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All sourcesNASA NTRSDOE OSTI
DOE OSTI2024

Convergence of Weak-SINDy Surrogate Models

In this paper, we give an in-depth error analysis for surrogate models generated by a variant of the Sparse Identification of Nonlinear Dynamics (SINDy) method. We start with an overview of a variety of nonlinear system identification techniques, namely SINDy, weak-SINDy, and the occupation kernel method. Under the assumption that the dynamics are a finite linear combination of a set of basis functions, these methods establish a linear system to recover coefficients. We illuminate the structural similarities between these techniques and establish a projection property for the weak-SINDy technique. Following the overview, we analyze the error of surrogate models generated by a simplified version of weak-SINDy. In particular, under the assumption of boundedness of a composition operator given by the solution, we show that (i) the surrogate dynamics converges towards the true dynamics and (ii) the solution of the surrogate model is reasonably close to the true solution. Finally, as an application, we discuss the use of a combination of weak-SINDy surrogate modeling and proper orthogonal decomposition (POD) to build a surrogate model for partial differential equations (PDEs).

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2023

Adaptive basis sets for practical quantum computing

Electronic structure calculations on small systems such as H 2 , H 2 O, LiH, and BeH 2 with chemical accuracy are still a challenge for the current generation of noisy intermediate-scale quantum (NISQ) devices. One of the reasons is that due to the device limitations, only minimal basis sets are commonly applied in quantum chemical calculations, which allows one to keep the number of qubits employed in the calculations at a minimum. However, the use of minimal basis sets leads to very large errors in the computed molecular energies as well as potential energy surface shapes. One way to increase the accuracy of electronic structure calculations is through the development of small basis sets better suited for quantum computing. In this work, we show that the use of adaptive basis sets, in which exponents and contraction coefficients depend on molecular structure, provides an easy way to dramatically improve the accuracy of quantum chemical calculations without the need to increase the basis set size and thus the number of qubits utilized in quantum circuits. As a proof of principle, we optimize an adaptive minimal basis set for quantum computing calculations on an H 2 molecule, in which exponents and contraction coefficients depend on the H—H distance, and apply it to the generation of H 2 potential energy surface on IBM-Q quantum devices. The adaptive minimal basis set reaches the accuracy of the double-zeta basis sets, thus allowing one to perform double-zeta quality calculations on quantum devices without the need to utilize twice as many qubits in simulations. This approach can be extended to other molecular systems and larger basis sets in a straightforward manner.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2018

Orientational Pair Correlations in a Dipolar Molecular Liquid: Time-Resolved Resonant and Nonresonant Pump–Probe Spectroscopies

Orientational pair correlations (OPCs), when they are sufficiently strong in a liquid, contain information on the interplay between structure and dynamics that arise from intermolecular interactions. Consequently, the quantification of OPCs remains a subject of substantial interest in current experimental and theoretical work. In the case of benzonitrile, the importance of OPCs remains ambiguous owing to the use of model-dependent analyses or reliance on a single spectroscopic technique. In this work, IR polarization selective pump-probe (PSPP) and optical heterodyne-detected optical Kerr effect (OHD-OKE) experiments were used to quantify OPCs in benzonitrile. These methods measure single molecule and collective relaxation, respectively. Comparison of the orientational correlation function (PSPP) of the naturally abundant 13CN stretching mode and the polarizability anisotropy relaxation (OHD-OKE) of the liquid revealed that collective reorientation was a factor of 1.56 ± 0.08 slower than the single molecule reorientation time. The two types of measurements on dilute benzonitrile in carbon tetrachloride were the same within experimental error. These results support the proposition that OPCs exist and arise from the formation of parallel-aligned intermolecular structures in the neat liquid.

