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At least 1,621 records · Page 90

Online Adaptive Radiation Therapy

The current paradigm of radiation therapy has the treatment planned on a snapshot dataset of the patient's anatomy taken at the time of simulation. Throughout the course of treatment, this snapshot may vary from initial simulation. Although there is the ability to image patients within the treatment room with technologies such as cone beam computed tomography, the current state of the art is largely limited to rigid-body matching and not accounting for any geometric deformations in the patient's anatomy. A plan that was once attuned to the initial simulation can become suboptimal as the treatment progresses unless improved technologies are brought to bear. Adaptive radiation therapy (ART) is an evolving paradigm that seeks to address this deficiency by accounting for ongoing changes in the patient's anatomy and/or physiology during the course of treatment, affording an increasingly more accurate targeting of disease. ART relies on several components working in concert, namely in-room treatment image guidance, deformable image registration, automatic recontouring, plan evaluation and reoptimization, dose calculation, and quality assurance. Various studies have explored how a putative ART solution would improve the current state of the art of radiation therapy—some centers have even clinically implemented online adaptation. These explorations are reviewed here for a variety of sites.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

Dosimetric Impact of Intrafraction Motion in Online-Adaptive Intensity Modulated Proton Therapy for Cervical Cancer

A method was recently developed for online-adaptive intensity modulated proton therapy (IMPT) in patients with cervical cancer. The advantage of this approach, relying on the use of tight margins, is challenged by the intrafraction target motion. The purpose of this study was to evaluate the dosimetric effect of intrafraction motion on the target owing to changes in bladder filling in patients with cervical cancer treated with online-adaptive IMPT.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

Initial Feasibility and Clinical Implementation of Daily MR-Guided Adaptive Head and Neck Cancer Radiation Therapy on a 1.5T MR-Linac System: Prospective R-IDEAL 2a/2b Systematic Clinical Evaluation of Technical Innovation

This prospective study is, to our knowledge, the first report of daily adaptive radiation therapy (ART) for head and neck cancer (HNC) using a 1.5T magnetic resonance imaging-linear accelerator (MR-linac) with particular focus on safety and feasibility and dosimetric results of an online rigid registration-based adapt to position (ATP) workflow.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

Adaptive relay autotuning under static and non-static disturbances with application to friction stir welding

When a traditional relay feedback test is biased, asymmetry is induced, erroneous system identification occurs, and the test may stop oscillating. Adaptive methods which restore symmetry to the relay test are developed, and additional methods are presented to detect and recover from a non-oscillation condition. This is demonstrated both in simulation and in a process with significant transients and disturbances - friction stir welding (FSW). In testing, it is shown that the adaptive method is able to restore symmetry even in the presence of severe and changing disturbances, including after the weld plunge where temperature gradients change rapidly. Finally, these improvements enable system identification of systems such as FSW in a more robust and accurate manner.

42 ENGINEERING↗

Higher-order adaptive finite-element methods for Kohn–Sham density functional theory

We present an efficient computational approach to perform real-space electronic structure calculations using an adaptive higher-order finite-element discretization of Kohn–Sham density-functional theory (DFT). To this end, we develop an a priori mesh-adaption technique to construct a close to optimal finite-element discretization of the problem. We further propose an efficient solution strategy for solving the discrete eigenvalue problem by using spectral finite-elements in conjunction with Gauss–Lobatto quadrature, and a Chebyshev acceleration technique for computing the occupied eigenspace. The proposed approach has been observed to provide a staggering 100–200-fold computational advantage over the solution of a generalized eigenvalue problem. Using the proposed solution procedure, we investigate the computational efficiency afforded by higher-order finite-element discretizations of the Kohn–Sham DFT problem. Our studies suggest that staggering computational savings—of the order of 1000-fold—relative to linear finite-elements can be realized, for both all-electron and local pseudopotential calculations, by using higher-order finite-element discretizations. On all the benchmark systems studied, we observe diminishing returns in computational savings beyond the sixth-order for accuracies commensurate with chemical accuracy, suggesting that the hexic spectral-element may be an optimal choice for the finite-element discretization of the Kohn–Sham DFT problem. A comparative study of the computational efficiency of the proposed higher-order finite-element discretizations suggests that the performance of finite-element basis is competing with the plane-wave discretization for non-periodic local pseudopotential calculations, and compares to the Gaussian basis for all-electron calculations to within an order of magnitude. Further, we demonstrate the capability of the proposed approach to compute the electronic structure of a metallic system containing 1688 atoms using modest computational resources, and good scalability of the present implementation up to 192 processors.

