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At least 235 records · Page 13

Report on the sixth blind test of organic crystal structure prediction methods

The sixth blind test of organic crystal structure prediction (CSP) methods has been held, with five target systems: a small nearly rigid molecule, a polymorphic former drug candidate, a chloride salt hydrate, a co-crystal and a bulky flexible molecule. This blind test has seen substantial growth in the number of participants, with the broad range of prediction methods giving a unique insight into the state of the art in the field. Significant progress has been seen in treating flexible molecules, usage of hierarchical approaches to ranking structures, the application of density-functional approximations, and the establishment of new workflows and `best practices' for performing CSP calculations. All of the targets, apart from a single potentially disordered Z ' = 2 polymorph of the drug candidate, were predicted by at least one submission. Despite many remaining challenges, it is clear that CSP methods are becoming more applicable to a wider range of real systems, including salts, hydrates and larger flexible molecules. The results also highlight the potential for CSP calculations to complement and augment experimental studies of organic solid forms.

Chemistry↗

Compressive Neural Representations of Volumetric Scalar Fields

Here, we present an approach for compressing volumetric scalar fields using implicit neural representations. Our approach represents a scalar field as a learned function, wherein a neural network maps a point in the domain to an output scalar value. By setting the number of weights of the neural network to be smaller than the input size, we achieve compressed representations of scalar fields, thus framing compression as a type of function approximation. Combined with carefully quantizing network weights, we show that this approach yields highly compact representations that outperform state-of-the-art volume compression approaches. The conceptual simplicity of our approach enables a number of benefits, such as support for time-varying scalar fields, optimizing to preserve spatial gradients, and random-access field evaluation. We study the impact of network design choices on compression performance, highlighting how simple network architectures are effective for a broad range of volumes.

97 MATHEMATICS AND COMPUTING↗

Characteristics of the Schottky barriers of two-terminal thin-film Al/nano-Si film/ITO structures

The temperature dependence of the Schottky-barrier height and series resistance of two-terminal thin-film Al/nano-Si film/ITO structures are determined from the current—voltage (I–V) characteristics in the temperature range of 20–150°C. It is found that the form of the I–V characteristic at all investigated temperatures can be described by a model of two Schottky diodes connected back-to-back. For these diodes, the general formula is obtained, which allows the construction of functions approximating experimental curves with high accuracy. Based on this formula, a computational model is built, which generalizes the theoretical data obtained by S.K. Cheung and N.W. Cheung widely used for analyzing the I–V characteristics of single Schottky diodes. A technique is developed for calculating the Schottky-barrier heights in a system of two Schottky diodes connected back-to-back, their ideality factors, and the series resistance of the system. It is established that the barrier heights in the investigated temperature range are ~1 eV. According to the temperature dependence of the barrier height, such large values result from the presence of a SiO{sub x} (0 ≤ x ≤ 2) oxide layer at the nanoparticle boundaries. Charge carriers can overcome this layer by means of thermal excitation or tunneling. It is established that the intrinsic Schottky-barrier height of the Al/nc-Si film and nc-Si film/ITO junctions is ~0.1 eV. The activation dependences of the series resistance of the Al/nc-Si film/ITO structures and impedance spectra show that combined electric-charge transport related to ionic and electronic conductivity takes place in the structures under study. It is shown that the contribution of the electronic conductivity to the total transport process increases as the sample temperature is raised.

36 MATERIALS SCIENCE↗

A Least-Squares-Based Weak Galerkin Finite Element Method for Second Order Elliptic Equations

Here, in this article, we introduce a least-squares-based weak Galerkin finite element method for the second order elliptic equation. This new method is shown to provide very accurate numerical approximations for both the primal and the flux variables. In contrast to other existing least-squares finite element methods, this new method allows us to use discontinuous approximating functions on finite element partitions consisting of arbitrary polygon/polyhedron shapes. We also develop a Schur complement algorithm for the resulting discretization problem by eliminating all the unknowns that represent the solution information in the interior of each element. Optimal order error estimates for both the primal and the flux variables are established. An extensive set of numerical experiments are conducted to demonstrate the robustness, reliability, flexibility, and accuracy of the least-squares-based weak Galerkin finite element method. Finally, the numerical examples cover a wide range of applied problems, including singularly perturbed reaction-diffusion equations and the flow of fluid in porous media with strong anisotropy and heterogeneity.

nite element methods↗

nmrfit

Nmrfit reads the output from a nuclear magnetic resonance (NMR) experiment and, through a number of intuitive API calls, produces a least-squares fit of Voigt-function approximations via particle swarm optimization.

