Science.gov

Sample records for adaptive mesh model

  1. Hybrid Surface Mesh Adaptation for Climate Modeling

    SciTech Connect

    Ahmed Khamayseh; Valmor de Almeida; Glen Hansen

    2008-10-01

    Solution-driven mesh adaptation is becoming quite popular for spatial error control in the numerical simulation of complex computational physics applications, such as climate modeling. Typically, spatial adaptation is achieved by element subdivision (h adaptation) with a primary goal of resolving the local length scales of interest. A second, less-popular method of spatial adaptivity is called “mesh motion” (r adaptation); the smooth repositioning of mesh node points aimed at resizing existing elements to capture the local length scales. This paper proposes an adaptation method based on a combination of both element subdivision and node point repositioning (rh adaptation). By combining these two methods using the notion of a mobility function, the proposed approach seeks to increase the flexibility and extensibility of mesh motion algorithms while providing a somewhat smoother transition between refined regions than is produced by element subdivision alone. Further, in an attempt to support the requirements of a very general class of climate simulation applications, the proposed method is designed to accommodate unstructured, polygonal mesh topologies in addition to the most popular mesh types.

  2. Hybrid Surface Mesh Adaptation for Climate Modeling

    SciTech Connect

    Khamayseh, Ahmed K; de Almeida, Valmor F; Hansen, Glen

    2008-01-01

    Solution-driven mesh adaptation is becoming quite popular for spatial error control in the numerical simulation of complex computational physics applications, such as climate modeling. Typically, spatial adaptation is achieved by element subdivision (h adaptation) with a primary goal of resolving the local length scales of interest. A second, less-popular method of spatial adaptivity is called "mesh motion" (r adaptation); the smooth repositioning of mesh node points aimed at resizing existing elements to capture the local length scales. This paper proposes an adaptation method based on a combination of both element subdivision and node point repositioning (rh adaptation). By combining these two methods using the notion of a mobility function, the proposed approach seeks to increase the flexibility and extensibility of mesh motion algorithms while providing a somewhat smoother transition between refined regions than is produced by element subdivision alone. Further, in an attempt to support the requirements of a very general class of climate simulation applications, the proposed method is designed to accommodate unstructured, polygonal mesh topologies in addition to the most popular mesh types.

  3. Numerical modeling of seismic waves using frequency-adaptive meshes

    NASA Astrophysics Data System (ADS)

    Hu, Jinyin; Jia, Xiaofeng

    2016-08-01

    An improved modeling algorithm using frequency-adaptive meshes is applied to meet the computational requirements of all seismic frequency components. It automatically adopts coarse meshes for low-frequency computations and fine meshes for high-frequency computations. The grid intervals are adaptively calculated based on a smooth inversely proportional function of grid size with respect to the frequency. In regular grid-based methods, the uniform mesh or non-uniform mesh is used for frequency-domain wave propagators and it is fixed for all frequencies. A too coarse mesh results in inaccurate high-frequency wavefields and unacceptable numerical dispersion; on the other hand, an overly fine mesh may cause storage and computational overburdens as well as invalid propagation angles of low-frequency wavefields. Experiments on the Padé generalized screen propagator indicate that the Adaptive mesh effectively solves these drawbacks of regular fixed-mesh methods, thus accurately computing the wavefield and its propagation angle in a wide frequency band. Several synthetic examples also demonstrate its feasibility for seismic modeling and migration.

  4. Adaptive mesh refinement techniques for 3-D skin electrode modeling.

    PubMed

    Sawicki, Bartosz; Okoniewski, Michal

    2010-03-01

    In this paper, we develop a 3-D adaptive mesh refinement technique. The algorithm is constructed with an electric impedance tomography forward problem and the finite-element method in mind, but is applicable to a much wider class of problems. We use the method to evaluate the distribution of currents injected into a model of a human body through skin contact electrodes. We demonstrate that the technique leads to a significantly improved solution, particularly near the electrodes. We discuss error estimation, efficiency, and quality of the refinement algorithm and methods that allow for preserving mesh attributes in the refinement process.

  5. Fluidity: A New Adaptive, Unstructured Mesh Geodynamics Model

    NASA Astrophysics Data System (ADS)

    Davies, D. R.; Wilson, C. R.; Kramer, S. C.; Piggott, M. D.; Le Voci, G.; Collins, G. S.

    2010-05-01

    Fluidity is a sophisticated fluid dynamics package, which has been developed by the Applied Modelling and Computation Group (AMCG) at Imperial College London. It has many environmental applications, from nuclear reactor safety to simulations of ocean circulation. Fluidity has state-of-the-art features that place it at the forefront of computational fluid dynamics. The code: Dynamically optimizes the mesh, providing increased resolution in areas of dynamic importance, thus allowing for accurate simulations across a range of length scales, within a single model. Uses an unstructured mesh, which enables the representation of complex geometries. It also enhances mesh optimization using anisotropic elements, which are particularly useful for resolving one-dimensional flow features and material interfaces. Uses implicit solvers thus allowing for large time-steps with minimal loss of accuracy. PETSc provides some of these, though multigrid preconditioning methods have been developed in-house. Is optimized to run on parallel processors and has the ability to perform parallel mesh adaptivity - the subdomains used in parallel computing automatically adjust themselves to balance the computational load on each processor, as the mesh evolves. Has a novel interface-preserving advection scheme for maintaining sharp interfaces between multiple materials / components. Has an automated test-bed for verification of model developments. Such attributes provide an extremely powerful base on which to build a new geodynamical model. Incorporating into Fluidity the necessary physics and numerical technology for geodynamical flows is an ongoing task, though progress, to date, includes: Development and implementation of parallel, scalable solvers for Stokes flow, which can handle sharp, orders of magnitude variations in viscosity and, significantly, an anisotropic viscosity tensor. Modification of the multi-material interface-preserving scheme to allow for tracking of chemical

  6. Thermal-chemical Mantle Convection Models With Adaptive Mesh Refinement

    NASA Astrophysics Data System (ADS)

    Leng, W.; Zhong, S.

    2008-12-01

    In numerical modeling of mantle convection, resolution is often crucial for resolving small-scale features. New techniques, adaptive mesh refinement (AMR), allow local mesh refinement wherever high resolution is needed, while leaving other regions with relatively low resolution. Both computational efficiency for large- scale simulation and accuracy for small-scale features can thus be achieved with AMR. Based on the octree data structure [Tu et al. 2005], we implement the AMR techniques into the 2-D mantle convection models. For pure thermal convection models, benchmark tests show that our code can achieve high accuracy with relatively small number of elements both for isoviscous cases (i.e. 7492 AMR elements v.s. 65536 uniform elements) and for temperature-dependent viscosity cases (i.e. 14620 AMR elements v.s. 65536 uniform elements). We further implement tracer-method into the models for simulating thermal-chemical convection. By appropriately adding and removing tracers according to the refinement of the meshes, our code successfully reproduces the benchmark results in van Keken et al. [1997] with much fewer elements and tracers compared with uniform-mesh models (i.e. 7552 AMR elements v.s. 16384 uniform elements, and ~83000 tracers v.s. ~410000 tracers). The boundaries of the chemical piles in our AMR code can be easily refined to the scales of a few kilometers for the Earth's mantle and the tracers are concentrated near the chemical boundaries to precisely trace the evolvement of the boundaries. It is thus very suitable for our AMR code to study the thermal-chemical convection problems which need high resolution to resolve the evolvement of chemical boundaries, such as the entrainment problems [Sleep, 1988].