97 MATHEMATICS AND COMPUTING↗

Thickness-based adaptive mesh refinement methods for multi-phase flow simulations with thin regions

In numerical simulations of multi-scale, multi-phase flows, grid refinement is required to resolve regions with small scales. A notable example is liquid-jet atomization and subsequent droplet dynamics. It is essential to characterize the detailed flow physics with variable length scales with high fidelity, in order to elucidate the underlying mechanisms. In this paper, two thickness-based mesh refinement schemes are developed based on distance- and topology-oriented criteria for thin regions with confining wall/plane of symmetry and in any situation, respectively. Both techniques are implemented in a general framework with a volume-of-fluid formulation and an adaptive-mesh-refinement capability. The distance-oriented technique compares against a critical value, the ratio of an interfacial cell size to the distance between the mass center of the cell and a reference plane. The topology-oriented technique is developed from digital topology theories to handle more general conditions. The requirement for interfacial mesh refinement can be detected swiftly, without the need of thickness information, equation solving, variable averaging or mesh repairing. The mesh refinement level increases smoothly on demand in thin regions. The schemes have been verified and validated against several benchmark cases to demonstrate their effectiveness and robustness. These include the dynamics of colliding droplets, droplet motions in a microchannel, and atomization of liquid impinging jets. Overall, the thickness-based refinement technique provides highly adaptive meshes for problems with thin regions in an efficient and fully automatic manner.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

A novel adaptive time stepping variant of the Boris–Buneman integrator for the simulation of particle accelerators with space charge

We show that adaptive time stepping in particle accelerator simulation is an enhancement for certain problems. The new algorithm has been implemented in the OPAL (Object Oriented Parallel Accelerator Library) framework. The idea is to adjust the frequency of costly self-field calculations, which are needed to model Coulomb interaction (space charge) effects. In analogy to a Kepler orbit simulation that requires a higher time step resolution at the close encounter, we propose to choose the time step based on the magnitude of the space charge forces. Inspired by geometric integration techniques, our algorithm chooses the time step proportional to a function of the current phase space state instead of calculating a local error estimate like a conventional adaptive procedure. Building on recent work, a more profound argument is given on how exactly the time step should be chosen. An intermediate algorithm, initially built to allow a clearer analysis by introducing separate time steps for external field and self-field integration, turned out to be useful by its own, for a large class of problems.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Discontinuous finite element solution of the radiation diffusion equation on arbitrary polygonal meshes and locally adapted quadrilateral grids

In this paper, we propose a piece-wise linear discontinuous (PWLD) finite element discretization of the diffusion equation for arbitrary polygonal meshes. It is based on the standard diffusion form and uses the symmetric interior penalty technique, which yields a symmetric positive definite linear system matrix. A preconditioned conjugate gradient algorithm is employed to solve the linear system. Piece-wise linear approximations also allow a straightforward implementation of local mesh adaptation by allowing unrefined cells to be interpreted as polygons with an increased number of vertices. Several test cases, taken from the literature on the discretization of the radiation diffusion equation, are presented: random, sinusoidal, Shestakov, and Z meshes are used. The last numerical example demonstrates the application of the PWLD discretization to adaptive mesh refinement.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Stability of a modified Peaceman–Rachford method for the paraxial Helmholtz equation on adaptive grids

