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At least 307 records · Page 17

Using Neural Networks to Identify Mixture Components in Hyperspectral Reflectance Data

Neural networks have been employed to identify materials of interest from hyperspectral data (generally imagery) based on their unique spectral signatures. This approach assumes that there is a single material that is standing out from the rest of the spectrum to be identified. However, pixels often contain more than one material, or a material of interest may itself be a mixture of multiple materials. Neural networks are only as good as the data used to train them, and it takes a great deal of work in the laboratory to identify, make, and measure all potential mixtures of interest. Thus, researchers often calculate synthetic spectra using algorithms with varying degrees of fidelity to the physics that govern the interactions between light and multiple materials. In this work, we have (1) adapted a neural network designed to identify mixture components from Raman spectroscopy to work with visible to near‐infrared reflectance data and (2) tested three common mixture algorithms to determine the most accurate and least computationally expensive method to build synthetic training datasets. With our initial test dataset, we have achieved accuracies of > 90% and found that the synthetic training dataset produced using the Hapke mixture model provides the best results.

99 GENERAL AND MISCELLANEOUS↗

HTESP (High-throughput electronic structure package): A package for high-throughput ab initio calculations

High-throughput ab initio calculations are the indispensable parts of data-driven discovery of new materials with desirable properties, as reflected in the establishment of several online material databases. The accumulation of extensive theoretical data through computations enables data-driven discovery by constructing machine learning and artificial intelligence models to predict novel compounds and forecast their properties. Efficient usage and extraction of data from these existing online material databases can accelerate the next stage materials discovery that targets different and more advanced properties, such as electron–phonon coupling for phonon-mediated superconductivity. However, extracting data from these databases, generating tailored input files for different ab initio calculations, performing such calculations, and analyzing new results can be demanding tasks. Here, in this work, we introduce a software package named “HTESP” (High-Throughput Electronic Structure Package) written in Python and Bash languages, which automates the entire workflow including data extraction, input file generation, calculation submission, result collection and plotting. Our HTESP will help speed up future computational materials discovery processes.

36 MATERIALS SCIENCE↗

Comparing the structures and photophysical properties of two charge transfer co-crystals

Organic co-crystals have emerged as a promising class of semiconductors for next-generation optoelectronic devices due to their unique photophysical properties. This paper presents a joint experimental-theoretical study comparing the crystal structure, spectroscopy, and electronic structure of two charge transfer co-crystals. Reported herein is a novel co-crystal Npe:TCNQ, formed from 4-(1-naphthylvinyl)pyridine (Npe) and 7,7,8,8-tetracyanoquinodimethane (TCNQ) via molecular self-assembly. This work also presents a revised study of the co-crystal composed of Npe and 1,2,4,5-tetracyanobenzene (TCNB) molecules, Npe:TCNB, herein reported with a higher-symmetry (monoclinic) crystal structure than previously published. Npe:TCNB and Npe:TCNQ dimer clusters are used as theoretical model systems for the co-crystals; the geometries of the dimers are compared to geometries of the extended solids, which are computed with periodic boundary conditions density functional theory. UV-Vis absorption spectra of the dimers are computed with time-dependent density functional theory and compared to experimental UV-Vis diffuse reflectance spectra. Both Npe:TCNB and Npe:TCNQ are found to exhibit neutral character in the S 0 state and ionic character in the S 1 state. In conclusion, the high degree of charge transfer in the S 1 state of both Npe:TCNB and Npe:TCNQ is rationalized by analyzing the changes in orbital localization associated with the S 1 transitions.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Spectrometer of Synchrotron Radiation Based on Diffraction Focusing a Divergent Beam Formed by a Compound Refractive Lens

The results of the first experimental realization of a spectrometer based on the effect of diffraction focusing of X rays by a flat single crystal are discussed. A secondary X-ray source with a relatively high angular divergence and small sizes was formed at the focus of a compound refractive lens having 50 beryllium biconcave elements with a curvature radius of 50 μm. The silicon spectrometer crystal was cut in the form of a wedge of variable thickness, oriented perpendicular to the diffraction plane. The reflection 111 was used for energies of 8.3 and 12 keV. To simulate the experiment, a computer program was developed, which takes into account accurately and for the first time the focusing of radiation by the lens and its subsequent diffraction in the crystal. A calculated curve for a monochromatic beam has made it possible to determine the monochromator spectrum with high resolution from experimental data for a polychromatic beam. It is shown that monochromator resolution increases with an increase in the distance from the compound refractive lens to the crystal.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

