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DOE OSTI2015

Synchronicity from synchronized chaos

The synchronization of loosely-coupled chaotic oscillators, a phenomenon investigated intensively for the last two decades, may realize the philosophical concept of “synchronicity”—the commonplace notion that related events mysteriously occur at the same time. When extended to continuous media and/or large discrete arrays, and when general (non-identical) correspondences are considered between states, intermittent synchronous relationships indeed become ubiquitous. Meaningful synchronicity follows naturally if meaningful events are identified with coherent structures, defined by internal synchronization between remote degrees of freedom; a condition that has been posited as necessary for synchronizability with an external system. The important case of synchronization between mind and matter is realized if mind is analogized to a computer model, synchronizing with a sporadically observed system, as in meteorological data assimilation. Evidence for the ubiquity of synchronization is reviewed along with recent proposals that: (1) synchronization of different models of the same objective process may be an expeditious route to improved computational modeling and may also describe the functioning of conscious brains; and (2) the nonlocality in quantum phenomena implied by Bell’s theorem may be explained in a variety of deterministic (hidden variable) interpretations if the quantum world resides on a generalized synchronization “manifold”.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2026

Describing Point Defect Topology in 2D Energy Materials Through Computer Vision

Point defects such as vacancies and impurity atoms strongly impact the performance of 2D materials. Traditional efforts often rely on manual detection, a process that is time-intensive, prone to human error, and challenging to scale. Here we leverage machine learning (ML) methods to identify and quantify vacancies within 2D transition metal carbides (Ti3C2, MXenes), aiming to expedite detection while improving accuracy. MXenes exhibit valuable defect-defined electrochemical properties, but we currently lack statistical understanding of defect topology needed to fully harness these materials. Here we employ a convolutional neural network for semantic segmentation of experimental MXene images, opening an opportunity to conduct a rigorous statistical study on defect hierarchy while investigating local relaxation in the lattice. We show how the integration of ML can yield fundamental insight into point defects, providing a powerful tool that will play an increasingly crucial role in the future of materials science. ML is often not just a matter of straightforward application, and pretrained models proved ineffective in this case. Instead, we trained our own neural network (NN) and applied data augmentation techniques and fine-tuning to the training dataset. Since labeled microscopy data is often scarce, we developed training data from a previously published wide-frame MXene image, using customized Gaussian fitting to locate atomic positions. Our trained model was then applied to a large dataset of experimental images, enabling a statistical study of defect configurations across three samples prepared with different HF etchant concentrations (5%, 9.1%, and 12.5%), as shown in Fig. 1. This also allowed us to investigate local strain around vacancies, though we find that we are limited by the precision of measurements using high-angle annular dark field (HAADF) images, as shown in Fig. 2. This study demonstrates how ML enables large-scale, quantitative analysis of atomic defects - an otherwise infeasible task with traditional methods. While our NN was specialized for Ti3C2 MXenes, the pipeline we developed provides a foundation for future ML models tailored to other materials. Ultimately, we envision embedding the NN onto the microscope to give real-time feedback to the user. To make this a reality, continued work is necessary to fully understand the NN's capabilities and limitations. This study gets one step closer to our goals of automated experimentation moving away from traditional methods of manual labeling. As ML capabilities advance, we hope to continue adapting and applying these techniques in microscopy.

2D materials↗

DOE OSTI2025

The total neutron cross section of liquid and solid ammonia

Ammonia is a material of interest for future neutron moderators at high-power sources due to its high hydrogen density, low melting point, and resistance to polymerization in an intense radiation field. Its performance in such applications cannot currently be calculated due to the absence of suitable computer models for the interaction of neutrons with ammonia under relevant conditions. In an effort to develop suitable scattering kernels for computer simulations of moderator performance, we have conducted a series of Density Functional Theory and Molecular Dynamics calculations of the molecular-level thermal properties of ammonia at various temperatures within both the solid and liquid phases. In this paper, we compare computer calculations for the energy-dependent total neutron cross section of ammonia, based on these models, to experimental measurements of those cross sections at temperatures of 221 K, 180 K, and 35 K. The experimental data were collected over an energy range from 0.1 meV to 10 eV using time-of-flight techniques at the Low Energy Neutron Source (LENS) facility at Indiana University. This comparison provides a first validation in the development of thermal scattering libraries for Monte Carlo source design simulations based on liquid and solid ammonia. In conclusion, we also provide some insights into where additional development of tools for creating such models may be needed.