This study concerns the asymptotic stability of an eikonal, or ray, transformation based Peaceman–Rachford splitting method for solving the paraxial Helmholtz equation with high wave numbers. Arbitrary nonuniform grids are considered in transverse and beam propagation directions. The differential equation targeted has been used for modeling propagations of high intensity laser pulses over a long distance without diffractions. Self-focusing of high intensity beams may be balanced with the de-focusing effect of created ionized plasma channel in the situation, and applications of grid adaptations are frequently essential. It is shown rigorously that the fully discretized oscillation-free decomposition method on arbitrary adaptive grids is asymptotically stable with a stability index one. Simulation experiments are carried out to illustrate our concern and conclusions.

97 MATHEMATICS AND COMPUTING↗

A two-stage adaptive stochastic collocation method on nested sparse grids for multiphase flow in randomly heterogeneous porous media

A new computational method is proposed for efficient uncertainty quantification of multiphase flow in porous media with stochastic permeability. For pressure estimation, it combines the dimension-adaptive stochastic collocation method on Smolyak sparse grids and the Kronrod–Patterson–Hermite nested quadrature formulas. For saturation estimation, an additional stage is developed, in which the pressure and velocity samples are first generated by the sparse grid interpolation and then substituted into the transport equation to solve for the saturation samples, to address the low regularity problem of the saturation. Numerical examples are presented for multiphase flow with stochastic permeability fields to demonstrate accuracy and efficiency of the proposed two-stage adaptive stochastic collocation method on nested sparse grids.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Adaptive enriched Galerkin methods for miscible displacement problems with entropy residual stabilization

Here we present a novel approach to the simulation of miscible displacement by employing adaptive enriched Galerkin finite element methods (EG) coupled with entropy residual stabilization for transport. In particular, numerical simulations of viscous fingering instabilities in heterogeneous porous media and Hele–Shaw cells are illustrated. EG is formulated by enriching the conforming continuous Galerkin finite element method (CG) with piecewise constant functions. The method provides locally and globally conservative fluxes, which are crucial for coupled flow and transport problems. Moreover, EG has fewer degrees of freedom in comparison with discontinuous Galerkin (DG) and an efficient flow solver has been derived which allows for higher order schemes. Dynamic adaptive mesh refinement is applied in order to reduce computational costs for large-scale three dimensional applications. In addition, entropy residual based stabilization for high order EG transport systems prevents spurious oscillations. Numerical tests are presented to show the capabilities of EG applied to flow and transport.

97 MATHEMATICS AND COMPUTING↗

An adaptive fast multipole accelerated Poisson solver for complex geometries

Here, we present a fast, direct and adaptive Poisson solver for complex two-dimensional geometries based on potential theory and fast multipole acceleration. More precisely, the solver relies on the standard decomposition of the solution as the sum of a volume integral to account for the source distribution and a layer potential to enforce the desired boundary condition. The volume integral is computed by applying the FMM on a square box that encloses the domain of interest. For the sake of efficiency and convergence acceleration, we first extend the source distribution (the right-hand side in the Poisson equation) to the enclosing box as a $C$ 0 function using a fast, boundary integral-based method. We demonstrate on multiply connected domains with irregular boundaries that this continuous extension leads to high accuracy without excessive adaptive refinement near the boundary and, as a result, to an extremely efficient “black box” fast solver.

97 MATHEMATICS AND COMPUTING↗

Adaptive sparse polynomial dimensional decomposition for derivative-based sensitivity

In this report applications, such as the plasma-coupled combustion system we consider, derivative-based sensitivity indices (DSI) are known to have several advantages over Sobol's total sensitivity indices, especially for small sample sizes. Several properties of derivative-based sensitivity measures are leveraged to develop a new and efficient numerical approach to estimate them. It is based on computing the DSI measures by effectively cost-free Monte Carlo sampling of an adaptively constructed orthogonal polynomial surrogate with uncertain input parameters that can have arbitrary probability distributions. The adaptivity reduces the number of necessary model evaluations, which is demonstrated both in a constructed example (the Moon function) and in two plasma-combustion systems with up to 55 uncertain parameters. Unimportant parameters are successfully identified and neglected with a low number of model evaluations, which makes it an attractive non-intrusive approach when adjoint solutions are unavailable to provide sensitivity information.