14 SOLAR ENERGY↗
DOE OSTI2023

Transformer Leakage Inductance Design Methodology

The leakage inductance exhibited by a transformer depends on its winding geometry, which generally involves the selection of several key design parameters in addition to the winding structure and the interleaving configuration. With few resources explaining the effects of these design choices on the observed leakage inductance, numerous trial-and-error iterations become necessary to realize the desired leakage inductance. This paper explores more than a hundred winding geometries feasible in a 2-winding transformer comprising the same magnetic core, number of turns, and wire gauge, and finds the leakage inductance for each unique design using 2-D finite element method (FEM) simulations in association with the semi-analytical double- 2-D model. These leakage inductances are plotted and further analyzed to understand the effects of different design parameters on the effective leakage inductance. The results presented herein and the conclusions drawn from this research can serve as a valuable resource for future design practitioners from both industry and academia.

24 POWER TRANSMISSION AND DISTRIBUTION↗
DOE OSTI2016

Relating the structure of geminal amido esters to their molecular hyperpolarizability

Advanced organic non-linear optical (NLO) materials have attracted increasing attention due to their multitude of applications in modern telecommunication devices. Arguably the most important advantage of organic NLO materials, relative to traditionally used inorganic NLO materials, is their short optical response time. Geminal amido esters with their donor-x-acceptor (D-π-A) architecture exhibit high levels of electron delocalization and substantial intramolecular charge transfer, which should endow these materials with short optical response times and large molecular (hyper)polarizabilities. In order to test this hypothesis, the linear and second-order non-linear optical properties of five geminal amido esters, ( E )-ethyl 3-(X-phenylamino)-2-(Y-phenylcarbamoyl)acrylate (1: X = 4-H,Y = 4-H; 2: X= 4-CH 3 , Y = 4-CH 3 ; 3: X = 4-NO 2 , Y = 2,5-OCH 3 ; 4: X = 2-Cl, Y = 2-Cl; 5: X = 4-Cl, Y = 4-Cl) were synthesized and characterized, whereby NLO structure-function relationships were established including intramolecular charge transfer characteristics, crystal field effects, and molecular first hyperpolarizabilities β. Given the typically large errors (10-30%) associated with the determination of (β) coefficients, three independent methods were used: i) density functional theory, ii) hyper-Rayleigh scattering, and iii) high-resolution X-ray diffraction data analysis based on multipolar modeling of electron densities at each atom. These three methods delivered consistent values of β, and based on these results, 3 should hold the most promise for NLO applications. In conclusion, the correlation between the molecular structure of these geminal amido esters and their linear and non-linear optical properties thus provide molecular design guidelines for organic NLO materials; this leads to the ultimate goal of generating bespoke organic molecules to suit a given NLO device application.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2024

Methyl α‐D‐galactopyranosyl‐(1→3)‐β‐D‐galactopyranoside and methyl β‐D‐galactopyranosyl‐(1→3)‐β‐D‐galactopyranoside: Glycosidic linkage conformation determined from MA'AT analysis

Abstract MA'ATanalysis has been applied to two biologically‐importantO‐glycosidic linkages in two disaccharides, α‐D‐Galp‐(1→3)‐β‐D‐GalpOMe (3) and β‐D‐Galp‐(1→3)‐β‐D‐GalpOMe (4). Using density functional theory (DFT) to obtain parameterized equations relating a group of trans‐O‐glycosidic NMR spin‐couplings to eitherphi(ϕ') orpsi(ψ'), and experimental 3 J COCH , 2 J COC , and 3 J COCC spin‐couplings measured in aqueous solution in 13 C‐labeled isotopomers, probability distributions ofϕ'andψ'in each linkage were determined and compared to those determined by aqueous 1‐μs molecular dynamics (MD) simulation. Good agreement was found between theMA'ATand single‐state MD conformational models of these linkages for the most part, with modest (approximately <15°) differences in the mean values ofϕ'andψ', although the envelope of allowed angles (encoded in circular standard deviations or CSDs) is consistently larger forϕ'determined fromMA'ATanalysis than from MD for both linkages. TheMA'ATmodel of the α‐Galp‐(1→3)‐β‐Galplinkage agrees well with those determined previously using conventional NMR methods ( 3 J COCH values and/or 1 H‐ 1 H NOEs), but some discrepancy was observed for the β‐Galp‐(1→3)‐β‐Galplinkage, which may arise from errors in the conventions used to describe the linkage torsion angles. Statistical analyses of X‐ray crystal structures show ranges ofϕ'andψ'for both linkages that include the mean angles determined fromMA'ATanalyses, although both angles adopt a wide range of values in the crystalline state, withϕ'in β‐Galp‐(1→3)‐β‐Galplinkages showing greater‐than‐expected conformational variability.