Ammonia↗

DOE OSTI2015

LOOKING FOR GRANULATION AND PERIODICITY IMPRINTS IN THE SUNSPOT TIME SERIES

The sunspot activity is the end result of the cyclic destruction and regeneration of magnetic fields by the dynamo action. We propose a new method to analyze the daily sunspot areas data recorded since 1874. By computing the power spectral density of daily data series using the Mexican hat wavelet, we found a power spectrum with a well-defined shape, characterized by three features. The first term is the 22 yr solar magnetic cycle, estimated in our work to be 18.43 yr. The second term is related to the daily volatility of sunspots. This term is most likely produced by the turbulent motions linked to the solar granulation. The last term corresponds to a periodic source associated with the solar magnetic activity, for which the maximum power spectral density occurs at 22.67 days. This value is part of the 22–27 day periodicity region that shows an above-average intensity in the power spectra. The origin of this 22.67 day periodic process is not clearly identified, and there is a possibility that it can be produced by convective flows inside the star. The study clearly shows a north–south asymmetry. The 18.43 yr periodical source is correlated between the two hemispheres, but the 22.67 day one is not correlated. It is shown that toward the large timescales an excess occurs in the northern hemisphere, especially near the previous two periodic sources. To further investigate the 22.67 day periodicity, we made a Lomb–Scargle spectral analysis. The study suggests that this periodicity is distinct from others found nearby.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2025

Polynomial Chaos Surrogate Construction for Random Fields with Parametric Uncertainty

Engineering and applied science rely on computational experiments to rigorously study physical systems. The mathematical models used to probe these systems are highly complex, and sampling-intensive studies often require prohibitively many simulations for acceptable accuracy. Surrogate models provide a means of circumventing the high computational expense of sampling such complex models. In particular, polynomial chaos expansions (PCEs) have been successfully used for uncertainty quantification studies of deterministic models where the dominant source of uncertainty is parametric. We discuss an extension to conventional PCE surrogate modeling to enable surrogate construction for stochastic computational models that have intrinsic noise in addition to parametric uncertainty. We develop a PCE surrogate on a joint space of intrinsic and parametric uncertainty, enabled by Rosenblatt transformations, which are evaluated via kernel density estimation of the associated conditional cumulative distributions. Furthermore, we extend the construction to random field data via the Karhunen–Loève expansion. We then take advantage of closed-form solutions for computing PCE Sobol indices to perform a global sensitivity analysis of the model which quantifies the intrinsic noise contribution to the overall model output variance. Additionally, the resulting joint PCE is generative in the sense that it allows generating random realizations at any input parameter setting that are statistically approximately equivalent to realizations from the underlying stochastic model. The method is demonstrated on a chemical catalysis example model and a synthetic example controlled by a parameter that enables a switch from unimodal to bimodal response distributions.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2013

Statistical and Spectral Analysis of Wind Characteristics Relevant to Wind Energy Assessment Using Tower Measurements in Complex Terrain

The main objective of the study was to investigate spatial and temporal characteristics of the wind speed and direction in complex terrain that are relevant to wind energy assessment and development, as well as to wind energy system operation, management, and grid integration. Wind data from five tall meteorological towers located in Western Nevada, USA, operated from August 2003 to March 2008, used in the analysis. The multiannual average wind speeds did not show significant increased trend with increasing elevation, while the turbulence intensity slowly decreased with an increase were the average wind speed. The wind speed and direction were modeled using the Weibull and the von Mises distribution functions. The correlations show a strong coherence between the wind speed and direction with slowly decreasing amplitude of the multiday periodicity with increasing lag periods. The spectral analysis shows significant annual periodicity with similar characteristics at all locations. The relatively high correlations between the towers and small range of the computed turbulence intensity indicate that wind variability is dominated by the regional synoptic processes. Knowledge and information about daily, seasonal, and annual wind periodicities are very important for wind energy resource assessment, wind power plant operation, management, and grid integration.