42 ENGINEERING↗

Adaptive spectral solution method for the Landau and Lenard-Balescu equations

In this paper, we present an adaptive spectral method for solving the Landau/Fokker-Planck equation for electron-ion systems. The heart of the algorithm is an expansion in Laguerre polynomials, which has several advantages, including automatic conservation of both energy and particles without the need for any special discretization or time-stepping schemes. One drawback of such an expansion is the O(N 3 ) memory requirement, where N is the number of polynomials used. This can impose an inconvenient limit in cases of practical interest, such as when two particle species have widely separated temperatures. The algorithm we describe here addresses this problem by periodically re-projecting the solution onto a judicious choice of new basis functions that are still Laguerre polynomials but have arguments adapted to the current physical conditions. This results in a reduction in the number of polynomials needed, at the expense of increased solution time. Because the equations are solved with little difficulty, this added time is not of much concern compared to the savings in memory. To demonstrate the algorithm, we solve several relaxation problems that could not be computed with the spectral method without re-projection. Another major advantage of this method is that it can be used for collision operators more complicated than that of the Landau equation, and we demonstrate this here by using it to solve the non-degenerate quantum Lenard-Balescu (QLB) equation for a hydrogen plasma. We conclude with some comparisons of temperature relaxation problems solved with the latter equation and the Landau equation with a Coulomb logarithm inspired by the properties of the QLB operator. We find that with this choice of Coulomb logarithm, there is little difference between using the two equations for these particular systems.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Adaptive Activation Functions Accelerate Convergence in Deep and Physics-informed Neural Networks

We employ adaptive activation functions for regression in deep and physics-informed neural networks (PINNs) to approximate smooth and discontinuous functions as well as solutions of linear and nonlinear partial differential equations. In particular, we solve the nonlinear Klein-Gordon equation, which has smooth solutions, the nonlinear Burgers equation, which can admit high gradient solutions, and the Helmholtz equation. We introduce a scalable hyper-parameter in the activation function, which can be optimized to achieve best performance of the network as it changes dynamically the topology of the loss function involved in the optimization process. The adaptive activation function has better learning capabilities than the traditional one (fixed activation) as it improves greatly the convergence rate, especially at early training, as well as the solution accuracy. To better understand the learning process, we plot the neural network solution in the frequency domain to examine how the network captures successively different frequency bands present in the solution. We consider both forward problems, where the approximate solutions are obtained, as well as inverse problems, where parameters involved in the governing equation are identified. Our simulation results show that the proposed method is a very simple and effective approach to increase the efficiency, robustness and accuracy of the neural network approximation of nonlinear functions as well as solutions of partial differential equations, especially for forward problems. We theoretically prove that in the proposed method, gradient descent algorithms are not attracted to suboptimal critical points or local minima.

machine leaning, Bad minima, Inverse problems, Phy↗

Online multimedia retrieval on CPU–GPU platforms with adaptive work partition

Nearest neighbors search is a core operation found in several online multimedia services. These services have to handle very large databases, while, at the same time, they must minimize the query response times observed by users. This is specially complex because those services deal with fluctuating query workloads (rates). Consequently, they must adapt at run-time to minimize the response times as the load varies. In this paper, we address the aforementioned challenges with a distributed memory parallelization of the product quantization nearest neighbor search, also known as IVFADC, for hybrid CPU–GPU machines. Overall, our parallel IVFADC implements an out-of-GPU memory execution scheme to use the GPU for databases in which the index does not fit in its memory, which is crucial for searching in very large databases. The careful use of CPU and GPU with work stealing led to an average response time reduction of 2.4 as compared to using the GPU only. Also, our approach to adapt the system to fluctuating loads, called Dynamic Query Processing Policy (DQPP), attained a response time reduction of up to 5 vs. the best static (BS) policy for moderate loads. The system has attained high query processing rates and near-linear scalability in all experiments. We have evaluated our system on a machine with up to 256 NVIDIA V100 GPUs processing a database of 256 billion SIFT features vectors.