  7. Adaptive Shape Functions and Internal Mesh Adaptation for Modelling Progressive Failure in Adhesively Bonded Joints

    NASA Technical Reports Server (NTRS)

    Stapleton, Scott; Gries, Thomas; Waas, Anthony M.; Pineda, Evan J.

    2014-01-01

    Enhanced finite elements are elements with an embedded analytical solution that can capture detailed local fields, enabling more efficient, mesh independent finite element analysis. The shape functions are determined based on the analytical model rather than prescribed. This method was applied to adhesively bonded joints to model joint behavior with one element through the thickness. This study demonstrates two methods of maintaining the fidelity of such elements during adhesive non-linearity and cracking without increasing the mesh needed for an accurate solution. The first method uses adaptive shape functions, where the shape functions are recalculated at each load step based on the softening of the adhesive. The second method is internal mesh adaption, where cracking of the adhesive within an element is captured by further discretizing the element internally to represent the partially cracked geometry. By keeping mesh adaptations within an element, a finer mesh can be used during the analysis without affecting the global finite element model mesh. Examples are shown which highlight when each method is most effective in reducing the number of elements needed to capture adhesive nonlinearity and cracking. These methods are validated against analogous finite element models utilizing cohesive zone elements.

  8. Adaptive Mesh Refinement in Reactive Transport Modeling of Subsurface Environments

    NASA Astrophysics Data System (ADS)

    Molins, S.; Day, M.; Trebotich, D.; Graves, D. T.

    2015-12-01

    Adaptive mesh refinement (AMR) is a numerical technique for locally adjusting the resolution of computational grids. AMR makes it possible to superimpose levels of finer grids on the global computational grid in an adaptive manner allowing for more accurate calculations locally. AMR codes rely on the fundamental concept that the solution can be computed in different regions of the domain with different spatial resolutions. AMR codes have been applied to a wide range of problem including (but not limited to): fully compressible hydrodynamics, astrophysical flows, cosmological applications, combustion, blood flow, heat transfer in nuclear reactors, and land ice and atmospheric models for climate. In subsurface applications, in particular, reactive transport modeling, AMR may be particularly useful in accurately capturing concentration gradients (hence, reaction rates) that develop in localized areas of the simulation domain. Accurate evaluation of reaction rates is critical in many subsurface applications. In this contribution, we will discuss recent applications that bring to bear AMR capabilities on reactive transport problems from the pore scale to the flood plain scale.

  9. Parallel Adaptive Mesh Refinement

    SciTech Connect

    Diachin, L; Hornung, R; Plassmann, P; WIssink, A

    2005-03-04

    As large-scale, parallel computers have become more widely available and numerical models and algorithms have advanced, the range of physical phenomena that can be simulated has expanded dramatically. Many important science and engineering problems exhibit solutions with localized behavior where highly-detailed salient features or large gradients appear in certain regions which are separated by much larger regions where the solution is smooth. Examples include chemically-reacting flows with radiative heat transfer, high Reynolds number flows interacting with solid objects, and combustion problems where the flame front is essentially a two-dimensional sheet occupying a small part of a three-dimensional domain. Modeling such problems numerically requires approximating the governing partial differential equations on a discrete domain, or grid. Grid spacing is an important factor in determining the accuracy and cost of a computation. A fine grid may be needed to resolve key local features while a much coarser grid may suffice elsewhere. Employing a fine grid everywhere may be inefficient at best and, at worst, may make an adequately resolved simulation impractical. Moreover, the location and resolution of fine grid required for an accurate solution is a dynamic property of a problem's transient features and may not be known a priori. Adaptive mesh refinement (AMR) is a technique that can be used with both structured and unstructured meshes to adjust local grid spacing dynamically to capture solution features with an appropriate degree of resolution. Thus, computational resources can be focused where and when they are needed most to efficiently achieve an accurate solution without incurring the cost of a globally-fine grid. Figure 1.1 shows two example computations using AMR; on the left is a structured mesh calculation of a impulsively-sheared contact surface and on the right is the fuselage and volume discretization of an RAH-66 Comanche helicopter [35]. Note the

  10. Parallel Adaptive Mesh Refinement Library

    NASA Technical Reports Server (NTRS)

    Mac-Neice, Peter; Olson, Kevin

    2005-01-01

    Parallel Adaptive Mesh Refinement Library (PARAMESH) is a package of Fortran 90 subroutines designed to provide a computer programmer with an easy route to extension of (1) a previously written serial code that uses a logically Cartesian structured mesh into (2) a parallel code with adaptive mesh refinement (AMR). Alternatively, in its simplest use, and with minimal effort, PARAMESH can operate as a domain-decomposition tool for users who want to parallelize their serial codes but who do not wish to utilize adaptivity. The package builds a hierarchy of sub-grids to cover the computational domain of a given application program, with spatial resolution varying to satisfy the demands of the application. The sub-grid blocks form the nodes of a tree data structure (a quad-tree in two or an oct-tree in three dimensions). Each grid block has a logically Cartesian mesh. The package supports one-, two- and three-dimensional models.

  11. Automatic Mesh Adaptivity for Hybrid Monte Carlo/Deterministic Neutronics Modeling of Fusion Energy Systems

    SciTech Connect

    Ibrahim, Ahmad M; Wilson, P.; Sawan, M.; Mosher, Scott W; Peplow, Douglas E.; Grove, Robert E

    2013-01-01

    Three mesh adaptivity algorithms were developed to facilitate and expedite the use of the CADIS and FW-CADIS hybrid Monte Carlo/deterministic techniques in accurate full-scale neutronics simulations of fusion energy systems with immense sizes and complicated geometries. First, a macromaterial approach enhances the fidelity of the deterministic models without changing the mesh. Second, a deterministic mesh refinement algorithm generates meshes that capture as much geometric detail as possible without exceeding a specified maximum number of mesh elements. Finally, a weight window coarsening algorithm decouples the weight window mesh and energy bins from the mesh and energy group structure of the deterministic calculations in order to remove the memory constraint of the weight window map from the deterministic mesh resolution. The three algorithms were used to enhance an FW-CADIS calculation of the prompt dose rate throughout the ITER experimental facility and resulted in a 23.3% increase in the number of mesh tally elements in which the dose rates were calculated in a 10-day Monte Carlo calculation. Additionally, because of the significant increase in the efficiency of FW-CADIS simulations, the three algorithms enabled this difficult calculation to be accurately solved on a regular computer cluster, eliminating the need for a world-class super computer.

  12. An Arbitrary Lagrangian-Eulerian Method with Local Adaptive Mesh Refinement for Modeling Compressible Flow

    NASA Astrophysics Data System (ADS)

    Anderson, Robert; Pember, Richard; Elliott, Noah

    2001-11-01

    We present a method, ALE-AMR, for modeling unsteady compressible flow that combines a staggered grid arbitrary Lagrangian-Eulerian (ALE) scheme with structured local adaptive mesh refinement (AMR). The ALE method is a three step scheme on a staggered grid of quadrilateral cells: Lagrangian advance, mesh relaxation, and remap. The AMR scheme uses a mesh hierarchy that is dynamic in time and is composed of nested structured grids of varying resolution. The integration algorithm on the hierarchy is a recursive procedure in which the coarse grids are advanced a single time step, the fine grids are advanced to the same time, and the coarse and fine grid solutions are synchronized. The novel details of ALE-AMR are primarily motivated by the need to reconcile and extend AMR techniques typically employed for stationary rectangular meshes with cell-centered quantities to the moving quadrilateral meshes with staggered quantities used in the ALE scheme. Solutions of several test problems are discussed.