Chemistry↗
DOE OSTI2017

Role of Hydrogen Bonding in Photoinduced Electron-Proton Transfer from Phenols to a Polypyridine Ru Complex with a Proton-Accepting Ligand

Electron-proton transfer, EPT, from phenols to a triplet MLCT-excited Ru polypyridine complex containing an uncoordinated nitrogen site, 1(T), can be described by a kinetic model that accounts for the H-bonding of 1(T) to phenol, 1(T) to solvent, and phenol to solvent. The latter plays a major role in the kinetic solvent effect and commonly precludes simultaneous determination of the EPT rate constant and 1(T)-phenol H-bonding constant. A number of these quantities previously reported for similar systems are shown to be in error due to an inconsistent data analysis. In conclusion, control experiments replacing either 1(T) by its structural isomer with a sterically screened nitrogen site or phenol by its H-bonding surrogate, trifluoroethanol, and the observation of negative activation enthalpies for the overall reactions between 1(T) and phenols lend support to the proposed model and provide evidence for the formation of a precursor H-bonded complex between the reactants, which is a prerequisite for EPT.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2024

Evaluation of the Planetary Boundary Layer Height From ERA5 Reanalysis With MOSAiC Observations Over the Arctic Ocean

The planetary boundary layer height (PBLH) is a crucial indicator reflecting the region of the atmosphere characterized by continuous turbulence. Here, we use radiosonde and surface meteorological observations (4–7 times per day, year-round measurements) during the Multidisciplinary drifting Observatory for the Study of Arctic Climate (MOSAiC) expedition to derive the PBLH (PBLH MOSAiC ), and further evaluate the PBLH from the ERA5 reanalysis (PBLH ERA5 ). Comparisons between PBLH MOSAiC and PBLH ERA5 from different perspectives reveal that: (a) The overestimation of PBLH ERA5 when the sea ice concentration is >90% is significant with the centered root mean squared error reaching up to 201 m; (b) The difference between the two products is notably pronounced in cold seasons, while it is comparatively diminished in warm seasons; (c) In neutral boundary layers, differences in PBLH ERA5 are larger compared with stable and convective boundary layers. In addition, the analysis of error sources indicates that the bias of PBLH ERA5 is sensitive to the bias of vertical thermal structure and wind speed profiles in ERA5 data sets in all conditions. Finally, we find a Random Forest model effectively reduces the bias of PBLH ERA5 with the index of agreement reaching up to 0.71 in the test data set, while a multiple linear regression demonstrates comparable performance to the Random Forest model.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2016

On the general constraints in single qubit quantum process tomography

In this study, we briefly review single-qubit quantum process tomography for trace-preserving and nontrace-preserving processes, and derive explicit forms of the general constraints for fitting experimental data. These forms provide additional insight into the structure of the process matrix. We illustrate this with several examples, including a discussion of qubit leakage error models and the intuition which can be gained from their process matrices.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2022

Spectral evidence of solar neighborhood analogs in CALIFA galaxies

We introduce a novel nonparametric method to find solar neighborhood analogs (SNAs) in extragalactic integral field spectroscopic surveys. The main ansatz is that the physical properties of the solar neighborhood (SN) should be encoded in its optical stellar spectrum. We assume that our best estimate of such a spectrum is the one extracted from the analysis performed by the Code for Stellar properties Heuristic Assignment (CoSHA) from the MaStar stellar library. It follows that finding SNAs in other galaxies consist in matching, in a χ 2 sense, the SN reference spectrum across the optical extent of the observed galaxies. We applied this procedure to a selection of CALIFA galaxies, by requiring a close to face-on projection, relative isolation, and non-active galactic nucleus. We explore how the local and global properties of the SNAs (stellar age, metallicity, dust extinction, mass-to-light ratio, stellar surface mass density, star-formation density, and galactocentric distance) and their corresponding host galaxies (morphological type, total stellar mass, star-formation rate, and effective radius) compared with those of the SN and the Milky Way (MW). We find that SNAs are located preferentially in S(B)a–S(B)c galaxies, in a ring-like structure, which radii seem to scale with the galaxy size. Despite the known sources of systematics and errors, most properties present a considerable agreement with the literature on the SN. We conclude that the solar neighborhood is relatively common in our sample of SNAs. Our results warrant a systematic exploration of correlations among the physical properties of the SNAs and their host galaxies. We reckon that our method should inform current models of the galactic habitable zone in our MW and other galaxies.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2024