97 MATHEMATICS AND COMPUTING↗

Photosynthetic adaptation to polar life: Energy balance, photoprotection and genetic redundancy

The persistent low temperature that characterize polar habitats combined with the requirement for light for all photoautotrophs creates a conundrum. The absorption of too much light at low temperature can cause an energy imbalance that decreases photosynthetic performance that has a negative impact on growth and can affect long-term survival. The goal of this review is to survey the mechanism(s) by which polar photoautotrophs maintain cellular energy balance, that is, photostasis to overcome the potential for cellular energy imbalance in their low temperature environments. Photopsychrophiles are photosynthetic organisms that are obligately adapted to low temperature (0⁰- 15 °C) but usually die at higher temperatures (≥20 °C). In contrast, photopsychrotolerant species can usually tolerate and survive a broad range of temperatures (5⁰- 40 °C). First, we summarize the basic concepts of excess excitation energy, energy balance, photoprotection and photostasis and their importance to survival in polar habitats. Second, we compare the photoprotective mechanisms that underlie photostasis and survival in aquatic cyanobacteria and green algae as well as terrestrial Antarctic and Arctic plants. We show that polar photopsychrophilic and photopsychrotolerant organisms attain energy balance at low temperature either through a regulated reduction in the efficiency of light absorption or through enhanced capacity to consume photosynthetic electrons by the induction of O 2 as an alternative electron acceptor. Finally, we compare the published genomes of three photopsychrophilic and one photopsychrotolerant alga with five mesophilic green algae including the model green alga, Chlamydomonas reinhardtii. We relate our genomic analyses to photoprotective mechanisms that contribute to the potential attainment of photostasis. Finally, we discuss how the observed genomic redundancy in photopsychrophilic genomes may confer energy balance, photoprotection and resilience to their harsh polar environment. Primary production in aquatic, Antarctic and Arctic environments is dependent on diverse algal and cyanobacterial communities. Although mosses and lichens dominate the Antarctic terrestrial landscape, only two extant angiosperms exist in the Antarctic. Furthermore, the identification of a single ‘molecular key’ to unravel adaptation of photopsychrophily and photopsychrotolerance remains elusive. Since these photoautotrophs represent excellent biomarkers to assess the impact of global warming on polar ecosystems, increased study of these polar photoautotrophs remains essential.

59 BASIC BIOLOGICAL SCIENCES↗

Adaptive learning-driven high-throughput synthesis of oxygen reduction reaction Fe–N–C electrocatalysts

Reducing human reliance on inefficient energy systems and fossil fuels has become more urgent due to the consequences of global climate change. However, traditional trial-and-error approaches have hampered our ability to accelerate the discovery and implementation of functional materials for efficient energy conversion devices, such as polymer electrolyte fuel cells (PEFCs). To address this, we develop an adaptive learning framework that integrates machine learning and state-of-the-art capabilities in high-throughput synthesis to achieve expedited optimization of iron-nitrogen-carbon PEFC oxygen reduction reaction (ORR) electrocatalysts. We use statistical inference, uncertainty quantification, and global optimization to build a computational design-of-experiment tool that identifies the optimum compositions to be investigated next to reduce the demands placed on experimental materials discovery. We benchmark the ability of the proposed strategy to discover optimum catalyst synthesis conditions in a six-dimensional search space when starting with a thirty-six-sample database. By following the adaptive learning strategy, we synthesize fourteen new catalysts from approximately ten billion unique compositions and discover four catalysts that outperform all original samples. The best machine learning-optimized catalyst is 33% more active than the highest-performing one in the initial database, showing an ORR activity seven times larger than those typically reported for the same class of materials.

36 MATERIALS SCIENCE↗