  13. Advanced numerical methods in mesh generation and mesh adaptation

    SciTech Connect

    Lipnikov, Konstantine; Danilov, A; Vassilevski, Y; Agonzal, A

    2010-01-01

    Numerical solution of partial differential equations requires appropriate meshes, efficient solvers and robust and reliable error estimates. Generation of high-quality meshes for complex engineering models is a non-trivial task. This task is made more difficult when the mesh has to be adapted to a problem solution. This article is focused on a synergistic approach to the mesh generation and mesh adaptation, where best properties of various mesh generation methods are combined to build efficiently simplicial meshes. First, the advancing front technique (AFT) is combined with the incremental Delaunay triangulation (DT) to build an initial mesh. Second, the metric-based mesh adaptation (MBA) method is employed to improve quality of the generated mesh and/or to adapt it to a problem solution. We demonstrate with numerical experiments that combination of all three methods is required for robust meshing of complex engineering models. The key to successful mesh generation is the high-quality of the triangles in the initial front. We use a black-box technique to improve surface meshes exported from an unattainable CAD system. The initial surface mesh is refined into a shape-regular triangulation which approximates the boundary with the same accuracy as the CAD mesh. The DT method adds robustness to the AFT. The resulting mesh is topologically correct but may contain a few slivers. The MBA uses seven local operations to modify the mesh topology. It improves significantly the mesh quality. The MBA method is also used to adapt the mesh to a problem solution to minimize computational resources required for solving the problem. The MBA has a solid theoretical background. In the first two experiments, we consider the convection-diffusion and elasticity problems. We demonstrate the optimal reduction rate of the discretization error on a sequence of adaptive strongly anisotropic meshes. The key element of the MBA method is construction of a tensor metric from hierarchical edge

  14. Unstructured mesh generation and adaptivity

    NASA Technical Reports Server (NTRS)

    Mavriplis, D. J.

    1995-01-01

    An overview of current unstructured mesh generation and adaptivity techniques is given. Basic building blocks taken from the field of computational geometry are first described. Various practical mesh generation techniques based on these algorithms are then constructed and illustrated with examples. Issues of adaptive meshing and stretched mesh generation for anisotropic problems are treated in subsequent sections. The presentation is organized in an education manner, for readers familiar with computational fluid dynamics, wishing to learn more about current unstructured mesh techniques.

  15. Block-structured adaptive meshes and reduced grids for atmospheric general circulation models.

    PubMed

    Jablonowski, Christiane; Oehmke, Robert C; Stout, Quentin F

    2009-11-28

    Adaptive mesh refinement techniques offer a flexible framework for future variable-resolution climate and weather models since they can focus their computational mesh on certain geographical areas or atmospheric events. Adaptive meshes can also be used to coarsen a latitude-longitude grid in polar regions. This allows for the so-called reduced grid setups. A spherical, block-structured adaptive grid technique is applied to the Lin-Rood finite-volume dynamical core for weather and climate research. This hydrostatic dynamics package is based on a conservative and monotonic finite-volume discretization in flux form with vertically floating Lagrangian layers. The adaptive dynamical core is built upon a flexible latitude-longitude computational grid and tested in two- and three-dimensional model configurations. The discussion is focused on static mesh adaptations and reduced grids. The two-dimensional shallow water setup serves as an ideal testbed and allows the use of shallow water test cases like the advection of a cosine bell, moving vortices, a steady-state flow, the Rossby-Haurwitz wave or cross-polar flows. It is shown that reduced grid configurations are viable candidates for pure advection applications but should be used moderately in nonlinear simulations. In addition, static grid adaptations can be successfully used to resolve three-dimensional baroclinic waves in the storm-track region.

  16. Automatic mesh adaptivity for CADIS and FW-CADIS neutronics modeling of difficult shielding problems

    SciTech Connect

    Ibrahim, A. M.; Peplow, D. E.; Mosher, S. W.; Wagner, J. C.; Evans, T. M.; Wilson, P. P.; Sawan, M. E.

    2013-07-01

    The CADIS and FW-CADIS hybrid Monte Carlo/deterministic techniques dramatically increase the efficiency of neutronics modeling, but their use in the accurate design analysis of very large and geometrically complex nuclear systems has been limited by the large number of processors and memory requirements for their preliminary deterministic calculations and final Monte Carlo calculation. Three mesh adaptivity algorithms were developed to reduce the memory requirements of CADIS and FW-CADIS without sacrificing their efficiency improvement. First, a macro-material approach enhances the fidelity of the deterministic models without changing the mesh. Second, a deterministic mesh refinement algorithm generates meshes that capture as much geometric detail as possible without exceeding a specified maximum number of mesh elements. Finally, a weight window coarsening algorithm de-couples the weight window mesh and energy bins from the mesh and energy group structure of the deterministic calculations in order to remove the memory constraint of the weight window map from the deterministic mesh resolution. The three algorithms were used to enhance an FW-CADIS calculation of the prompt dose rate throughout the ITER experimental facility. Using these algorithms resulted in a 23.3% increase in the number of mesh tally elements in which the dose rates were calculated in a 10-day Monte Carlo calculation and, additionally, increased the efficiency of the Monte Carlo simulation by a factor of at least 3.4. The three algorithms enabled this difficult calculation to be accurately solved using an FW-CADIS simulation on a regular computer cluster, obviating the need for a world-class super computer. (authors)

  17. Automatic mesh adaptivity for hybrid Monte Carlo/deterministic neutronics modeling of difficult shielding problems

    DOE PAGES

    Ibrahim, Ahmad M.; Wilson, Paul P.H.; Sawan, Mohamed E.; Mosher, Scott W.; Peplow, Douglas E.; Wagner, John C.; Evans, Thomas M.; Grove, Robert E.

    2015-06-30

    The CADIS and FW-CADIS hybrid Monte Carlo/deterministic techniques dramatically increase the efficiency of neutronics modeling, but their use in the accurate design analysis of very large and geometrically complex nuclear systems has been limited by the large number of processors and memory requirements for their preliminary deterministic calculations and final Monte Carlo calculation. Three mesh adaptivity algorithms were developed to reduce the memory requirements of CADIS and FW-CADIS without sacrificing their efficiency improvement. First, a macromaterial approach enhances the fidelity of the deterministic models without changing the mesh. Second, a deterministic mesh refinement algorithm generates meshes that capture as muchmore » geometric detail as possible without exceeding a specified maximum number of mesh elements. Finally, a weight window coarsening algorithm decouples the weight window mesh and energy bins from the mesh and energy group structure of the deterministic calculations in order to remove the memory constraint of the weight window map from the deterministic mesh resolution. The three algorithms were used to enhance an FW-CADIS calculation of the prompt dose rate throughout the ITER experimental facility. Using these algorithms resulted in a 23.3% increase in the number of mesh tally elements in which the dose rates were calculated in a 10-day Monte Carlo calculation and, additionally, increased the efficiency of the Monte Carlo simulation by a factor of at least 3.4. The three algorithms enabled this difficult calculation to be accurately solved using an FW-CADIS simulation on a regular computer cluster, eliminating the need for a world-class super computer.« less

  18. Automatic mesh adaptivity for hybrid Monte Carlo/deterministic neutronics modeling of difficult shielding problems

    SciTech Connect

    Ibrahim, Ahmad M.; Wilson, Paul P.H.; Sawan, Mohamed E.; Mosher, Scott W.; Peplow, Douglas E.; Wagner, John C.; Evans, Thomas M.; Grove, Robert E.