Pseudo-neutrino versus recoil formalism for 4-body phase space and applications to nuclear decay

It is well known that the traditional treatment of radiative corrections that utilizes the “true” neutrino momentum$\overrightarrow{p}_v$ in the differential decay rate formula could lead to a ~α/π systematic error in certain observables due to the mistreatment of 4-body kinematics. Here, I investigate the theory structure of one of the proposed solutions, the “v'-formalism”, in the nonrecoil limit appropriate for neutron and nuclear β decays. I derive an elegant master formula for the 4-body phase space and use it to reanalyze the spectrum-dependent “outer” radiative corrections to the β decay of a polarized spin-half nucleus; a complete set of analytic expressions is provided for readers to straightforwardly obtain the final numerical results. Furthermore, I compare it to the “recoil formalism” where the energy of the recoil nucleus is fixed.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2025

Polarization options in inclusive DIS off tensor polarized deuteron

In the near future, the Jefferson Lab b 1 experiment will provide the second measurement of tensor polarized asymmetries in inclusive DIS on the deuteron. In this asymmetry, 4 independent tensor polarized structure functions contribute. This necessitates systematic approximations in the extraction of the leading twist structure function b 1 from a single tensor asymmetry measurement. Contamination from higher twist structure functions and kinematic effects is discussed here. Using a deuteron convolution model, we quantify the systematic errors from these approximations for two different choices for the target polarization direction (momentum transfer, electron beam direction). For Jefferson Lab 12 GeV kinematics, the systematic error turns out to be comparable between the two polarization options, while at higher Q 2 values the momentum transfer direction is preferred.

Cosyn, Wim [Florida International University, Miam↗
DOE OSTI2022

A high-resolution single-molecule sequencing-based Arabidopsis transcriptome using novel methods of Iso-seq analysis

Accurate and comprehensive annotation of transcript sequences is essential for transcript quantification and differential gene and transcript expression analysis. Single-molecule long-read sequencing technologies provide improved integrity of transcript structures including alternative splicing, and transcription start and polyadenylation sites. However, accuracy is significantly affected by sequencing errors, mRNA degradation, or incomplete cDNA synthesis. We present a new and comprehensive Arabidopsis thaliana Reference Transcript Dataset 3 (AtRTD3). AtRTD3 contains over 169,000 transcripts—twice that of the best current Arabidopsis transcriptome and including over 1500 novel genes. Seventy-eight percent of transcripts are from Iso-seq with accurately defined splice junctions and transcription start and end sites. We develop novel methods to determine splice junctions and transcription start and end sites accurately. Mismatch profiles around splice junctions provide a powerful feature to distinguish correct splice junctions and remove false splice junctions. Stratified approaches identify high-confidence transcription start and end sites and remove fragmentary transcripts due to degradation. AtRTD3 is a major improvement over existing transcriptomes as demonstrated by analysis of an Arabidopsis cold response RNA-seq time-series. AtRTD3 provides higher resolution of transcript expression profiling and identifies cold-induced differential transcription start and polyadenylation site usage. AtRTD3 is the most comprehensive Arabidopsis transcriptome currently. It improves the precision of differential gene and transcript expression, differential alternative splicing, and transcription start/end site usage analysis from RNA-seq data. The novel methods for identifying accurate splice junctions and transcription start/end sites are widely applicable and will improve single-molecule sequencing analysis from any species.

