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All sourcesNASA NTRSDOE OSTI
NASA NTRSDate not supplied

Method Development for In-situ Detection of Latent Herpesvirus DNA from Saliva using Nanopore Sequencing

Research toward latent herpesvirus reactivation has been intensively addressed through Space Shuttle and International Space Station (ISS) investigations. This work has provided the understanding that persistent reactivation of herpesviruses from asymptomatic crew can be detected through viral shedding in saliva, urine, and blood. Occasionally, viral reactivation from the latency stage can pose a threat to crew health (clinical manifestation) before, during, and after flight missions. Furthermore, previous work detailing correlations with immunity indicate that monitoring viral reactivation could be implemented to assess potential immune dysfunction. While in-flight monitoring is desirable, there is no well-established procedure or method for real-time evaluations, and research to date has relied on postflight, ground-based analysis. The development of portable molecular technologies like the miniPCR™ (miniPCR Bio) thermal cycler and the MinION™ sequencer (Oxford Nanopore Technologies) have confirmed that real-time monitoring is possible in extreme and low resource environments. These devices, combined with simple sample preparation methods, have been used to demonstrate bacterial identification onboard the ISS, as well as rapid viral detection in remote locations on Earth. The work here builds upon previous molecular advancements onboard the ISS toward the development and validation of a spaceflight-compatible method for viral detection from crew samples. Several herpesviruses can be detected in saliva, which provides a non-invasive means to collect samples for monitoring. While the basis for this method lies in previous spaceflight investigations, key points for method optimization include DNA extraction from saliva, viral primer selection, and bioinformatic processes for data analysis. To increase viral yield, numerous DNA extraction methods have been evaluated and will be discussed in detail. For initial development and testing, varicella-zoster virus (VZV) is being targeted though open reading frame 51 and 63 (ORF51, ORF63), as the replication origin-binding protein is highly expressed during latency. Optimization of the thermal cycling parameters has resulted in the ability to test the entire process. The full method has been tested with both viral VZV DNA standards and saliva spiked with varying concentrations of VZV. Viral sequence data were mapped to the reference sequence using minimap2. Prior to mapping, DNA sequencing reads were filtered for length and quality, barcodes were removed, and alignment identity calculated. Following further assessments, statistics were compared across multiple sequencing experiments and are being used to determine the success of the protocols. Forward work will include the incorporation of herpes simplex virus 1 (HSV-1) and Epstein-Barr virus (EBV) primers as well as the validation of results to the terrestrial qPCR standard assay. Upon full validation of the developed method, saliva will be collected from 20 healthy subjects and spiked with viral DNA. These samples will be split and assayed with the MinION and standard qPCR assay.

Hang N Nguyen↗
DOE OSTI2023

Robust Parameter Design on Dual Stochastic Response Models With Constrained Bayesian Optimization

In engineering system design, minimizing the variations of the quality measurements while guaranteeing their overall quality up to certain levels, namely the robust parameter design (RPD), is crucial. Recent works have dealt with the design of a system whose response-control variables relationship is a deterministic function with a complex shape and function evaluation is expensive. In this work, we propose a Bayesian optimization method for the RPD of stochastic functions. Dual stochastic response models are carefully designed for stochastic functions. The heterogeneous variance of the sample mean is addressed by the predictive mean of the log variance surrogate model in a two-step approach. We establish an acquisition function that favors exploration across the feasible and optimality-improvable regions to effectively and efficiently solve the stochastic constrained optimization problem. Further, the performance of our proposed method is demonstrated by the extensive numerical and case studies. Note to Practitioners-Many manufacturing processes involve undesirable variations, which create variations in the final products. For example, many emerging manufacturing processes, such as nanomanufacturing, involve complex physical and chemical dynamics and transformation, creating variations in the manufacturing output. In such processes, it is crucial to design the manufacturing processes or products so that they have minimum variations in their quality. Meanwhile, it is also important to maintain the overall quality of the designed processes or products. Furthermore, acquiring data from many advanced manufacturing processes is often very costly, especially in the designing stage. In this work, we propose a data-driven method that automatically finds the best setting of manufacturing processes or products with the minimum variations of quality and a given constraint on the average quality satisfied. Our proposed method is used before conducting every experiment; It analyzes the historical data from previous experiments and provides a setting to be used in the next experiment. Our proposed method efficiently utilizes the historical data, and thus finds the best robust setting by conducting only a small number of experiments.