    2015-06-30

    The CADIS and FW-CADIS hybrid Monte Carlo/deterministic techniques dramatically increase the efficiency of neutronics modeling, but their use in the accurate design analysis of very large and geometrically complex nuclear systems has been limited by the large number of processors and memory requirements for their preliminary deterministic calculations and final Monte Carlo calculation. Three mesh adaptivity algorithms were developed to reduce the memory requirements of CADIS and FW-CADIS without sacrificing their efficiency improvement. First, a macromaterial approach enhances the fidelity of the deterministic models without changing the mesh. Second, a deterministic mesh refinement algorithm generates meshes that capture as much geometric detail as possible without exceeding a specified maximum number of mesh elements. Finally, a weight window coarsening algorithm decouples the weight window mesh and energy bins from the mesh and energy group structure of the deterministic calculations in order to remove the memory constraint of the weight window map from the deterministic mesh resolution. The three algorithms were used to enhance an FW-CADIS calculation of the prompt dose rate throughout the ITER experimental facility. Using these algorithms resulted in a 23.3% increase in the number of mesh tally elements in which the dose rates were calculated in a 10-day Monte Carlo calculation and, additionally, increased the efficiency of the Monte Carlo simulation by a factor of at least 3.4. The three algorithms enabled this difficult calculation to be accurately solved using an FW-CADIS simulation on a regular computer cluster, eliminating the need for a world-class super computer.

  19. Towards a large-scale scalable adaptive heart model using shallow tree meshes

    NASA Astrophysics Data System (ADS)

    Krause, Dorian; Dickopf, Thomas; Potse, Mark; Krause, Rolf

    2015-10-01

    Electrophysiological heart models are sophisticated computational tools that place high demands on the computing hardware due to the high spatial resolution required to capture the steep depolarization front. To address this challenge, we present a novel adaptive scheme for resolving the deporalization front accurately using adaptivity in space. Our adaptive scheme is based on locally structured meshes. These tensor meshes in space are organized in a parallel forest of trees, which allows us to resolve complicated geometries and to realize high variations in the local mesh sizes with a minimal memory footprint in the adaptive scheme. We discuss both a non-conforming mortar element approximation and a conforming finite element space and present an efficient technique for the assembly of the respective stiffness matrices using matrix representations of the inclusion operators into the product space on the so-called shallow tree meshes. We analyzed the parallel performance and scalability for a two-dimensional ventricle slice as well as for a full large-scale heart model. Our results demonstrate that the method has good performance and high accuracy.

  20. A Predictive Model of Fragmentation using Adaptive Mesh Refinement and a Hierarchical Material Model

    SciTech Connect

    Koniges, A E; Masters, N D; Fisher, A C; Anderson, R W; Eder, D C; Benson, D; Kaiser, T B; Gunney, B T; Wang, P; Maddox, B R; Hansen, J F; Kalantar, D H; Dixit, P; Jarmakani, H; Meyers, M A

    2009-03-03

    Fragmentation is a fundamental material process that naturally spans spatial scales from microscopic to macroscopic. We developed a mathematical framework using an innovative combination of hierarchical material modeling (HMM) and adaptive mesh refinement (AMR) to connect the continuum to microstructural regimes. This framework has been implemented in a new multi-physics, multi-scale, 3D simulation code, NIF ALE-AMR. New multi-material volume fraction and interface reconstruction algorithms were developed for this new code, which is leading the world effort in hydrodynamic simulations that combine AMR with ALE (Arbitrary Lagrangian-Eulerian) techniques. The interface reconstruction algorithm is also used to produce fragments following material failure. In general, the material strength and failure models have history vector components that must be advected along with other properties of the mesh during remap stage of the ALE hydrodynamics. The fragmentation models are validated against an electromagnetically driven expanding ring experiment and dedicated laser-based fragmentation experiments conducted at the Jupiter Laser Facility. As part of the exit plan, the NIF ALE-AMR code was applied to a number of fragmentation problems of interest to the National Ignition Facility (NIF). One example shows the added benefit of multi-material ALE-AMR that relaxes the requirement that material boundaries must be along mesh boundaries.

  1. Shape-model-based adaptation of 3D deformable meshes for segmentation of medical images

    NASA Astrophysics Data System (ADS)

    Pekar, Vladimir; Kaus, Michael R.; Lorenz, Cristian; Lobregt, Steven; Truyen, Roel; Weese, Juergen

    2001-07-01

    Segmentation methods based on adaptation of deformable models have found numerous applications in medical image analysis. Many efforts have been made in the recent years to improve their robustness and reliability. In particular, increasingly more methods use a priori information about the shape of the anatomical structure to be segmented. This reduces the risk of the model being attracted to false features in the image and, as a consequence, makes the need of close initialization, which remains the principal limitation of elastically deformable models, less crucial for the segmentation quality. In this paper, we present a novel segmentation approach which uses a 3D anatomical statistical shape model to initialize the adaptation process of a deformable model represented by a triangular mesh. As the first step, the anatomical shape model is parametrically fitted to the structure of interest in the image. The result of this global adaptation is used to initialize the local mesh refinement based on an energy minimization. We applied our approach to segment spine vertebrae in CT datasets. The segmentation quality was quantitatively assessed for 6 vertebrae, from 2 datasets, by computing the mean and maximum distance between the adapted mesh and a manually segmented reference shape. The results of the study show that the presented method is a promising approach for segmentation of complex anatomical structures in medical images.

  2. Adaptive Hybrid Mesh Refinement for Multiphysics Applications

    SciTech Connect

    Khamayseh, Ahmed K; de Almeida, Valmor F

    2007-01-01

    The accuracy and convergence of computational solutions of mesh-based methods is strongly dependent on the quality of the mesh used. We have developed methods for optimizing meshes that are comprised of elements of arbitrary polygonal and polyhedral type. We present in this research the development of r-h hybrid adaptive meshing technology tailored to application areas relevant to multi-physics modeling and simulation. Solution-based adaptation methods are used to reposition mesh nodes (r-adaptation) or to refine the mesh cells (h-adaptation) to minimize solution error. The numerical methods perform either the r-adaptive mesh optimization or the h-adaptive mesh refinement method on the initial isotropic or anisotropic meshes to maximize the equidistribution of a weighted geometric and/or solution function. We have successfully introduced r-h adaptivity to a least-squares method with spherical harmonics basis functions for the solution of the spherical shallow atmosphere model used in climate forecasting. In addition, application of this technology also covers a wide range of disciplines in computational sciences, most notably, time-dependent multi-physics, multi-scale modeling and simulation.

  3. Simulating the quartic Galileon gravity model on adaptively refined meshes

    SciTech Connect

    Li, Baojiu; Barreira, Alexandre; Baugh, Carlton M.; Hellwing, Wojciech A.; Koyama, Kazuya; Zhao, Gong-Bo; Pascoli, Silvia E-mail: baojiu.li@durham.ac.uk E-mail: wojciech.hellwing@durham.ac.uk E-mail: silvia.pascoli@durham.ac.uk

    2013-11-01

    We develop a numerical algorithm to solve the high-order nonlinear derivative-coupling equation associated with the quartic Galileon model, and implement it in a modified version of the ramses N-body code to study the effect of the Galileon field on the large-scale matter clustering. The algorithm is tested for several matter field configurations with different symmetries, and works very well. This enables us to perform the first simulations for a quartic Galileon model which provides a good fit to the cosmic microwave background (CMB) anisotropy, supernovae and baryonic acoustic oscillations (BAO) data. Our result shows that the Vainshtein mechanism in this model is very efficient in suppressing the spatial variations of the scalar field. However, the time variation of the effective Newtonian constant caused by the curvature coupling of the Galileon field cannot be suppressed by the Vainshtein mechanism. This leads to a significant weakening of the strength of gravity in high-density regions at late times, and therefore a weaker matter clustering on small scales. We also find that without the Vainshtein mechanism the model would have behaved in a completely different way, which shows the crucial role played by nonlinearities in modified gravity theories and the importance of performing self-consistent N-body simulations for these theories.