Source record↗

LBC (Learning Building Control)

LBC encompasses the source code and data to reproduce and extend results for a manuscript that compares demand responsive control schemes for multi-zone buildings. It includes examples of model predictive control (MPC), value function approximation via CVXPYLAYERS, and differentiable predictive control (DPC). The goal of the study is to evaluate state-of-the-art controllers and establish the efficacy (if any) of learning-based approaches that leverage deep neural networks in one way or another.

Zhang, Xiangyu↗

Comparing machine learning and interpolation methods for loop-level calculations

The need to approximate functions is ubiquitous in science, either due to empirical constraints or high computational cost of accessing the function. In high-energy physics, the precise computation of the scattering cross-section of a process requires the evaluation of computationally intensive integrals. A wide variety of methods in machine learning have been used to tackle this problem, but often the motivation of using one method over another is lacking. Comparing these methods is typically highly dependent on the problem at hand, so we specify to the case where we can evaluate the function a large number of times, after which quick and accurate evaluation can take place. We consider four interpolation and three machine learning techniques and compare their performance on three toy functions, the four-point scalar Passarino-Veltman D_0 D 0 function, and the two-loop self-energy master integral M. We find that in low dimensions (d = 3), traditional interpolation techniques like the Radial Basis Function perform very well, but in higher dimensions (d=5, 6, 9) we find that multi-layer perceptrons (a.k.a neural networks) do not suffer as much from the curse of dimensionality and provide the fastest and most accurate predictions.

97 MATHEMATICS AND COMPUTING↗

Model-form Error Correction using Universal Differential Equations for an Agent-Based Model of Infectious Disease

This report demonstrates universal differential equations (UDEs) as an approach to bridge the gap between ordinary differential equations (ODE) models and agent-based models (ABMs). Using UDE models as surrogates for ABMs allows us to preserve the foundational ODE that represents global disease dynamics while coupling it with a neural network model to approximate functions for the local behaviors of the ABM.

59 BASIC BIOLOGICAL SCIENCES↗

Properties of Dislocation Drag from Phonon Wind at Ambient Conditions

It is well known that, under plastic deformation, dislocations are not only created but also move through the crystal, and their mobility is impeded by their interaction with the crystal structure. At high stress and temperature, this “drag” is dominated by phonon wind, i.e., phonons scattering off dislocations. Employing the semi-isotropic approach discussed in detail in a previous paper (J. Phys. Chem. Solids 2019, 124, 24–35), we discuss here the approximate functional dependence of dislocation drag B on dislocation velocity in various regimes between a few percent of transverse sound speed c T and c T (where c T is the effective average transverse sound speed of the polycrystal). In doing so, we find an effective functional form for dislocation drag B ( v ) for different slip systems and dislocation characters at fixed (room) temperature and low pressure.

36 MATERIALS SCIENCE↗

Constraining the Dense Matter Equation of State with Joint Analysis of NICER and LIGO/Virgo Measurements

The Neutron Star Interior Composition Explorer collaboration recently published a joint estimate of the mass and the radius of PSR J0030+0451, derived via X-ray pulse-profile modeling. Raaijmakers et al. explored the implications of this measurement for the dense matter equation of state (EOS) using two parameterizations of the high-density EOS: a piecewise-polytropic model, and a model based on the speed of sound in neutron stars (NSs). In this work we obtain further constraints on the EOS following this approach, but we also include information about the tidal deformability of NSs from the gravitational wave signal of the compact binary merger GW170817. Further, we compare the constraints on the EOS to those set by the recent measurement of a 2.14 Me pulsar, included as a likelihood function approximated by a Gaussian, and find a small increase in information gain. To show the flexibility of our method, we also explore the possibility that GW170817 was a NS–black hole merger, which yields weaker constraints on the EOS.

79 ASTRONOMY AND ASTROPHYSICS↗

nmrfit

Nmrfit reads the output from a nuclear magnetic resonance (NMR) experiment and, through a number of intuitive API calls, produces a least-squares fit of Voigt-function approximations via particle swarm optimization.

Source record↗

A Fresh Math Perspective Opens New Possibilities for Computational Chemistry

By reformulating the TDDFT problem as a matrix function approximation, making use of a special transformation and taking advantage of the underlying symmetry with respect to a non-Euclidean metric, Yang and his colleagues were able to apply the Lanczos algorithm and a Kernal Polynomial Method (KPM) to approximate the absorption spectrum of several molecules. Both of these algorithms require relatively low-memory compared to non-symmetrical alternatives, which is the key to the computational savings.

