spectrometer (NICMOS) Cryogenic Cooler (NCC) in preparation for NCC installation onboard the Hubble Space Telescope (HST) during Servicing Mission 3B (SM3B). Details of the VET ground-test are described, including facility characteristics, sensor complement and configuration, NCC suspension, and background noise measurements. Kinematic equations used to compute NCC mass center displacements and accelerations from raw measurements are presented, and dynamic equations of motion for the NCC VET system are developed and verified using modal test data. A MIMO linear frequency-domain analysis method is used to compute NCC-induced loads and HST boresight jitter from VET measurements. These results are verified by a nonlinear time-domain analysis approach using a high-fidelity structural dynamics and pointing control simulation for HST. NCC emitted acceleration levels not exceeding 35 micro-g rms were measured in the VET and analysis methods herein predict 3.1 milli-areseconds rms jitter for HST on-orbit. Because the NCC is predicted to become the predominant disturbance source for HST, VET results indicate that HST will continue to meet the 7 milli-arcsecond pointing stability mission requirement in the post-SM3B era.

Clapp, Brian R.↗

Analog Computing for Science

Conventional digital computing faces fundamental physical limits: large scale computing systems already con sume tens of Megawatts of power, Dennard scaling has ended, and data movement costs dominate application performance. Next generation experimental facilities generate data at rates that overwhelm conventional pro cessing and demand real-time analysis at the source. Analog computing, which exploits the continuous dynamics of physical systems to perform computation, promises a transformative path toward orders-of-magnitude gains in energy efficiency and time-to-solution for scientific workloads.

97 MATHEMATICS AND COMPUTING↗

Nonadiabatic dynamics of photoexcited thiopyridone isomers: An interplay between El-Sayed’s conditions and energy gap law

We investigated the non-adiabatic dynamics of photoexcited thiopyridone systems across their ortho-, meta-, and para-isomeric forms. The relaxation pathways of the three isomers in both gas phase and solvent environments are mapped using surface hopping dynamics based on time-dependent density functional theory. Our analysis highlights the influence of isomeric structures on photophysical behavior, offering insights into design principles to control photochemical phenomena. The simulations suggest a systematic reduction in the rate of intersystem crossing (ISC) from ortho- to meta- to para-isomer. Comparisons with multiconfigurational wave function methods in the gas phase further demonstrate how electronic structure influences the predicted dynamical pathways. The simulated dynamics demonstrates that the spin–orbit coupling strength alone does not determine the rate of ISC, as both state energetics and underlying electronic and structural features play decisive roles. These aspects explain the much slower ISC in the para-isomer, as well as the non-negligible role of the El-Sayed forbidden pathway in the computed ISC dynamics.

Complete-active space self-consistent field↗