  4. New high quality adaptive mesh generator utilized in modelling plasma streamer propagation at atmospheric pressures

    NASA Astrophysics Data System (ADS)

    Papadakis, A. P.; Georghiou, G. E.; Metaxas, A. C.

    2008-12-01

    A new adaptive mesh generator has been developed and used in the analysis of high-pressure gas discharges, such as avalanches and streamers, reducing computational times and computer memory needs significantly. The new adaptive mesh generator developed, uses normalized error indicators, varying from 0 to 1, to guarantee optimal mesh resolution for all carriers involved in the analysis. Furthermore, it uses h- and r-refinement techniques such as mesh jiggling, edge swapping and node addition/removal to develop an element quality improvement algorithm that improves the mesh quality significantly and a fast and accurate algorithm for interpolation between meshes. Finally, the mesh generator is applied in the characterization of the transition from a single electron to the avalanche and streamer discharges in high-voltage, high-pressure gas discharges for dc 1 mm gaps, RF 1 cm point-plane gaps and parallel-plate 40 MHz configurations, in ambient atmospheric air.

  5. Cubit Adaptive Meshing Algorithm Library

    2004-09-01

    CAMAL (Cubit adaptive meshing algorithm library) is a software component library for mesh generation. CAMAL 2.0 includes components for triangle, quad and tetrahedral meshing. A simple Application Programmers Interface (API) takes a discrete boundary definition and CAMAL computes a quality interior unstructured grid. The triangle and quad algorithms may also import a geometric definition of a surface on which to define the grid. CAMAL’s triangle meshing uses a 3D space advancing front method, the quadmore » meshing algorithm is based upon Sandia’s patented paving algorithm and the tetrahedral meshing algorithm employs the GHS3D-Tetmesh component developed by INRIA, France.« less

  6. Adaptive and Unstructured Mesh Cleaving

    PubMed Central

    Bronson, Jonathan R.; Sastry, Shankar P.; Levine, Joshua A.; Whitaker, Ross T.

    2015-01-01

    We propose a new strategy for boundary conforming meshing that decouples the problem of building tetrahedra of proper size and shape from the problem of conforming to complex, non-manifold boundaries. This approach is motivated by the observation that while several methods exist for adaptive tetrahedral meshing, they typically have difficulty at geometric boundaries. The proposed strategy avoids this conflict by extracting the boundary conforming constraint into a secondary step. We first build a background mesh having a desired set of tetrahedral properties, and then use a generalized stenciling method to divide, or “cleave”, these elements to get a set of conforming tetrahedra, while limiting the impacts cleaving has on element quality. In developing this new framework, we make several technical contributions including a new method for building graded tetrahedral meshes as well as a generalization of the isosurface stuffing and lattice cleaving algorithms to unstructured background meshes. PMID:26137171

  7. A Parallel Ocean Model With Adaptive Mesh Refinement Capability For Global Ocean Prediction

    SciTech Connect

    Herrnstein, Aaron R.

    2005-12-01

    An ocean model with adaptive mesh refinement (AMR) capability is presented for simulating ocean circulation on decade time scales. The model closely resembles the LLNL ocean general circulation model with some components incorporated from other well known ocean models when appropriate. Spatial components are discretized using finite differences on a staggered grid where tracer and pressure variables are defined at cell centers and velocities at cell vertices (B-grid). Horizontal motion is modeled explicitly with leapfrog and Euler forward-backward time integration, and vertical motion is modeled semi-implicitly. New AMR strategies are presented for horizontal refinement on a B-grid, leapfrog time integration, and time integration of coupled systems with unequal time steps. These AMR capabilities are added to the LLNL software package SAMRAI (Structured Adaptive Mesh Refinement Application Infrastructure) and validated with standard benchmark tests. The ocean model is built on top of the amended SAMRAI library. The resulting model has the capability to dynamically increase resolution in localized areas of the domain. Limited basin tests are conducted using various refinement criteria and produce convergence trends in the model solution as refinement is increased. Carbon sequestration simulations are performed on decade time scales in domains the size of the North Atlantic and the global ocean. A suggestion is given for refinement criteria in such simulations. AMR predicts maximum pH changes and increases in CO2 concentration near the injection sites that are virtually unattainable with a uniform high resolution due to extremely long run times. Fine scale details near the injection sites are achieved by AMR with shorter run times than the finest uniform resolution tested despite the need for enhanced parallel performance. The North Atlantic simulations show a reduction in passive tracer errors when AMR is applied instead of a uniform coarse resolution. No

  8. Staggered grid lagrangian method with local structured adaptive mesh refinement for modeling shock hydrodynamics

    SciTech Connect

    Anderson, R W; Pember, R B; Elliot, N S

    2000-09-26

    A new method for the solution of the unsteady Euler equations has been developed. The method combines staggered grid Lagrangian techniques with structured local adaptive mesh refinement (AMR). This method is a precursor to a more general adaptive arbitrary Lagrangian Eulerian (ALE-AMR) algorithm under development, which will facilitate the solution of problems currently at and beyond the boundary of soluble problems by traditional ALE methods by focusing computational resources where they are required. Many of the core issues involved in the development of the ALE-AMR method hinge upon the integration of AMR with a Lagrange step, which is the focus of the work described here. The novel components of the method are mainly driven by the need to reconcile traditional AMR techniques, which are typically employed on stationary meshes with cell-centered quantities, with the staggered grids and grid motion employed by Lagrangian methods. These new algorithmic components are first developed in one dimension and are then generalized to two dimensions. Solutions of several model problems involving shock hydrodynamics are presented and discussed.

  9. Adaptive Mesh Refinement in CTH

    SciTech Connect

    Crawford, David

    1999-05-04

    This paper reports progress on implementing a new capability of adaptive mesh refinement into the Eulerian multimaterial shock- physics code CTH. The adaptivity is block-based with refinement and unrefinement occurring in an isotropic 2:1 manner. The code is designed to run on serial, multiprocessor and massive parallel platforms. An approximate factor of three in memory and performance improvements over comparable resolution non-adaptive calculations has-been demonstrated for a number of problems.

  10. Adaptive mesh refinement for storm surge

    NASA Astrophysics Data System (ADS)

    Mandli, Kyle T.; Dawson, Clint N.

    2014-03-01

    An approach to utilizing adaptive mesh refinement algorithms for storm surge modeling is proposed. Currently numerical models exist that can resolve the details of coastal regions but are often too costly to be run in an ensemble forecasting framework without significant computing resources. The application of adaptive mesh refinement algorithms substantially lowers the computational cost of a storm surge model run while retaining much of the desired coastal resolution. The approach presented is implemented in the GEOCLAW framework and compared to ADCIRC for Hurricane Ike along with observed tide gauge data and the computational cost of each model run.

  11. Multiphase flow modelling of explosive volcanic eruptions using adaptive unstructured meshes

    NASA Astrophysics Data System (ADS)

    Jacobs, Christian T.; Collins, Gareth S.; Piggott, Matthew D.; Kramer, Stephan C.