42 ENGINEERING↗
DOE OSTI2022

A simplified, efficient approach to hybrid wind and solar plant site optimization

Abstract. Wind plant layout optimization is a difficult, complex problem with a large number of variables and many local minima. Layout optimization only becomes more difficult with the addition of solar generation. In this paper, we propose a parameterized approach to wind and solar hybrid power plant layout optimization that greatly reduces problem dimensionality while guaranteeing that the generated layouts have a desirable regular structure. Thus far, hybrid power plant optimization research has focused on system sizing. We go beyond sizing and present a practical approach to optimizing the physical layout of a wind–solar hybrid power plant. We argue that the evolution strategy class of derivative-free optimization methods is well-suited to the parameterized hybrid layout problem, and we demonstrate how hard layout constraints (e.g., placement restrictions) can be transformed into soft constraints that are amenable to optimization using evolution strategies. Next, we present experimental results on four test sites, demonstrating the viability, reliability, and effectiveness of the parameterized evolution strategy approach for generating optimized hybrid plant layouts. Completing the tool kit for parameterized layout generation, we include a brief tutorial describing how the parameterized evolutionary approach can be inspected, understood, and debugged when applied to hybrid plant layouts.

14 SOLAR ENERGY↗
DOE OSTI2019

Tracking Excited States in Wave Function Optimization Using Density Matrices and Variational Principles

We introduce an approach for finding individual excited states' energy stationary points in complete active space self-consistent field theory that is compatible with standard optimization methods and highly effective at overcoming difficulties due to root flipping and near-degeneracies. Inspired by both the maximum overlap method and recent progress in excited-state variational principles, our approach combines these ideas in order to track individual excited states throughout the orbital optimization process. In a series of tests involving root flipping, near-degeneracies, charge transfers, and double excitations, we show that this approach is more effective for state-specific optimization than either the naive selection of roots on the basis of energy ordering or a more direct generalization of the maximum overlap method. We offer evidence that this state-specific approach improves the performance of complete active space perturbation theory for vertical excitation energies. Furthermore, we find that the state-specific optimization can help avoid state-averaging-induced discontinuities on potential energy surfaces. With a simple implementation, a low cost, and compatibility with large active space methods, the approach is designed to be useful in a wide range of excited-state investigations.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2016

M-Adapting Low Order Mimetic Finite Differences for Dielectric Interface Problems

We consider a problem of reducing numerical dispersion for electromagnetic wave in the domain with two materials separated by a at interface in 2D with a factor of two di erence in wave speed. The computational mesh in the homogeneous parts of the domain away from the interface consists of square elements. Here the method construction is based on m-adaptation construction in homogeneous domain that leads to fourth-order numerical dispersion (vs. second order in non-optimized method). The size of the elements in two domains also di ers by a factor of two, so as to preserve the same value of Courant number in each. Near the interface where two meshes merge the mesh with larger elements consists of degenerate pentagons. We demonstrate that prior to m-adaptation the accuracy of the method falls from second to rst due to breaking of symmetry in the mesh. Next we develop m-adaptation framework for the interface region and devise an optimization criteria. We prove that for the interface problem m-adaptation cannot produce increase in method accuracy. This is in contrast to homogeneous medium where m-adaptation can increase accuracy by two orders.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2019

Non-Intrusive Inference Reduced Order Model for Fluids Using Deep Multistep Neural Network

In this effort we propose a data-driven learning framework for reduced order modeling of fluid dynamics. Designing accurate and efficient reduced order models for nonlinear fluid dynamic problems is challenging for many practical engineering applications. Classical projection-based model reduction methods generate reduced systems by projecting full-order differential operators into low-dimensional subspaces. However, these techniques usually lead to severe instabilities in the presence of highly nonlinear dynamics, which dramatically deteriorates the accuracy of the reduced-order models. In contrast, our new framework exploits linear multistep networks, based on implicit Adams–Moulton schemes, to construct the reduced system. The advantage is that the method optimally approximates the full order model in the low-dimensional space with a given supervised learning task. Moreover, our approach is non-intrusive, such that it can be applied to other complex nonlinear dynamical systems with sophisticated legacy codes. We demonstrate the performance of our method through the numerical simulation of a two-dimensional flow past a circular cylinder with Reynolds number Re = 100. The results reveal that the new data-driven model is significantly more accurate than standard projection-based approaches.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2021