Belu, Radian↗

DOE OSTI2021

Automated Parameterized CFD Simulations of Phase-Change Material Embedded Heat Exchangers

Thermal storage can be implemented using Phase-Change Materials (PCM), which absorb significant latent heat with a relatively small temperature change. PCM phase-change processes are transient and are driven by thermal diffusion and natural convection – the latter, especially for melting process. Modeling and simulation of PCM heat exchangers is typically computationally intensive due to the relative complex time-dependent underlying physics. This paper presents a study investigating a single straight tube with circular transverse fins in the vertical orientation, using PCM’s with 37oC nominal melting temperature, leveraging automated parametric CFD simulations. The computational domain is reduced to 2D axisymmetric for a segment of the HX comprising a region in between two fins with constant wall temperature as boundary condition. This approach allows for faster evaluations of the transient thermal characteristics for a given design space of interest. Correlations and reduced order models (ROM’s) are developed. Results indicate that the ROM’s reproduce the CFD simulations with high accuracy for designs from the training data set, however, designs from cross-validation and test sets do not always have good agreement. The limited number of designs in the training set is a possible cause for the lack of robustness of the ROM’s and thus additional training designs will be added in future work. The ROM’s solve the simulations on average 500,000 times faster than CFD.

25 ENERGY STORAGE↗

DOE OSTI2014

SU-C-9A-07: Fabrication and Calibration of a Novel High-Sensitivity Collimator for Brain SPECT Imaging

Purpose: We have designed a novel collimator for brain SPECT imaging that yields greatly increased sensitivity near the center of the brain without loss of resolution. The collimator was manufactured and initial evaluation has been completed. Methods: The collimator was time-consuming and challenging to build. Because our desired hole pattern required substantial variations in hole angle, we designed two supporting plates to securely position about 34,000 hexagonal, slightly tapered, 75-mm long steel pins. The holes in the plates were modeled to yield the desired focal length, hole length and septal thickness. Molten lead was poured in between the plates, and all pins were removed after cooling. The sensitivity gain compared to a fan-beam collimator was measured using a point source placed along the central ray at several distances from the collimator face. Visual inspection of the holes was not possible as the collimator was sealed so it could be safely mounted on a SPECT system. Therefore, we prepared a 2D array of 768, ∼48μCi Tc-99m point sources, separated by 1.6 cm. The array was imaged for 10 minutes at 4 shifted locations to reduce sampling distance to 8 mm. Results: The sensitivity of the novel cone-beam collimator varied with distance from the detector face; it was higher than that of the fan-beam collimator by factors ranging from 3 to 176. Examination of the projections of the 4×768 point sources revealed that fewer than 2% of the holes were fully or partially blocked, which indicates that the intensive manual fabrication process was very successful. Conclusion: We have designed and manufactured a novel collimator for brain SPECT imaging. As expected, the sensitivity is much higher than that of a fan-beam collimator. Because of differences between the manufactured collimator and its design, reconstruction of the data will require a measured system function.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2023

A computational parametric study of ducted fuel injection implementation in a heavy-duty diesel engine