    2014-05-01

    Explosive volcanic eruptions generate highly energetic plumes of hot gas and ash particles that produce diagnostic deposits and pose an extreme environmental hazard. The formation, dispersion and collapse of these volcanic plumes are complex multiscale processes that are extremely challenging to simulate numerically. Accurate description of particle and droplet aggregation, movement and settling requires a model capable of capturing the dynamics on a range of scales (from cm to km) and a model that can correctly describe the important multiphase interactions that take place. However, even the most advanced models of eruption dynamics to date are restricted by the fixed mesh-based approaches that they employ. The research presented herein describes the development of a compressible multiphase flow model within Fluidity, a combined finite element / control volume computational fluid dynamics (CFD) code, for the study of explosive volcanic eruptions. Fluidity adopts a state-of-the-art adaptive unstructured mesh-based approach to discretise the domain and focus numerical resolution only in areas important to the dynamics, while decreasing resolution where it is not needed as a simulation progresses. This allows the accurate but economical representation of the flow dynamics throughout time, and potentially allows large multi-scale problems to become tractable in complex 3D domains. The multiphase flow model is verified with the method of manufactured solutions, and validated by simulating published gas-solid shock tube experiments and comparing the numerical results against pressure gauge data. The application of the model considers an idealised 7 km by 7 km domain in which the violent eruption of hot gas and volcanic ash high into the atmosphere is simulated. Although the simulations do not correspond to a particular eruption case study, the key flow features observed in a typical explosive eruption event are successfully captured. These include a shock wave resulting

  12. Adaptive Mesh Refinement for Microelectronic Device Design

    NASA Technical Reports Server (NTRS)

    Cwik, Tom; Lou, John; Norton, Charles

    1999-01-01

    Finite element and finite volume methods are used in a variety of design simulations when it is necessary to compute fields throughout regions that contain varying materials or geometry. Convergence of the simulation can be assessed by uniformly increasing the mesh density until an observable quantity stabilizes. Depending on the electrical size of the problem, uniform refinement of the mesh may be computationally infeasible due to memory limitations. Similarly, depending on the geometric complexity of the object being modeled, uniform refinement can be inefficient since regions that do not need refinement add to the computational expense. In either case, convergence to the correct (measured) solution is not guaranteed. Adaptive mesh refinement methods attempt to selectively refine the region of the mesh that is estimated to contain proportionally higher solution errors. The refinement may be obtained by decreasing the element size (h-refinement), by increasing the order of the element (p-refinement) or by a combination of the two (h-p refinement). A successful adaptive strategy refines the mesh to produce an accurate solution measured against the correct fields without undue computational expense. This is accomplished by the use of a) reliable a posteriori error estimates, b) hierarchal elements, and c) automatic adaptive mesh generation. Adaptive methods are also useful when problems with multi-scale field variations are encountered. These occur in active electronic devices that have thin doped layers and also when mixed physics is used in the calculation. The mesh needs to be fine at and near the thin layer to capture rapid field or charge variations, but can coarsen away from these layers where field variations smoothen and charge densities are uniform. This poster will present an adaptive mesh refinement package that runs on parallel computers and is applied to specific microelectronic device simulations. Passive sensors that operate in the infrared portion of

  13. Adaptive triangular mesh generation

    NASA Technical Reports Server (NTRS)

    Erlebacher, G.; Eiseman, P. R.

    1984-01-01

    A general adaptive grid algorithm is developed on triangular grids. The adaptivity is provided by a combination of node addition, dynamic node connectivity and a simple node movement strategy. While the local restructuring process and the node addition mechanism take place in the physical plane, the nodes are displaced on a monitor surface, constructed from the salient features of the physical problem. An approximation to mean curvature detects changes in the direction of the monitor surface, and provides the pulling force on the nodes. Solutions to the axisymmetric Grad-Shafranov equation demonstrate the capturing, by triangles, of the plasma-vacuum interface in a free-boundary equilibrium configuration.

  14. Issues in adaptive mesh refinement

    SciTech Connect

    Dai, William Wenlong

    2009-01-01

    In this paper, we present an approach for a patch-based adaptive mesh refinement (AMR) for multi-physics simulations. The approach consists of clustering, symmetry preserving, mesh continuity, flux correction, communications, and management of patches. Among the special features of this patch-based AMR are symmetry preserving, efficiency of refinement, special implementation offlux correction, and patch management in parallel computing environments. Here, higher efficiency of refinement means less unnecessarily refined cells for a given set of cells to be refined. To demonstrate the capability of the AMR framework, hydrodynamics simulations with many levels of refinement are shown in both two- and three-dimensions.

  15. toolkit computational mesh conceptual model.

    SciTech Connect

    Baur, David G.; Edwards, Harold Carter; Cochran, William K.; Williams, Alan B.; Sjaardema, Gregory D.

    2010-03-01

    The Sierra Toolkit computational mesh is a software library intended to support massively parallel multi-physics computations on dynamically changing unstructured meshes. This domain of intended use is inherently complex due to distributed memory parallelism, parallel scalability, heterogeneity of physics, heterogeneous discretization of an unstructured mesh, and runtime adaptation of the mesh. Management of this inherent complexity begins with a conceptual analysis and modeling of this domain of intended use; i.e., development of a domain model. The Sierra Toolkit computational mesh software library is designed and implemented based upon this domain model. Software developers using, maintaining, or extending the Sierra Toolkit computational mesh library must be familiar with the concepts/domain model presented in this report.

  16. Arbitrary Lagrangian-Eulerian Method with Local Structured Adaptive Mesh Refinement for Modeling Shock Hydrodynamics

    SciTech Connect

    Anderson, R W; Pember, R B; Elliott, N S

    2001-10-22

    A new method that combines staggered grid Arbitrary Lagrangian-Eulerian (ALE) techniques with structured local adaptive mesh refinement (AMR) has been developed for solution of the Euler equations. This method facilitates the solution of problems currently at and beyond the boundary of soluble problems by traditional ALE methods by focusing computational resources where they are required through dynamic adaption. Many of the core issues involved in the development of the combined ALEAMR method hinge upon the integration of AMR with a staggered grid Lagrangian integration method. The novel components of the method are mainly driven by the need to reconcile traditional AMR techniques, which are typically employed on stationary meshes with cell-centered quantities, with the staggered grids and grid motion employed by Lagrangian methods. Numerical examples are presented which demonstrate the accuracy and efficiency of the method.

  17. Three-dimensional Wavelet-based Adaptive Mesh Refinement for Global Atmospheric Chemical Transport Modeling

    NASA Astrophysics Data System (ADS)

    Rastigejev, Y.; Semakin, A. N.