Vu, Linda↗

Computational Math Problems for a Clean Energy Future

Cutting edge computational mathematics are ubiquitous in renewable energy research. Problems in resilient and reliable electric grid operations, infrastructure planning, wind farm yaw control, and more demand sophisticated and scalable computational tools that enable the transition of renewable energy technologies from proof of concept to deployment into our energy system. The mission of the Computational Science Center at NREL is to lead the lab's efforts to solve energy challenges using high-performance computing (HPC), computational science, applied mathematics, scientific data management, visualization, and informatics. In this poster, we provide a short overview of three areas of computational mathematics research at NREL: wind power scenario generation for stochastic grid operations and infrastructure planning, improved rational function approximations for electromagnetic transients codes, and wind farm yaw control using a combination of the Alternating Direction Method of Multipliers (ADMM) and reinforcement learning (RL). Increasing penetrations of renewable energy into power grids motivate the investigation of new approaches to characterizing uncertainty for five-minute economic dispatch problems. Similarly, as the penetration of distributed energy resources on power grids increases, it becomes important to revisit our methods of modelling transient phenomena, i.e. electromagnetic transients programs. Finally, the combination of ADMM and RL for wind farm yaw control presented here can potentially increase the efficiency of the deployed distributed controllers by orders of magnitude.

ADMM↗

First-principles calculation of correlated electron materials based on Gutzwiller wave function beyond Gutzwiller approximation

We introduce a plan that is under the framework of Gutzwiller wave function but goes beyond the commonly adopted Gutzwiller approximation to improve the accuracy and flexibility in treating the correlation effects. Detailed formalism is described for a dimer which is straightforwardly generalized later to more complicated periodic bulk systems. The accuracy of the approach is shown by evaluating the potential energy curves of spin-singlet N 2 dimer, spin-triplet O 2 dimer, and one-dimensional hydrogen chain. The computational workload of the approach can be easily handled by efficient parallel computing.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Robust validation of approximate 1-matrix functionals with few-electron harmonium atoms

A simple comparison between the exact and approximate correlation components U of the electron-electron repulsion energy of several states of few-electron harmonium atoms with varying confinement strengths provides a stringent validation tool for 1-matrix functionals. The robustness of this tool is clearly demonstrated in a survey of 14 known functionals, which reveals their substandard performance within different electron correlation regimes. Unlike spot-testing that employs dissociation curves of diatomic molecules or more extensive benchmarking against experimental atomization energies of molecules comprising some standard set, the present approach not only uncovers the flaws and patent failures of the functionals but, even more importantly, also allows for pinpointing their root causes. Since the approximate values of U are computed at exact 1-densities, the testing requires minimal programming and thus is particularly suitable for rapid screening of new functionals.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Anti-symmetric barron functions and their approximation with sums of determinants

A fundamental problem in quantum physics is to encode functions that are completely anti-symmetric under permutations of identical particles. The architecture of neural network models for the electron wave function typically comprises an equivariant component followed by a summation of determinants. The recently introduced Generic Antisymmetric (GA) block is designed to enhance the expressivity of such neural wave functions, and it was found that the 2-layer GA block achieved more accurate energies than the corresponding single-determinant FermiNet architecure, suggesting its promise as a way to improve the expressivity of neural wave functions. In this paper we show how the function expressed by the 2-layer GA block can be decomposed into a sum of determinants. We formalize this result by defining the antisymmetric Barron space as a generalized version of the 2-layer GA block and providing an appromation theorem for this function class. This result can be viewed as a negative result showing that the 2-layer GA block is not more expressive than using multiple determinants.

Abrahamsen, Nilin↗

A step in the direction of resolving the paradox of Perdew–Zunger self-interaction correction. II. Gauge consistency of the energy density at three levels of approximation

The Perdew-Zunger(PZ) self-interaction correction (SIC) was designed to correct the one-electron limit of any approximate density functional for the exchange-correlation (xc) energy, while yielding no correction to the exact functional. Unfortunately, it spoils the slowly-varying-in-space limits of the uncorrected approximate functionals, where those functionals are right by construction. The right limits can be restored by locally scaling down the energy density of the PZ SIC in many-electron regions, but then a spurious correction to the exact functional would be found unless the self-Hartree and exact self-xc terms of the PZ SIC energy density were expressed in the same gauge. Only the local density approximation satisfies the same-gauge condition for the energy density, which explains why the recent local-scaling SIC (LSIC) is found here to work excellently for atoms and molecules only with this basic approximation, and not with the more advanced generalized gradient approximations (GGAs) and meta-GGAs, which lose the Hartree gauge via simplifying integrations by parts. The transformation of energy density that achieves the Hartree gauge for the exact xc functional can also be applied to approximate functionals. Doing so leads to a simple scaled-down self-interaction (sdSIC) correction that is typically much more accurate than PZ SIC in tests for many molecular properties (including equilibrium bond lengths). The present work shows unambiguously that the largest errors of PZ SIC applied to standard functionals at three levels of approximation can be removed by restoring their correct slowlyvarying- density limits. Here, it also confirms the relevance of these limits to atoms and molecules.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