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At least 397 records · Page 22

Direct sensitivity analysis on the parameterization of crystal plasticity models

Various methods for calibrating crystal plasticity finite element (CPFE) models lead to non-unique input parameter values, which subsequently introduce uncertainty in the predicted mechanical response. Sensitivity analysis (SA) conducted on crystal plasticity models is used to identify how variability in these parameters contribute to output uncertainty. Traditional SA on CPFE parameters uses simplified surrogate models to save computational time. However, the accuracy of the surrogate models depends on the quantity of training data used, and any modeling error can propagate into the SA results, potentially affecting their reliability. In this work, the elementary effects test (EET) method, a global SA technique using direct CPFE simulations was employed, and the results obtained were compared with the First Order Second Moment (FOSM) method. ExaConstit, an open-source GPU-enabled CPFE code, was used to perform the simulations and direct SA. The EET method was accurately able to capture the non-linear effects of all the input parameters on the output and is a valuable approach for reliably attributing parameter sensitivities in CPFE models. Based on the results, efficient strategies to perform future parameter calibration and SA are discussed. Additionally, the SA trends observed in different single crystal orientations closely mirrored the activity of the slip systems.

Elementary Effects Test↗

Fitting local, low-dimensional parameterizations of optical turbulence modeled from optimal transport velocity vectors

This work exploits a connection between optimal transport theory and the physics of image propagation to yield a locally low-dimensional model of turbulence-corrupted imagery. Optimal transport produces an invertible, pixel-wise linear trajectories to approximate the globally nonlinear turbulence between a clean and turbulence corrupted image pair. We use the low-dimensional model to fit subsets of the optimal transport vector fields and stitch the local models into a surrogate for the global map to be used for image cleaning. Experiments are performed on laboratory generated data of beam propagation using different values of the Fried parameter (a scale measuring turbulence coherence) as well as a toy data set. The results suggest this is a fruitful direction, and first step, towards using multiple realizations of turbulence corrupted images to learn a blind surrogate for the optimal transport vector field for image cleaning.

47 OTHER INSTRUMENTATION↗

Efficient Parameterization of Density Functional Tight-Binding for 5 f -Elements: A Th–O Case Study

Density functional tight binding (DFTB) models for f-element species are challenging to parametrize owing to the large number of adjustable parameters. The explicit optimization of the terms entering the semiempirical DFTB Hamiltonian related to f orbitals is crucial to generating a reliable parametrization for f-block elements, because they play import roles in bonding interactions. However, since the number of parameters grows quadratically with the number of orbitals, the computational cost for parameter optimization is much more expensive for the f-elements than for the main group elements. In this work we present a set of efficient approaches for mitigating the hurdle imposed by the large size of the parameter space. A novel group-by-orbital correction functions for two-center bond integrals was developed. With this approach the number of parameters is reduced, and it grows linearly with the number of elements, maintaining the accuracy and the number of parameters, in the case of f elements, by more than 40%. The parameter optimization step was accelerated by means of the mini-batch BFGS method. This method allows parameter optimizations with much larger training sets than other single batch methods. A stochastic optimizer was employed that helped overcome shallow local minima in the objective function. The proposed algorithm was used to parametrize the DFTB Hamiltonian for the Th–O system, which was subsequently applied to the study of ThO 2 nanoparticles. The training set consisted of 6322 unique structures, which is barely feasible with conventional optimization methods. The optimized parameter set, LANL-ThO, displays good agreement with DFT-calculated properties such as energies, forces, and structures for both clusters and bulk ThO 2 . Benefiting from the fewer number of parameters and lower computational costs for objective function evaluations, this new approach shows its potential applications in DFTB parametrization for elements with high angular momentum, which present a challenge to conventional methods.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Correction to “Self-Consistent Charge Density-Functional Tight-Binding Parameterization for Pt–Ru Alloys”

The valence electron configuration for the Pt atom was incorrectly recorded as 5d86s2 instead of 5d96s1 in the self-consistent charge density-functional tight-binding (DFTB)(1,2) Slater–Koster file for Pt–Pt interactions, which was uploaded as Supporting Information for our original paper.(3) This error occurred only during conversion of the Pt–Pt Hotbit(4,5) file to the DFTB+ format;(6) the tight-binding parametrization was performed entirely in Hotbit with the correct valence electron configuration. Thus, the results and conclusions of our study remain unaffected. Corrected Slater–Koster files are provided as Supporting Information to this erratum.

Shi, Hongbo↗

Parameterization Strategies for Intermolecular Potentials for Predicting Trajectory-Based Collision Parameters

The accuracy of separable strategies for constructing full-dimensional potential energy surfaces for collisional energy transfer and collision rate calculations is studied systematically for three alcohols (A = methanol, ethanol, and butanol) and three bath gases (M = Ar, N 2 , and H 2 O). The fitting efficiency (defined as the number of ab initio data required to achieve parametrizations of a desired accuracy) is quantified for both pairwise (Buckingham or "exp6") and nonpairwise (permutationally invariant polynomials, PIPs, of Morse variables) functional forms, for four sampling strategies, and as a function of the complexity and anisotropy of the interaction potential. We find that convergence with respect to the number of sampled ab initio data is largely independent of the choice of functional form but instead varies nearly linearly with the number of adjustable parameters and depends strongly on the sampling strategy. Specifically, the use of biased Sobol quasirandom sampling is similar to 7X more efficient than using unbiased pseudorandom sampling, on average, requiring just similar to 3 computed ab initio energies per adjustable fitting parameter. The pairwise exp6 functional form is shown to provide accurate and transferable parametrizations for M = Ar but is unable to accurately describe alcohol interactions with M = N 2 and H 2 O. The nonpairwise PIP functional form, which is systematically improvable, can produce separable parametrizations with arbitrarily small fitting errors. However, these can suffer from overfitting, which is demonstrated using dynamics calculations of collision parameters for a large number of exp6 and PIP parametrizations. The tests described here validate a robust strategy for automatically generating A + M potential energy surfaces with minimal human intervention, including a quantifiable out of sample metric for judging the accuracy of the fitted surface. We further analyze this set of automatically generated potential energy surfaces to identify areas where more sophisticated fitting strategies may be desired, including pruning of the PIP expansions for large systems and improved sampling strategies more closely coupled with the description of the functional form.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Divalent Ion Parameterization Strongly Affects Conformation and Interactions of an Anionic Biomimetic Polymer