    2013-12-01

    Accurate numerical simulations of global scale three-dimensional atmospheric chemical transport models (CTMs) are essential for studies of many important atmospheric chemistry problems such as adverse effect of air pollutants on human health, ecosystems and the Earth's climate. These simulations usually require large CPU time due to numerical difficulties associated with a wide range of spatial and temporal scales, nonlinearity and large number of reacting species. In our previous work we have shown that in order to achieve adequate convergence rate and accuracy, the mesh spacing in numerical simulation of global synoptic-scale pollution plume transport must be decreased to a few kilometers. This resolution is difficult to achieve for global CTMs on uniform or quasi-uniform grids. To address the described above difficulty we developed a three-dimensional Wavelet-based Adaptive Mesh Refinement (WAMR) algorithm. The method employs a highly non-uniform adaptive grid with fine resolution over the areas of interest without requiring small grid-spacing throughout the entire domain. The method uses multi-grid iterative solver that naturally takes advantage of a multilevel structure of the adaptive grid. In order to represent the multilevel adaptive grid efficiently, a dynamic data structure based on indirect memory addressing has been developed. The data structure allows rapid access to individual points, fast inter-grid operations and re-gridding. The WAMR method has been implemented on parallel computer architectures. The parallel algorithm is based on run-time partitioning and load-balancing scheme for the adaptive grid. The partitioning scheme maintains locality to reduce communications between computing nodes. The parallel scheme was found to be cost-effective. Specifically we obtained an order of magnitude increase in computational speed for numerical simulations performed on a twelve-core single processor workstation. We have applied the WAMR method for numerical

  18. Expectation maximization SPECT reconstruction with a content-adaptive singularity-based mesh-domain image model

    NASA Astrophysics Data System (ADS)

    Lu, Yao; Ye, Hongwei; Xu, Yuesheng; Hu, Xiaofei; Vogelsang, Levon; Shen, Lixin; Feiglin, David; Lipson, Edward; Krol, Andrzej

    2008-03-01

    To improve the speed and quality of ordered-subsets expectation-maximization (OSEM) SPECT reconstruction, we have implemented a content-adaptive, singularity-based, mesh-domain, image model (CASMIM) with an accurate algorithm for estimation of the mesh-domain system matrix. A preliminary image, used to initialize CASMIM reconstruction, was obtained using pixel-domain OSEM. The mesh-domain representation of the image was produced by a 2D wavelet transform followed by Delaunay triangulation to obtain joint estimation of nodal locations and their activity values. A system matrix with attenuation compensation was investigated. Digital chest phantom SPECT was simulated and reconstructed. The quality of images reconstructed with OSEM-CASMIM is comparable to that from pixel-domain OSEM, but images are obtained five times faster by the CASMIM method.

  19. Numerical Modelling of Volcanic Ash Settling in Water Using Adaptive Unstructured Meshes

    NASA Astrophysics Data System (ADS)

    Jacobs, C. T.; Collins, G. S.; Piggott, M. D.; Kramer, S. C.; Wilson, C. R.

    2011-12-01

    At the bottom of the world's oceans lies layer after layer of ash deposited from past volcanic eruptions. Correct interpretation of these layers can provide important constraints on the duration and frequency of volcanism, but requires a full understanding of the complex multi-phase settling and deposition process. Analogue experiments of tephra settling through a tank of water demonstrate that small ash particles can either settle individually, or collectively as a gravitationally unstable ash-laden plume. These plumes are generated when the concentration of particles exceeds a certain threshold such that the density of the tephra-water mixture is sufficiently large relative to the underlying particle-free water for a gravitational Rayleigh-Taylor instability to develop. These ash-laden plumes are observed to descend as a vertical density current at a velocity much greater than that of single particles, which has important implications for the emplacement of tephra deposits on the seabed. To extend the results of laboratory experiments to large scales and explore the conditions under which vertical density currents may form and persist, we have developed a multi-phase extension to Fluidity, a combined finite element / control volume CFD code that uses adaptive unstructured meshes. As a model validation, we present two- and three-dimensional simulations of tephra plume formation in a water tank that replicate laboratory experiments (Carey, 1997, doi:10.1130/0091-7613(1997)025<0839:IOCSOT>2.3.CO;2). An inflow boundary condition at the top of the domain allows particles to flux in at a constant rate of 0.472 gm-2s-1, forming a near-surface layer of tephra particles, which initially settle individually at the predicted Stokes velocity of 1.7 mms-1. As more tephra enters the water and the particle concentration increases, the layer eventually becomes unstable and plumes begin to form, descending with velocities more than ten times greater than those of individual

  20. Towards a new multiscale air quality transport model using the fully unstructured anisotropic adaptive mesh technology of Fluidity (version 4.1.9)

    NASA Astrophysics Data System (ADS)

    Zheng, J.; Zhu, J.; Wang, Z.; Fang, F.; Pain, C. C.; Xiang, J.

    2015-10-01

    An integrated method of advanced anisotropic hr-adaptive mesh and discretization numerical techniques has been, for first time, applied to modelling of multiscale advection-diffusion problems, which is based on a discontinuous Galerkin/control volume discretization on unstructured meshes. Over existing air quality models typically based on static-structured grids using a locally nesting technique, the advantage of the anisotropic hr-adaptive model has the ability to adapt the mesh according to the evolving pollutant distribution and flow features. That is, the mesh resolution can be adjusted dynamically to simulate the pollutant transport process accurately and effectively. To illustrate the capability of the anisotropic adaptive unstructured mesh model, three benchmark numerical experiments have been set up for two-dimensional (2-D) advection phenomena. Comparisons have been made between the results obtained using uniform resolution meshes and anisotropic adaptive resolution meshes. Performance achieved in 3-D simulation of power plant plumes indicates that this new adaptive multiscale model has the potential to provide accurate air quality modelling solutions effectively.

  1. Adaptive mesh refinement techniques for electrical impedance tomography.

    PubMed

    Molinari, M; Cox, S J; Blott, B H; Daniell, G J

    2001-02-01

    Adaptive mesh refinement techniques can be applied to increase the efficiency of electrical impedance tomography reconstruction algorithms by reducing computational and storage cost as well as providing problem-dependent solution structures. A self-adaptive refinement algorithm based on an a posteriori error estimate has been developed and its results are shown in comparison with uniform mesh refinement for a simple head model.

  2. Adaptive mesh refinement in titanium

    SciTech Connect

    Colella, Phillip; Wen, Tong

    2005-01-21

    In this paper, we evaluate Titanium's usability as a high-level parallel programming language through a case study, where we implement a subset of Chombo's functionality in Titanium. Chombo is a software package applying the Adaptive Mesh Refinement methodology to numerical Partial Differential Equations at the production level. In Chombo, the library approach is used to parallel programming (C++ and Fortran, with MPI), whereas Titanium is a Java dialect designed for high-performance scientific computing. The performance of our implementation is studied and compared with that of Chombo in solving Poisson's equation based on two grid configurations from a real application. Also provided are the counts of lines of code from both sides.

  3. Auto-adaptive finite element meshes

    NASA Technical Reports Server (NTRS)

    Richter, Roland; Leyland, Penelope

    1995-01-01

    Accurate capturing of discontinuities within compressible flow computations is achieved by coupling a suitable solver with an automatic adaptive mesh algorithm for unstructured triangular meshes. The mesh adaptation procedures developed rely on non-hierarchical dynamical local refinement/derefinement techniques, which hence enable structural optimization as well as geometrical optimization. The methods described are applied for a number of the ICASE test cases are particularly interesting for unsteady flow simulations.

  4. Fully implicit adaptive mesh refinement MHD algorithm

    NASA Astrophysics Data System (ADS)

    Philip, Bobby

    2005-10-01

    In the macroscopic simulation of plasmas, the numerical modeler is faced with the challenge of dealing with multiple time and length scales. The former results in stiffness due to the presence of very fast waves. The latter requires one to resolve the localized features that the system develops. Traditional approaches based on explicit time integration techniques and fixed meshes are not suitable for this challenge, as such approaches prevent the modeler from using realistic plasma parameters to keep the computation feasible. We propose here a novel approach, based on implicit methods and structured adaptive mesh refinement (SAMR). Our emphasis is on both accuracy and scalability with the number of degrees of freedom. To our knowledge, a scalable, fully implicit AMR algorithm has not been accomplished before for MHD. As a proof-of-principle, we focus on the reduced resistive MHD model as a basic MHD model paradigm, which is truly multiscale. The approach taken here is to adapt mature physics-based technologyootnotetextL. Chac'on et al., J. Comput. Phys. 178 (1), 15- 36 (2002) to AMR grids, and employ AMR-aware multilevel techniques (such as fast adaptive composite --FAC-- algorithms) for scalability. We will demonstrate that the concept is indeed feasible, featuring optimal scalability under grid refinement. Results of fully-implicit, dynamically-adaptive AMR simulations will be presented on a variety of problems.