transcription start and end sites↗
DOE OSTI2024

Impact of Systematic Modeling Uncertainties on Kilonova Property Estimation

The precise atomic structure and therefore the wavelength-dependent opacities of lanthanides are highly uncertain. This uncertainty introduces systematic errors in modeling transients like kilonovae and estimating key properties such as mass, characteristic velocity, and heavy metal content. Here, we quantify how atomic data from across the literature as well as choices of thermalization efficiency of r-process radioactive decay heating impact the light curve and spectra of kilonovae. Specifically, we analyze the spectra of a grid of models produced by the radiative transfer code Sedona that span the expected range of kilonova properties to identify regions with the highest systematic uncertainty. Our findings indicate that differences in atomic data have a substantial impact on estimates of lanthanide mass fraction, spanning approximately 1 order of magnitude for lanthanide-rich ejecta, and demonstrate the difficulty in precisely measuring the lanthanide fraction in lanthanide-poor ejecta. Mass estimates vary typically by 25%–40% for differing atomic data. Similarly, the choice of thermalization efficiency can affect mass estimates by 20%–50%. Observational properties such as color and decay rate are highly model dependent. Velocity estimation, when fitting solely based on the light curve, can have a typical error of ∼100%. Atomic data of light r-process elements can strongly affect blue emission. Even for well-observed events like GW170817, the total lanthanide production estimated using different atomic data sets can vary by a factor of ∼6.

Gravitational wave sources↗
DOE OSTI2023

Polarimetric Geometric Modeling for mm-VLBI Observations of Black Holes

The Event Horizon Telescope (EHT) is a millimeter very long baseline interferometry (VLBI) array that has imaged the apparent shadows of the supermassive black holes M87* and Sagittarius A*. Polarimetric data from these observations contain a wealth of information on the black hole and accretion flow properties. In this work, we develop polarimetric geometric modeling methods for mm-VLBI data, focusing on approaches that fit data products with differing degrees of invariance to broad classes of calibration errors. We establish a fitting procedure using a polarimetric “m-ring” model to approximate the image structure near a black hole. By fitting this model to synthetic EHT data from general relativistic magnetohydrodynamic models, we show that the linear and circular polarization structure can be successfully approximated with relatively few model parameters. We then fit this model to EHT observations of M87* taken in 2017. In total intensity and linear polarization, the m-ring fits are consistent with previous results from imaging methods. In circular polarization, the m-ring fits indicate the presence of event-horizon-scale circular polarization structure, with a persistent dipolar asymmetry and orientation across several days. The same structure was recovered independently of observing band, used data products, and model assumptions. Despite this broad agreement, imaging methods do not produce similarly consistent results. Our circular polarization results, which imposed additional assumptions on the source structure, should thus be interpreted with some caution. Polarimetric geometric modeling provides a useful and powerful method to constrain the properties of horizon-scale polarized emission, particularly for sparse arrays like the EHT.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2024

Delocalization error poisons the density-functional many-body expansion

The many-body expansion is a fragment-based approach to large-scale quantum chemistry that partitions a single monolithic calculation into manageable subsystems. This technique is increasingly being used as a basis for fitting classical force fields to electronic structure data, especially for water and aqueous ions, and for machine learning. Here, we show that the many-body expansion based on semilocal density functional theory affords wild oscillations and runaway error accumulation for ion–water interactions, typified by F − (H 2 O) N with N ≳ 15. We attribute these oscillations to self-interaction error in the density-functional approximation. The effect is minor or negligible in small water clusters, explaining why it has not been noticed previously, but grows to catastrophic proportion in clusters that are only moderately larger. This behavior can be counteracted with hybrid functionals but only if the fraction of exact exchange is ≳50%, whereas modern meta-generalized gradient approximations including ωB97X-V, SCAN, and SCAN0 are insufficient to eliminate divergent behavior. Other mitigation strategies including counterpoise correction, density correction (i.e., exchange–correlation functionals evaluated atop Hartree–Fock densities), and dielectric continuum boundary conditions do little to curtail the problematic oscillations. In contrast, energy-based screening to cull unimportant subsystems can successfully forestall divergent behavior. These results suggest that extreme caution is warranted when the many-body expansion is combined with density functional theory.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2017

Artificial neural network based predictions of cetane number for furanic biofuel additives