A systematic solution to quantify economic values of vehicle grid integration

We report Vehicle-Grid-Integration (VGI) supplies one of the potential benefit extensions for electric vehicles (EVs) to make use of their parking time, which enables the EVs to provide grid services while still meeting consumer driving needs. However, the costs, benefits and risks of VGI still remain unclear, which limits the development of the VGI to promote the interaction between the EV and grid. In this study, we propose an integrated framework to quantify and utilize the aggregate flexibility of the EVs to supply the grid services in electricity markets. The integrated solution includes five sub-modules that cover end-to-end functionalities from individual EV energy consumption estimation to final monetary values calculation of providing grid services. Both wholesale market and local level charging management are formulated in the optimization module. A predictive control algorithm is proposed to allocate power to individual vehicles in real time, considering uncertainties from dispatch signal and travel behavior. Simulation results from 10,000 EVs indicate that the proposed optimization methods can significantly reduce the system cost in both wholesale market and retail market. Local tariff optimization reduces the electricity cost by 24.4% compared to uncontrolled charging. Wholesale market optimization results show that $\$$691 and $\$$255 revenues can be captured by each EV in ERCOT and CAISO markets per year, although with a conservative assumption on battery throughput cost at 0.16$\$$/kWh.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗
DOE OSTI2016

Nonlinear bioheat transfer models and multi-objective numerical optimization of the cryosurgery operations

Numerical computation of the three dimensional problem of the freezing interface propagation during the cryosurgery coupled with the multi-objective optimization methods is used in order to improve the efficiency and safety of the cryosurgery operations performing. Prostate cancer treatment and cutaneous cryosurgery are considered. The heat transfer in soft tissue during the thermal exposure to low temperature is described by the Pennes bioheat model and is coupled with an enthalpy method for blurred phase change computations. The finite volume method combined with the control volume approximation of the heat fluxes is applied for the cryosurgery numerical modeling on the tumor tissue of a quite arbitrary shape. The flux relaxation approach is used for the stability improvement of the explicit finite difference schemes. The method of the additional heating elements mounting is studied as an approach to control the cellular necrosis front propagation. Whereas the undestucted tumor tissue and destucted healthy tissue volumes are considered as objective functions, the locations of additional heating elements in cutaneous cryosurgery and cryotips in prostate cancer cryotreatment are considered as objective variables in multi-objective problem. The quasi-gradient method is proposed for the searching of the Pareto front segments as the multi-objective optimization problem solutions.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2019

Online Optimization as a Feedback Controller: Stability and Tracking

This paper develops and analyzes feedback-based online optimization methods to regulate the output of a linear time-invariant (LTI) dynamical system to the optimal solution of a time-varying convex optimization problem. The design of the algorithm is based on continuous-time primal-dual dynamics, properly modified to incorporate feedback from the LTI dynamical system, applied to a proximal augmented Lagrangian function. The resultant closed-loop algorithm tracks the solution of the time-varying optimization problem without requiring knowledge of (time-varying) disturbances in the dynamical system. The analysis leverages integral quadratic constraints to provide linear matrix inequality (LMI) conditions that guarantee global exponential stability and bounded tracking error. Analytical results show that, under a sufficient time-scale separation between the dynamics of the LTI dynamical system and the algorithm, the LMI conditions can be always satisfied. The paper further proposes a modified algorithm that can track an approximate solution trajectory of the constrained optimization problem under less restrictive assumptions. As an illustrative example, the proposed algorithms are showcased for power transmission systems, to compress the time scales between secondary and tertiary control, and allow to simultaneously power re-balancing and tracking of DC optimal power flow points.