Experiments have shown that ducted fuel injection (DFI) effectively reduces soot emissions from direct-injection diesel engines. Although many computational studies have evaluated DFI’s spray development and soot reduction mechanisms in constant volume chambers, only limited computational work on internal combustion engines exists. The DFI duct assembly changes the engine’s in-cylinder flow, spray, and combustion development. Therefore, current production engine designs might not be optimal for achieving the best engine performance with DFI. Here, this work conducted an extensive numerical study to evaluate how parameter changes affect DFI performance. The parameters include swirl ratio, piston geometry, compression ratio (CR), number of injector orifices, split injection strategy, and exhaust gas recirculation (EGR) in a heavy-duty diesel engine utilizing DFI. The combustion and soot emission data from the Sandia compression ignition optical research engine were used for model validation. Simulations showed that an increased swirl ratio resulted in more intense jet flame-piston interaction, slowing down the combustion heat release during the late combustion stage and leading to lower indicated thermal efficiency (ITE) due to higher exhaust losses. A piston-bowl design with a reentrant inner piston edge yielded the highest thermal efficiency, due to the reduced cylinder head heat transfer loss. Additional injector orifices led to higher efficiency owing to a more advanced combustion phasing. Nevertheless, the maximum pressure rise rate (MPRR) and oxides of nitrogen (NO x ) emissions also increased with the number of injector orifices due to more rapid heat release and higher combustion temperature. Implementation of a split injection strategy combined with a higher EGR rate effectively inhibited the excessive MPRR and NO x formation. In general, the study concluded that DFI is not sensitive to most parameter changes but will benefit from future parameter optimization.

33 ADVANCED PROPULSION SYSTEMS↗

DOE OSTI2020

Extracting a mixing parameter from 2D radiographic imaging of variable-density turbulent flow

We extract a suitably averaged fluctuating density from the two-dimensional radiographic image of a flow. The X-ray attenuation is given by the Beer–Lambert law which exponentially damps the incident beam intensity by a factor proportional to the density, opacity and thickness of the target. By making reasonable assumptions for the mean density, opacity and effective thickness of the target flow, we estimate the density fluctuation contribution to the attenuation. The extracted density fluctuations averaged across the thickness of the flow in the direction of the beam may be used to form the density–specific-volume correlation $b$. In a statistical description of variable-density turbulence, $b$ quantifies the degree of mixedness. The ability to extract a measure of mixedness from experimental data would be a powerful tool that could be used in the validation of mix models. The scheme proposed is tested for DNS data computed for variable density buoyancy-driven mixing. We quantify the deficits in the extracted value of $b$ due to target thickness, Atwood number and modeled signal noise. This analysis justifies using the proposed scheme to infer the mix parameter from thin targets at moderate to low Atwood numbers. Furthermore, to illustrate how the scheme might be used in a practical problem, we demonstrate its application to a radiographic image of counter-shear flow obtained from experiments at the National Ignition Facility.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2022

Applying Two-Dimensional Correlation Spectroscopy and Principal Component Analysis to Understand How Temperature Affects the Neptunium(V) Absorption Spectrum

The visible-near infrared (Vis-NIR) electronic absorption spectrum of neptunium(V) (NpO 2 + ) comprises numerous f-f electronic transitions with mostly undocumented temperature dependencies. The effect of temperature on the absorption spectrum of the pentavalent neptunyl dioxocation (NpO 2 + ) is an important factor to consider with spectrophotometric applications but has often been overlooked. Optical Vis-NIR absorption spectra (400–1700 nm) of Np(V) (0.017–0.89 M) in 1 M nitric acid were evaluated with varying temperatures (T = 10–80 °C). The intensity, position, and overall shape of the bands were sensitive to interactions with the solvent and coordination environment. Numerous temperature-induced isosbestic points were identified resulting from dynamic, overlapping peak shifts. Spectral variations were characterized using principal component analysis (PCA) and 2D correlation spectroscopy (COS). 2D-COS revealed that the absorption band near 1095 nm likely consists of two bands centered near 1087 and 1096 nm, which cannot be explained by current computational methods. 2D-COS analysis also provided an unambiguous assignment of unresolved peaks in the visible region for comparison with computational predictions. PCA was used to identify nonlinearity in the spectral response at elevated Np(V) concentrations ≥ 0.5 M. This unique experimental data and interpretation will foster a deeper understanding of the absorption spectra for complex actinyl ions.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2017

8760-Based Method for Representing Variable Generation Capacity Value in Capacity Expansion Models: Preprint