ARID Raceway Temperature Model Evaluation

The ARID (Algae Raceway Integrated Design) raceway temperature model, written in Visual Basic for Applications, calculates algae culture temperature in ARID and conventional raceways as a function of meteorological data from agricultural weather stations. The model is an atmospheric boundary layer model and uses energy balance terms from the Penman-Monteith equation. The original model used evapotranspiration, as calculated by the weather station, and assumed an average daily albedo. In this research, equations for albedo and for direct calculation of evaporation from atmospheric parameters were added to the ARID model. Albedo was calculated with the Fresnel equations. The Penman-Monteith model was adjusted for algae raceway evaporation rather than reference evapotranspiration. The new model components were calibrated with data from a 21-day algae growth experiment in the ARID raceway during winter 2011. The model was also adapted to model variable circulation times and heat transfer through a canal cover. In summary, this research improved and calibrated the ARID temperature model for future use.

09 BIOMASS FUELS↗

Critical Configuration and Physics Measurements for Assemblies of U(93.15)O 2 Fuel Rods (1.506-cm Pitch)

A series of critical experiments were completed from 1962–1965 at Oak Ridge National Laboratory’s (ORNL’s) Critical Experiments Facility (CEF) in support of the Medium-Power Reactor Experiments (MPRE) program. In the late 1950s, efforts were made to study “power plants for the production of electrical power in space vehicles.”(a) The MPRE program was a part of those efforts and studied the feasibility of a stainless-steel system, boiling potassium 1 MW(t), or about 140 kW(e), reactor. The program was carried out in [fiscal years] 1964, 1965, and 1966. A summary of the program’s effort was compiled in 1967.a The delayed critical experiments were a mockup of a small, potassium-cooled space power reactor for validation of reactor calculations and reactor physics methods. Initial experiments, performed in November and December of 1962, consisted of a core of unmoderated stainless-steel tubes, each containing 26 UO 2 fuel pellets, surrounded by a graphite reflector. Measurements were performed to determine critical reflector arrangements, relative fission-rate distributions, and cadmium ratio distributions. Subsequent experiments used beryllium reflectors and also measured the reactivity for various materials placed in the core. “The [assemblies were built] on [a] vertical assembly machine so that the movable part was the core and bottom reflector” (see Reference 1). The experiment studied in this evaluation was the second of the series and had the fuel rods in a 1.506-cm-triangular pitch. One critical configuration was found (see Reference 3). Once the critical configuration had been achieved, various measurements of reactivity, relative axial and radial activation rates of 235U,bc and cadmium ratios were performed. The cadmium ratio, reactivity, and activation rate measurements performed on the critical configuration are described in Sections 1.3, 1.4, and 1.7, respectively.

1.506-cm pitch↗

The Structural Characterisation and DFT-Aided Interpretation of Vibrational Spectra for Cyclo(l-Cys-d-Cys) Cyclic Dipeptide in a Solid State

Cyclic dipeptides with two intramolecular peptide bonds forming a six-membered 2,5-diketopiperazine ring are gaining significant attention due to their biological and chemical properties. Small changes in the local geometry of such molecules (from cis to trans) can lead to significant structural differences. This work presents the results of a study of cyclo(l-Cys-d-Cys), a dipeptide comprising two cysteine molecules in opposite chiral configurations, with the functional groups situated at both sides of the diketopiperazine ring. X-ray diffraction (XRD) experiment revealed that the molecule crystallises in the $P$-1 space group, which includes the centre of inversion. The IR and Raman vibrational spectra of the molecule were acquired and interpreted in terms of the potential energy distribution (PED) according to the results of density functional theory (DFT) calculations. The DFT-assisted analysis of energy frameworks for the hydrogen bond network within molecular crystals was performed to support the interpretation of X-ray structural data. The optimisation of the computational model based on three-molecule geometry sections from the crystallographic structure, selected to appropriately reflect the intermolecular interactions responsible for the formation of 1D molecular tapes in cyclo(l-Cys-d-Cys) crystal, allowed for better correspondence between theoretical and experimental vibrational spectra. This work can be considered the first complete structural characterisation of cyclo(l-Cys-d-Cys), complemented via vibrational spectroscopy results with full band assignment aided with the use of the DFT method.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