24 POWER TRANSMISSION AND DISTRIBUTION↗
DOE OSTI2022

Optimization of artificial viscosity in production codes based on Gaussian Regression surrogate models

To accurately model flows with shock waves using staggered-grid Lagrangian hydrodynamics, artificial viscosity has to be introduced to convert kinetic energy into internal energy, thereby increasing the entropy across shocks. Determining the appropriate strength of the artificial viscosity is an art and strongly depends on the particular problem and experience of the researcher. The objective of this study is to pose the problem of finding the appropriate strength of artificial viscosity as an optimization problem and solve this problem using machine learning (ML) tools, specifically using surrogate models based on Gaussian Process regression and Bayesian analysis. We describe the optimization method and discuss various practical details of its implementation. The shock-containing problems for which we apply this method all have been implemented in the LANL code FLAG. First, we apply ML to find optimal values to isolated shock problems of different strengths. Second, we apply ML to optimize viscosity for a 1D propagating detonation problem based on Zel’dovich-von Neumann-Doring (ZND) detonation theory using a reactive burn model. We compare results for default (currently used values in FLAG) and optimized values of artificial viscosity for these problems demonstrating the potential for significant improvement in the accuracy of computations.

42 ENGINEERING↗
NASA NTRS1979

Supercritical tests of a self-optimizing, variable-Camber wind tunnel model

A testing procedure was used in a 16-foot Transonic Propulsion Wind Tunnel which leads to optimum wing airfoil sections without stopping the tunnel for model changes. Being experimental, the optimum shapes obtained incorporate various three-dimensional and nonlinear viscous and transonic effects not included in analytical optimization methods. The method is a closed-loop, computer-controlled, interactive procedure and employs a Self-Optimizing Flexible Technology wing semispan model that conformally adapts the airfoil section at two spanwise control stations to maximize or minimize various prescribed merit functions subject to both equality and inequality constraints. The model, which employed twelve independent hydraulic actuator systems and flexible skins, was also used for conventional testing. Although six of seven optimizations attempted were at least partially convergent, further improvements in model skin smoothness and hydraulic reliability are required to make the technique fully operational.

Levinsky, E. S.↗
NASA NTRS2005

Low-thrust orbit transfer optimization with refined Q-law and multi-objective genetic algorithm

An optimization method for low-thrust orbit transfers around a central body is developed using the Q-law and a multi-objective genetic algorithm. in the hybrid method, the Q-law generates candidate orbit transfers, and the multi-objective genetic algorithm optimizes the Q-law control parameters in order to simultaneously minimize both the consumed propellant mass and flight time of the orbit tranfer. This paper addresses the problem of finding optimal orbit transfers for low-thrust spacecraft.

low-thrust orbit transfer↗
NASA NTRSDate not supplied

Fast Aircraft Separation Calculations for Gradient Based Optimization of Airspace Simulations

Simulations of airspace operational concepts can play a significant role in determining future paradigms that would allow for a safe increase in airspace density. In particular, airspace simulations which are capable of handling large numbers of aircraft act as an enabling capability for the testing of proposed airspace operational concepts. Simulations allowing for gradient based optimization methods are particularly attractive, since they would potentially allow for an efficient and empirical means to derive best operational practices. These could also allow for vehicle multidisciplinary design and optimization studies to include air traffic management considerations as a discipline. But any large scale simulation of airspace operations must include some methodology for addressing airspace separation requirements, which in the most direct sense would be tracked in a manner that computationally grows as a quadratic function of the number of simulated aircraft. Efficient indirect methods have been developed in certain contexts to address this limitation. However, any means of addressing separation requirements in a gradient based optimization context should be implemented by functions which provide analytic derivative information to maximize numerical precision and computational efficiency. In this paper, a fast and differentiable separation metric is described in application to gradient based optimization of airspace operations. Rather than computing the separation distance between every pair of aircraft in a simulation, this method effectively reduces the problem to a smaller relevant set using a geometric decomposition. This method guarantees that the smallest distance at all points in simulated time is determined exactly. When used in an optimization constraint context, this guarantees that a minimum separation is maintained between all pairs of aircraft. The presented metric has logarithmic computational growth with respect to the number of simulated aircraft, and is shown to perform well in a series of notional 2D airspace optimization problems when used to enforce specified airborne separation constraints. Results show that this is notably faster than a direct pairwise distance computing metric for optimizations involving both small and large numbers of aircraft, yet enforce separation requirements to the same tolerance. It is shown that this favorable scalability is an enabling capability for more sophisticated air traffic management conceptual studies.