The next generation of alternative fuels is being explored through advanced chemical and biological production techniques for the purpose of finding suitable replacements for diesel and gasoline while lowering production costs and increasing process yields. Chemical conversion of biomass to fuels offers a plethora of pathways with a variety of fuel molecules, both novel and traditional, which may be targeted. In the search for new fuels, an initial, intuition-driven evaluation of fuel compounds with desired properties is required. Due to the high cost and significant production time needed to synthesize these materials at a scale sufficient for exhaustive testing, a predictive model would allow chemists to preemptively screen fuel properties of potentially desirable fuel candidates. Current work has shown that predictive models, in this case artificial neural networks (ANN's) analyzing quantitative structure property relationships (QSPR's), can predict the cetane number (CN) of a proposed fuel molecule with relatively small error. A fuel's CN is a measure of its ignition quality, typically defined using prescribed ASTM standards and a cetane testing engine. Alternatively, the analogous derived cetane number (DCN), obtained using an Ignition Quality Tester (IQT), is a direct measurement alternative to the CN that uses an empirical inverse relationship to the ignition delay found in the constant volume combustion chamber apparatus. DCN data points acquired using an IQT were utilized for model validation and expansion of the experimental database used in this study. The present report improves on an existing model by optimizing the model architecture along with the key learning variables of the ANN and by making the model more generalizable to a wider variety of fuel candidate types, specifically the class of furans and furan derivatives, by including specific molecules for the model to incorporate. The new molecules considered include tetrahydrofuran, 2-methylfuran, 2-methyltetrahydrofuran, 5,5'-(furan-2-ylmethylene)bis(2-methylfuran), 5,5'-((tetrahydrofuran-2-yl)methylene)bis(2-methyltetrahydrofuran), tris(5-methylfuran-2-yl)methane, and tris(5-methyltetrahydrofuran-2-yl)methane. Model architecture adjustments improved the overall root-mean-square error (RMSE) of the base database predictions by 5.54%. Additionally, through the targeted database expansion, it is shown that the predicted cetane number of the furan-based molecules improves on average by 49.21% (3.74 CN units) and significantly for a few of the individual molecules. This indicates that a selected subset of representative molecules can be used to extend the model's predictive accuracy to new molecular classes. The approach, bolstered by the improvements presented in this paper, enables chemists to focus on promising molecules by eliminating less favorable candidates in relation to their ignition quality.

09 BIOMASS FUELS↗
DOE OSTI2017

Development of performance specifications for hybrid modeling of floating wind turbines in wave basin tests

Hybrid modeling—combining physical testing and numerical simulation in real time$-$opens new opportunities in floating wind turbine research. Wave basin testing is an important validation step for floating support structure design, but the conventional approaches that use physical wind above the basin are limited by scaling problems in the aerodynamics. Applying wind turbine loads with an actuation system that is controlled by a simulation responding to the basin test in real time offers a way to avoid scaling problems and reduce cost barriers for floating wind turbine design validation in realistic coupled wind and wave conditions. This paper demonstrates the development of performance specifications for a system that couples a wave basin experiment with a wind turbine simulation. Two different points for the hybrid coupling are considered: the tower-base interface and the aero-rotor interface (the boundary between aerodynamics and the rotor structure). Analyzing simulations of three floating wind turbine designs across seven load cases reveals the motion and force requirements of the coupling system. By simulating errors in the hybrid coupling system, the sensitivity of the floating wind turbine response to coupling quality can be quantified. The sensitivity results can then be used to determine tolerances for motion tracking errors, force actuation errors, bandwidth limitations, and latency in the hybrid coupling system. These tolerances can guide the design of hybrid coupling systems to achieve desired levels of accuracy. An example demonstrates how the developed methods can be used to generate performance specifications for a system at 1:50 scale. Results show that sensitivities vary significantly between support structure designs and that coupling at the aero-rotor interface has less stringent requirements than those for coupling at the tower base. As a result, the methods and results presented here can inform design of future hybrid coupling systems and enhance understanding of how test results are affected by hybrid coupling quality.

16 TIDAL AND WAVE POWER↗