TU-G-204-05: The Effects of CT Acquisition and Reconstruction Conditions On Computed Texture Feature Values of Lung Lesions

Purpose: Texture features have been investigated as a biomarker of response and malignancy. Because these features reflect local differences in density, they may be influenced by acquisition and reconstruction parameters. The purpose of this study was to investigate the effects of radiation dose level and reconstruction method on features derived from lung lesions. Methods: With IRB approval, 33 lung tumor cases were identified from clinically indicated thoracic CT scans in which the raw projection (sinogram) data were available. Based on a previously-published technique, noise was added to the raw data to simulate reduced-dose versions of each case at 25%, 10% and 3% of the original dose. Original and simulated reduced dose projection data were reconstructed with conventional and two iterative-reconstruction settings, yielding 12 combinations of dose/recon conditions. One lesion from each case was contoured. At the reference condition (full dose, conventional recon), 17 lesions were randomly selected for repeat contouring (repeatability). For each lesion at each dose/recon condition, 151 texture measures were calculated. A paired differences approach was employed to compare feature variation from repeat contours at the reference condition to the variation observed in other dose/recon conditions (reproducibility). The ratio of standard deviation of the reproducibility to repeatability was used as the variation measure for each feature. Results: The mean variation (standard deviation) across dose levels and kernel was significantly different with a ratio of 2.24 (±5.85) across texture features (p=0.01). The mean variation (standard deviation) across dose levels with conventional recon was also significantly different with 2.30 (7.11) (p=0.025). The mean variation across reconstruction settings of original dose has a trend in showing difference with 1.35 (2.60) among all features (p=0.09). Conclusion: Texture features varied considerably with variations in dose and reconstruction condition. Care should be taken to standardize these conditions when using texture as a quantitative feature. This effort supported in part by a grant from the National Cancer Institute’s Quantitative Imaging Network (QIN): U01 CA181156; The UCLA Department of Radiology has a Master Research Agreement with Siemens Healthcare; Dr. McNitt-Gray has previously received research support from Siemens Healthcare.

60 APPLIED LIFE SCIENCES↗

Optical authentication of images

Systems and methods performed for generating authentication information for an image using optical computing are provided. When a user takes a photo of an object, an optical authentication system receives light reflected and/or emitted from the object. The system also receives a random key from an authentication server. The system converts the received light to plenoptic data and uploads it to the authentication server. In addition, the system generates an optical hash of the received light using the random key, converts the generated optical hash to a digital optical hash, and uploads the digital optical hash to the authentication server. When the authentication server receives the upload, it verifies whether the time of the upload is within a certain threshold time from the sending of the random key and whether the digital optical hash was generated from the same light as the plenoptic data.

97 MATHEMATICS AND COMPUTING↗

The Human Phenotype Ontology in 2021

The Human Phenotype Ontology (HPO, https://hpo.jax.org) was launched in 2008 to provide a comprehensive logical standard to describe and computationally analyze phenotypic abnormalities found in human disease. The HPO is now a worldwide standard for phenotype exchange. The HPO has grown steadily since its inception due to considerable contributions from clinical experts and researchers from a diverse range of disciplines. Here, we present recent major extensions of the HPO for neurology, nephrology, immunology, pulmonology, newborn screening, and other areas. For example, the seizure subontology now reflects the International League Against Epilepsy (ILAE) guidelines and these enhancements have already shown clinical validity. We present new efforts to harmonize computational definitions of phenotypic abnormalities across the HPO and multiple phenotype ontologies used for animal models of disease. These efforts will benefit software such as Exomiser by improving the accuracy and scope of cross-species phenotype matching. The computational modeling strategy used by the HPO to define disease entities and phenotypic features and distinguish between them is explained in detail. We also report on recent efforts to translate the HPO into indigenous languages. Finally, we summarize recent advances in the use of HPO in electronic health record systems.