Capacity expansion models (CEMs) are widely used to evaluate the least-cost portfolio of electricity generators, transmission, and storage needed to reliably serve demand over the evolution of many years or decades. Various CEM formulations are used to evaluate systems ranging in scale from states or utility service territories to national or multi-national systems. CEMs can be computationally complex, and to achieve acceptable solve times, key parameters are often estimated using simplified methods. In this paper, we focus on two of these key parameters associated with the integration of variable generation (VG) resources: capacity value and curtailment. We first discuss common modeling simplifications used in CEMs to estimate capacity value and curtailment, many of which are based on a representative subset of hours that can miss important tail events or which require assumptions about the load and resource distributions that may not match actual distributions. We then present an alternate approach that captures key elements of chronological operation over all hours of the year without the computationally intensive economic dispatch optimization typically employed within more detailed operational models. The updated methodology characterizes the (1) contribution of VG to system capacity during high load and net load hours, (2) the curtailment level of VG, and (3) the potential reductions in curtailments enabled through deployment of storage and more flexible operation of select thermal generators. We apply this alternate methodology to an existing CEM, the Regional Energy Deployment System (ReEDS). Results demonstrate that this alternate approach provides more accurate estimates of capacity value and curtailments by explicitly capturing system interactions across all hours of the year. This approach could be applied more broadly to CEMs at many different scales where hourly resource and load data is available, greatly improving the representation of challenges associate with integration of variable generation resources.

14 SOLAR ENERGY↗

DOE OSTI2018

Structural Modification of Graphene on Copper Substrates Irradiated by Nanosecond High-Intensity Ion Beams

Interaction of a nanosecond high-intensity pulsed ion beam with thin graphene films on copper substrates is analyzed. Methods of Raman spectroscopy are used to investigate the degree of graphene degradation depending on the integral implanted dose. The role of the substrate in the structural degradation of graphene irradiated by charged particle beams is demonstrated using the software package SRIM, intended for modeling radiative defect cascades under irradiation by charged particle beams, and the data on radiation resistance of graphene available in the literature.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

DOE OSTI2025

On the minimum number of radiation field parameters to specify gas cooling and heating functions

Fast and accurate approximations of gas cooling and heating functions are needed for hydrodynamic galaxy simulations. We use machine learning to analyze atomic gas cooling and heating functions in the presence of a generalized incident local radiation field computed by Cloudy. We characterize the radiation field through binned radiation field intensities instead of the photoionization rates used in our previous work. We find a set of 6 energy bins whose intensities exhibit relatively low correlation. We use these bins as features to train machine learning models to predict Cloudy cooling and heating functions at fixed metallicity. We compare the relative SHapley Additive exPlanation (SHAP) value importance of the features. From the SHAP analysis, we identify a feature subset of 3 energy bins (0.5-1, 1-4, and 13-16Ry) with the largest importance and train additional models on this subset. We compare the mean squared errors and distribution of errors on both the entire training data table and a randomly selected 20% test set withheld from model training. The machine learning models trained with 3 and 6 bins, as well as 3 and 4 photoionization rates, have comparable accuracy everywhere, with errors ≳10 times smaller than for the interpolation table of Gnedin and Hollon (2012). We conclude that 3 energy bins (or 3 analogous photoionization rates: molecular hydrogen photodissociation, neutral hydrogen HI, and fully ionized carbon CVI) are sufficient to characterize the dependence of the gas cooling and heating functions on our assumed incident radiation field model.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2016

Tokamak-independent Software Analysis Suite for Multi-Spectral Line-Polarization MSE diagnostics