The description of peptides and the use of molecular dynamics simulations to refine structures and investigate the dynamics on an atomistic scale are well developed. Through a consensus in this community over multiple decades, parameters were developed for molecular interactions that only require the sequence of amino-acids and an initial guess for the three-dimensional structure. The recent discovery of peptoids will require a retooling of the currently available interaction potentials in order to have the same level of confidence in the predicted structures and pathways as there is presently in the peptide counterparts. Here we present modeling of peptoids using a combination of ab initio molecular dynamics (AIMD) and atomistic resolution classical forcefield (FF) to span the relevant time and length scales. To properly account for the dominant forces that stabilize ordered structures of peptoids, namely steric-, electrostatic, and hydrophobic interactions mediated through sidechain-sidechain interactions in the FF model, those have to be first mapped out using high fidelity atomistic representations. A key feature here is not only to use gas phase quantum chemistry tools, but also account for solvation effects in the condensed phase through AIMD. One major challenge is to elucidate ion binding to charged or polar regions of the peptoid and its concomitant role in the creation of local order. Here, similar to proteins, a specific ion effect is observed suggesting that both the net charge and the precise chemical nature of the ion will need to be described. MDD was supported by MS3 (Materials Synthesis and Simulation Across Scales) Initiative at Pacific Northwest National Laboratory. Research was funded by the Laboratory Directed Research and Development program at Pacific Northwest National Laboratory. MDB acknowledges support from US Department of Energy, Office of Science, Office of Basic Energy Sciences, Division of Material & Engineering. CJM acknowledges support from US Department of Energy, Office of Science, Office of Basic Energy Sciences, Division of Chemical Sciences, Geosciences & Biosciences. PNNL is a multiprogram national laboratory operated by Battelle for the U.S. Department of Energy.

Daily, Michael D.↗

STEPs-SOL, a Peptoid Force Field Parameterization to Include Solvent Effects

As peptoids (N-substituted glycines) continue to gain popularity as a class of biomimetic polymers, the importance and demand for accurate force fields in molecular simulations also grow. Building on the vacuum-optimized Systematic and Extensible Force Field for Peptoids (STEPs) force field, here we present STEPs-SOL, a novel peptoid force field parametrization that effectively incorporates solvent effects to enhance the accuracy of peptoid simulations. The development of STEPs-SOL is based on the need for precise electrostatic modeling achieved through solvent-specific partial charge optimization. Here, our systematic approach significantly improves agreement with experimental measurements, reducing the mean absolute error in cis/trans ratio predictions (ΔG c/t ) by an average of 38% across multiple peptoid residues and solvent environments. This improved parametrization addresses computational challenges associated with nonbonded energies while maintaining a workflow that relies on high-level quantum mechanical data rather than depending solely on limited experimental equilibrium properties. By evaluating the effects of conformational bias in restrained electrostatic potential (RESP) charge generation and examining their impact on peptoid conformations in various solvents, we enhance our understanding of peptoid structural dynamics while providing a more accurate modeling framework.

force field↗

Regional-Scale Modeling Parameterizations for Secondary Organic Aerosol Formation from Isoprene Epoxydiols: Experimentally Based Evaluation and Optimization

Isoprene is an abundant volatile organic compound emitted from broadleaf forests. Under low nitric oxide concentrations, isoprene is photochemically oxidized to form gas-phase isoprene epoxydiols (IEPOX). In the presence of acidified sulfate aerosols, IEPOX enhances the secondary organic aerosol (SOA) formation. Predictions of IEPOX-SOA in regional-scale models, e.g., the Community Multiscale Air Quality Model (CMAQ), are uncertain due to homogeneous aerosol assumptions, underpredictions of water uptake (hygroscopicity), and aerosol surface area. Here, we used experimental measurements of IEPOX-SOA tracers, 2-methyltetrols (2-MT) and 2-methyltetrol sulfates (2-MTS), formed at initial IEPOX-to-inorganic sulfate ratios ranging from 1–10.5, at ∼50% relative humidity to constrain key IEPOX-SOA parameters: phase separation, organic shell diffusivity (D org ), acidity, hygroscopic growth, mass accommodation, and kinetics. The base CMAQ parametrization overpredicted experimental IEPOX-SOA with an average normalized mean bias (NMB average ) of 1.63. CMAQ with phase separation underpredicted IEPOX-SOA (NMB average = −0.71). Using the phase-separated model, CMAQ model performance was optimized (NMB average = 0.077) with an increased D org = 2 × 10 –16 m 2 s –1 and increased rate constants (k 2-MT = 1 × 10 –3 M 2 s –1 , k 2-MTS = 8.83 × 10 –3 M 2 s –1 ). The optimized model explicitly accounted for hygroscopic growth by utilizing experimentally derived growth rates, improving aerosol surface area predictions. Our model highlights the importance of the aerosol mixing state (homogeneous versus phase-separated), aerosol size dynamics, and hygroscopic growth in modeling heterogeneous reactive uptake of IEPOX.

aerosols↗