Optimization↗
DOE OSTI2020

Optimal economic operation of liquid petroleum products pipeline systems

The majority of overland transport needs for crude petroleum and refined petroleum products are met using pipelines. Numerous studies have developed optimization methods for design of these systems in order to minimize construction costs while meeting capacity requirements. Here, we formulate problems to optimize the operations of existing single liquid commodity pipeline systems subject to physical flow and pump engineering constraints. The objectives are to maximize the economic value created for users of the system and to minimize operating costs. We present a general computational method for this class of continuous, non-convex nonlinear programs, and examine the use of pump operating settings and flow allocations as decision variables. Furthermore, the approach is applied to compute optimal operating regimes and perform engineering economic sensitivity analyses for a case study of a crude oil pipeline developed using publicly available data.

02 PETROLEUM↗
DOE OSTI2025

Benchmarking image processing techniques for porosity measurement in polymer additive manufacturing: Review and experimental analysis

An image processing workflow is proposed for porosity measurement in polymer additive manufacturing. Various techniques, including global and local thresholding, region growing, and K-means clustering, were applied to microscopic images of carbon fiber reinforced acrylonitrile butadiene styrene (CF-ABS) and benchmarked for their ability to accurately measure porosity. Global methods included Otsu, minimum error, iterative, and entropy-based thresholding, while local methods included Niblack, Bernsen, Sauvola, and Bradley-Roth algorithms. Artificial uneven illumination was introduced to test local adaptive thresholds. Results showed significant differences in porosity values across methods. Otsu, region growing, and K-means clustering excelled under uniform illumination, while Sauvola and Bradley-Roth performed better with uneven illumination. Comparison with X-ray computed tomography (XCT) revealed slightly lower porosity values (2.55 %) than optimized methods (2.73–2.79 %) due to XCT's lower resolution excluding smaller pores. While XCT offers finer pore detection, it limits sample volume and underestimates porosity due to spatial variation. Validation using artificial grayscale images with 5 % porosity confirmed that Otsu, Bradley-Roth, region growing, and Sauvola algorithms produced accurate results. Although tested on a single material system, these methods can be adapted to others with optimization. In conclusion, given XCT's high computational and time costs, this study highlights suitable image processing techniques as cost-effective alternatives for porosity analysis in polymer composites.

Additive manufacturing↗
DOE OSTI2017

LDRD Report: Topological Design Optimization of Convolutes in Next Generation Pulsed Power Devices.

This LDRD project was developed around the ambitious goal of applying PDE-constrained opti- mization approaches to design Z-machine components whose performance is governed by elec- tromagnetic and plasma models. This report documents the results of this LDRD project. Our differentiating approach was to use topology optimization methods developed for structural design and extend them for application to electromagnetic systems pertinent to the Z-machine. To achieve this objective a suite of optimization algorithms were implemented in the ROL library part of the Trilinos framework. These methods were applied to standalone demonstration problems and the Drekar multi-physics research application. Out of this exploration a new augmented Lagrangian approach to structural design problems was developed. We demonstrate that this approach has favorable mesh-independent performance. Both the final design and the algorithmic performance were independent of the size of the mesh. In addition, topology optimization formulations for the design of conducting networks were developed and demonstrated. Of note, this formulation was used to develop a design for the inner magnetically insulated transmission line on the Z-machine. The resulting electromagnetic device is compared with theoretically postulated designs.

42 ENGINEERING↗
DOE OSTI2020

Photovoltaic Cleaning Frequency Optimization Under Different Degradation Rate Patterns

Dust accumulation significantly affects the performance of photovoltaic modules and its impact can be mitigated by various cleaning methods. Optimizing the cleaning frequency is essential to minimize the soiling losses and, at the same time, the costs. However, the effectiveness of cleaning lowers with time because of the reduced energy yield due to degradation. Additionally, economic factors such as the escalation in electricity price and inflation can compound or counterbalance the effect of degradation on the soiling mitigation profits. The present study analyzes the impact of degradation, escalation in electricity price and inflation on the revenues and costs of cleanings and proposes a methodology to maximize the profits of soiling mitigation of any system. Here, the energy performance and soiling losses of a 1 MW system installed in southern Spain were analyzed and integrated with theoretical linear and nonlinear degradation rate patterns. The Levelized Cost of Energy and Net Present Value were used as criteria to identify the optimum cleaning strategies. The results showed that the two metrics convey distinct cleaning recommendations, as they are influenced by different factors. For the given site, despite the degradation effects, the optimum cleaning frequency is found to increase with time of operation.

14 SOLAR ENERGY↗