A tokamak-independent analysis suite has been developed to process data from Motional Stark Effect (MSE) diagnostics. The software supports multi-spectral line-polarization MSE diagnostics which simultaneously measure emission at the MSE sigma and pi lines as well as at two `background' wavelengths that are displaced from the MSE spectrum by a few nanometers. This analysis accurately estimates the amplitude of partially-polarized background light at the sigma and pi wavelengths even in situations where the background light changes rapidly in time and space. The signal amplitude at many frequencies is computed using a numerical-beat algorithm which allows the retardance of the MSE photo-elastic modulators (PEMs) to be monitored during routine operation. It also allows the use of summed intensities at multiple frequencies in the calculation of polarization direction, which increases the effective signal strength and reduces sensitivity to PEM retardance drift. The software allows the polarization angles to be corrected for calibration drift using a system that illuminates the MSE diagnostic with polarized light at four known polarization angles within ten seconds of a plasma discharge The software suite is modular, parallelized, and portable to other facilities. (2016-06-06)

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2018

Tokamak-independent Software Analysis Suite for Multi-Spectral Line-Polarization MSE diagnostics

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2019

Full Integration of Lipidomics Data into Multi-OMIC Functional Enrichment

Lipids have numerous roles critical to living systems. Many of these vital functions are tightly linked or regulated by proteins. Even though the function of many lipid-related enzymes is known, direct links between most individual lipid species and the enzymes that metabolize them are severely lacking. This missing connection impedes biological progress. A resource that allows users to quickly identify protein-lipid relationships will advance our understanding of lipid homeostasis and metabolic perturbed systems. Databases are readily available for mapping small molecule metabolites (i.e., polar metabolites) and specific oxidized fatty acid lipids (e.g., arachidonic acid derivatives) to proteins/enzymes known to be directly involved in metabolism of these molecules (e.g. SMPDB, Reactome, HMDB, BioCyc). This enables the integration of metabolite and protein (as well as transcript) data when performing functional enrichment and metabolic modeling allowing researchers to rapidly examine metabolic pathways from multiple omics sources. Currently, linking lipidomics data with proteomics data is conducted using a time-intensive, user defined, manual process. Here we propose creating a tool that will link lipidomics and proteomics data and also conduct functional enrichment analysis and visualization allowing for full statistical integration. Using text-mining approaches, we will extract lipid references from uniprot and create a database linking lipid species to enzymes directly related to their metabolism. We will also extract directional annotation, which will allow even greater specificity when linking data types and will help eliminate false positives from functional associations.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2014

GlyQ-IQ: Glycomics Quintavariate-Informed Quantification with High-Performance Computing and GlycoGrid 4D Visualization

Dense LC-MS datasets have convoluted extracted ion chromatograms with multiple chromatographic peaks that cloud the differentiation between intact compounds with their overlapping isotopic distributions, peaks due to insource ion fragmentation, and noise. Making this differentiation is critical in glycomics datasets because chromatographic peaks correspond to different intact glycan structural isomers. The GlyQ-IQ software is targeted chromatography centric software designed for chromatogram and mass spectra data processing and subsequent glycan composition annotation. The targeted analysis approach offers several key advantages to LC-MS data processing and annotation over traditional algorithms. A priori information about the individual target’s elemental composition allows for exact isotope profile modeling for improved feature detection and increased sensitivity by focusing chromatogram generation and peak fitting on the isotopic species in the distribution having the highest intensity and data quality. Glycan target annotation is corroborated by glycan family relationships and in source fragmentation detection. The GlyQ-IQ software is developed in this work (Part 1) and was used to profile N-glycan compositions from human serum LC-MS Datasets. The companion manuscript GlyQ-IQ Part 2 discusses developments in human serum N-glycan sample preparation, glycan isomer separation, and glycan electrospray ionization. A case study is presented to demonstrate how GlyQ-IQ identifies and removes confounding chromatographic peaks from high mannose glycan isomers from human blood serum. In addition, GlyQ-IQ was used to generate a broad N-glycan profile from a high resolution (100K/60K) nESI-LS-MS/MS dataset including CID and HCD fragmentation acquired on a Velos Pro Mass spectrometer. 101 glycan compositions and 353 isomer peaks were detected from a single sample. 99% of the GlyQ-IQ glycan-feature assignments passed manual validation and are backed with high resolution mass spectra and mass accuracies less than 7 ppm.

Environmental Molecular Sciences Laboratory↗