59 BASIC BIOLOGICAL SCIENCES↗

Circuit complexity and functionality: A statistical thermodynamics perspective

Circuit complexity, defined as the minimum circuit size required for implementing a particular Boolean computation, is a foundational concept in computer science. Determining circuit complexity is believed to be a hard computational problem. Recently, in the context of black holes, circuit complexity has been promoted to a physical property, wherein the growth of complexity is reflected in the time evolution of the Einstein-Rosen bridge (“wormhole”) connecting the two sides of an anti-de Sitter “eternal” black hole. Here, we are motivated by an independent set of considerations and explore links between complexity and thermodynamics for functionally equivalent circuits, making the physics-inspired approach relevant to real computational problems, for which functionality is the key element of interest. In particular, our thermodynamic framework provides an alternative perspective on the obfuscation of programs of arbitrary length—an important problem in cryptography—as thermalization through recursive mixing of neighboring sections of a circuit, which can be viewed as the mixing of two containers with “gases of gates.” This recursive process equilibrates the average complexity and leads to the saturation of the circuit entropy, while preserving functionality of the overall circuit. The thermodynamic arguments hinge on ergodicity in the space of circuits which we conjecture is limited to disconnected ergodic sectors due to fragmentation. The notion of fragmentation has important implications for the problem of circuit obfuscation as it implies that there are circuits of same size and functionality that cannot be connected via a polynomial number of local moves. Furthermore, we argue that fragmentation is unavoidable unless the complexity classes NP and coNP coincide, a statement that implies the collapse of the polynomial hierarchy of computational complexity theory to its first level.

Science & Technology - Other Topics↗

Evaluating crown scorch predictions from a computational fluid dynamics wildland fire simulator

Abstract Background Crown scorch—the heating of live leaves, needles, and buds in the vegetative canopy to lethal temperatures without widespread combustion—is one of the most common fire effects shaping post-fire canopies. Despite the ability of computational fluid dynamic models to finely resolve fire activity and buoyant plume dynamics including heterogenous 3D distributions of forest canopy heating, these models have had only limited use in simulating fire effects and have not been used to evaluate crown scorch. Here, we demonstrate a method of evaluating crown scorch using a computational fluid dynamics model, FIRETEC, and validate this approach by simulating the experiments that were used to develop Van Wagner’s 1973 crown scorch model. Results The average scorch height prediction from FIRETEC compares well with the empirical model derived by Van Wagner, which is the most widely used empirical model for crown scorch. We further find that the 3D buoyant plume dynamics from a steady and homogeneous idealized heat source on the ground results in a spatially heterogenous crown scorch pattern reflecting complex heating dynamics that are best represented by percent scorch rather than height of scorch. Conclusions The ability of the computational fluid dynamics model to capture variation in crown scorch due to 3D buoyant plume dynamics provides direct links between forest structure, fire behavior, and fire effects that can be used by forest managers and researchers to better understand how fires result in crown damage under various environmental and management scenarios.

54 ENVIRONMENTAL SCIENCES↗

Generalized theoretical method for the interaction between arbitrary nonuniform electric field and molecular vibrations: Toward near-field infrared spectroscopy and microscopy

A theoretical method to compute infrared absorption spectra when a molecule is interacting with an arbitrary nonuniform electric field such as near-fields is developed and numerically applied to simple model systems. The method is based on the multipolar Hamiltonian where the light-matter interaction is described by a spatial integral of the inner product of the molecular polarization and applied electric field. The computation scheme is developed under the harmonic approximation for the molecular vibrations and the framework of modern electronic structure calculations such as the density functional theory. Infrared reflection absorption and near-field infrared absorption are considered as model systems. The obtained IR spectra successfully reflect the spatial structure of the applied electric field and corresponding vibrational modes, demonstrating applicability of the present method to analyze modern nanovibrational spectroscopy using near-fields. The present method can use arbitral electric fields and thus can integrate two fields such as computational chemistry and electromagnetics.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Theoretical Calculation Study of Nanomaterials

In recent years, theoretical simulations using computational physics and chemistry models have been used widely to predict the physical, chemical, and structural properties of nanomaterials. To reflect such rapid progress, two Special Issues on the theoretical study of nanomaterials were published. The 36 articles collected cover broad re-search fields and applications. In this Editorial, we provide an overview of these pub-lications and summarize the main findings. Based on these research outcomes, we lay out some future research directions.

First-principles calculations↗

A Combined Computer Vision and Deep Learning Approach for Rapid Drone-Based Optical Characterization of Parabolic Troughs

Optical accuracy is a primary driver of parabolic trough concentrating solar power (CSP) plant performance, but can be damaged by wind loads, gravity, error during installation, and regular plant operation. Collecting and analyzing optical measurements over an entire operating parabolic trough plant is difficult, given the large scale of typical installations. Distant Observer, a software tool developed at the National Renewable Energy Laboratory, uses images of the absorber tube reflected in the collector mirror to measure both surface slope in the parabolic mirror and offset of the absorber tube from the ideal focal point. This technology has been adapted for fast data collection using low-cost commercial drones, but until recently still required substantial human labor to process large amounts of data. A new method leveraging advanced deep learning and computer vision tools can drastically reduce the time required to process images. This new method addresses the primary analysis bottleneck, identifying featureless, reflective mirror corner points to a high degree of accuracy. Recent work has shown promising results using computer vision methods. The combined deep learning and computer vision approach presented here proved highly effective and has the potential to further automate data collection and analysis, making the tool more robust. The method presented in this paper automatically identified 74.3% of mirror corners within 2 pixels of their manually marked counterparts and 91.9% within 3 pixels. This level of accuracy is sufficient for practical Distant Observer analysis within a target uncertainty. A commercial drone collected video of over 100 parabolic trough modules at an operating CSP plant to demonstrate the deep learning and computer vision method's usefulness in processing large amounts of data. These troughs were successfully analyzed using Distant Observer, paired with the new deep learning and computer vision algorithm, and can provide plant operators and trough designers with valuable insight about plant performance, operating strategies, and plant-wide optical error trends.

computer vision↗

Experimental Determination of Power Losses and Heat Generation in Solar Cells for Photovoltaic-Thermal Applications

Solar cell thermal recovery has recently attracted more and more attention as a viable solution to increase photovoltaic efficiency. However, the convenience of the implementation of such a strategy is bound to the precise evaluation of the recoverable thermal power and to a proper definition of the losses occurring within the solar device. In this work, we establish a framework in which all solar cell losses are defined and described. The aim is to determine the components of the thermal fraction. We therefore describe an experimental method to precisely compute these components from the measurement of the external quantum efficiency, the current–voltage characteristics, and the reflectivity of the solar cell. Applying this method to three different types of devices (bulk, thin film, and multi-junction), we could exploit the relationships among losses for the main three generations of PV cells available nowadays. In addition, since the model is explicitly wavelength dependent, we could show how thermal losses in all cells occur over the whole solar spectrum, and not only in the infrared region. This demonstrates that profitable thermal harvesting technologies should enable heat recovery over the whole solar spectral range.

36 MATERIALS SCIENCE↗

Properties of dark solitons under SBS in focused beams

Using the method of four-wave probing of the waist of the laser beam focused into the bulk of a short active medium (L || {tau}c, where L is the length of the active medium, {tau} is the pulse duration, and c is the speed of light), we have studied the dynamics of the behaviour of a dark soliton, appearing upon a jump of the input Stokes signal phase by about {pi} under SBS. The computer simulation has shown that when spontaneous noises with the gain increment {Gamma}, exceeding the self-reflection threshold by 2 - 3 times, are generated, the dark soliton propagates along the interaction region for the time t Almost-Equal-To T{sub 2}{Gamma}{sub th}/2, where T{sub 2} is the the lifetime of acoustic phonons, and {Gamma}{sub th} = 25 - 30 is the stationary threshold gain increment. (special issue devoted to the 90th anniversary of n.g. basov)

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