  5. Efficient triangular adaptive meshes for tsunami simulations

    NASA Astrophysics Data System (ADS)

    Behrens, J.

    2012-04-01

    With improving technology and increased sensor density for accurate determination of tsunamogenic earthquake source parameters and consecutively uplift distribution, real-time simulations of even near-field tsunami hazard appears feasible in the near future. In order to support such efforts a new generation of tsunami models is currently under development. These models comprise adaptively refined meshes, in order to save computational resources (in areas of low wave activity) and still represent the inherently multi-scale behavior of a tsunami approaching coastal waters. So far, these methods have been based on oct-tree quadrilateral refinement. The method introduced here is based on binary tree refinement on triangular grids. By utilizing the structure stemming from the refinement strategy, a very efficient method can be achieved, with a triangular mesh, able to accurately represent complex boundaries.

  6. Efficiency considerations in triangular adaptive mesh refinement.

    PubMed

    Behrens, Jörn; Bader, Michael

    2009-11-28

    Locally or adaptively refined meshes have been successfully applied to simulation applications involving multi-scale phenomena in the geosciences. In particular, for situations with complex geometries or domain boundaries, meshes with triangular or tetrahedral cells demonstrate their superior ability to accurately represent relevant realistic features. On the other hand, these methods require more complex data structures and are therefore less easily implemented, maintained and optimized. Acceptance in the Earth-system modelling community is still low. One of the major drawbacks is posed by indirect addressing due to unstructured or dynamically changing data structures and correspondingly lower efficiency of the related computations. In this paper, we will derive several strategies to circumvent the mentioned efficiency constraint. In particular, we will apply recent computational sciences methods in combination with results of classical mathematics (space-filling curves) in order to linearize the complex data and access structure.

  7. Anisotropic Mesh Adaptivity for Turbulent Flows with Boundary Layers

    NASA Astrophysics Data System (ADS)

    Chitale, Kedar C.

    Turbulent flows are found everywhere in nature and are studied, analyzed and simulated using various experimental and numerical tools. For computational analysis, a variety of turbulence models are available and the accuracy of these models in capturing the phenomenon depends largely on the mesh spacings, especially near the walls, in the boundary layer region. Special semi-structured meshes called "mesh boundary layers" are widely used in the CFD community in simulations of turbulent flows, because of their graded and orthogonal layered structure. They provide an efficient way to achieve very fine and highly anisotropic mesh spacings without introducing poorly shaped elements. Since usually the required mesh spacings to accurately resolve the flow are not known a priori to the simulations, an adaptive approach based on a posteriori error indicators is used to achieve an appropriate mesh. In this study, we apply the adaptive meshing techniques to turbulent flows with a focus on boundary layers. We construct a framework to calculate the critical wall normal mesh spacings inside the boundary layers based on the flow physics and the knowledge of the turbulence model. This approach is combined with numerical error indicators to adapt the entire flow region. We illustrate the effectiveness of this hybrid approach by applying it to three aerodynamic flows and studying their superior performance in capturing the flow structures in detail. We also demonstrate the capabilities of the current developments in parallel boundary layer mesh adaptation by applying them to two internal flow problems. We also study the application of adaptive boundary layer meshes to complex geometries like multi element wings. We highlight the advantage of using such techniques for superior wake and tip region resolution by showcasing flow results. We also outline the future direction for the adaptive meshing techniques to be useful to the large scale flow computations.

  8. Arbitrary Lagrangian Eulerian Adaptive Mesh Refinement

    SciTech Connect

    Koniges, A.; Eder, D.; Masters, N.; Fisher, A.; Anderson, R.; Gunney, B.; Wang, P.; Benson, D.; Dixit, P.

    2009-09-29

    This is a simulation code involving an ALE (arbitrary Lagrangian-Eulerian) hydrocode with AMR (adaptive mesh refinement) and pluggable physics packages for material strength, heat conduction, radiation diffusion, and laser ray tracing developed a LLNL, UCSD, and Berkeley Lab. The code is an extension of the open source SAMRAI (Structured Adaptive Mesh Refinement Application Interface) code/library. The code can be used in laser facilities such as the National Ignition Facility. The code is alsi being applied to slurry flow (landslides).

  9. Adaptation of an unstructured-mesh, finite-element ocean model to the simulation of ocean circulation beneath ice shelves

    NASA Astrophysics Data System (ADS)

    Kimura, Satoshi; Candy, Adam S.; Holland, Paul R.; Piggott, Matthew D.; Jenkins, Adrian

    2013-07-01

    Several different classes of ocean model are capable of representing floating glacial ice shelves. We describe the incorporation of ice shelves into Fluidity-ICOM, a nonhydrostatic finite-element ocean model with the capacity to utilize meshes that are unstructured and adaptive in three dimensions. This geometric flexibility offers several advantages over previous approaches. The model represents melting and freezing on all ice-shelf surfaces including vertical faces, treats the ice shelf topography as continuous rather than stepped, and does not require any smoothing of the ice topography or any of the additional parameterisations of the ocean mixed layer used in isopycnal or z-coordinate models. The model can also represent a water column that decreases to zero thickness at the 'grounding line', where the floating ice shelf is joined to its tributary ice streams. The model is applied to idealised ice-shelf geometries in order to demonstrate these capabilities. In these simple experiments, arbitrarily coarsening the mesh outside the ice-shelf cavity has little effect on the ice-shelf melt rate, while the mesh resolution within the cavity is found to be highly influential. Smoothing the vertical ice front results in faster flow along the smoothed ice front, allowing greater exchange with the ocean than in simulations with a realistic ice front. A vanishing water-column thickness at the grounding line has little effect in the simulations studied. We also investigate the response of ice shelf basal melting to variations in deep water temperature in the presence of salt stratification.

  10. Optimization of multiple turbine arrays in a channel with tidally reversing flow by numerical modelling with adaptive mesh.

    PubMed

    Divett, T; Vennell, R; Stevens, C

    2013-02-28

    At tidal energy sites, large arrays of hundreds of turbines will be required to generate economically significant amounts of energy. Owing to wake effects within the array, the placement of turbines within will be vital to capturing the maximum energy from the resource. This study presents preliminary results using Gerris, an adaptive mesh flow solver, to investigate the flow through four different arrays of 15 turbines each. The goal is to optimize the position of turbines within an array in an idealized channel. The turbines are represented as areas of increased bottom friction in an adaptive mesh model so that the flow and power capture in tidally reversing flow through large arrays can be studied. The effect of oscillating tides is studied, with interesting dynamics generated as the tidal current reverses direction, forcing turbulent flow through the array. The energy removed from the flow by each of the four arrays is compared over a tidal cycle. A staggered array is found to extract 54 per cent more energy than a non-staggered array. Furthermore, an array positioned to one side of the channel is found to remove a similar amount of energy compared with an array in the centre of the channel. PMID:23319710

  11. Optimal fully adaptive wormhole routing for meshes

    SciTech Connect

    Schwiebert, L.; Jayasimha, D.N.

    1993-12-31

    A deadlock-free fully adaptive routing algorithm for 2D meshes which is optimal in the number of virtual channels required and in the number of restrictions placed on the use of these virtual channels is presented. The routing algorithm imposes less than half as many routing restrictions as any previous fully adaptive routing algorithm. It is also proved that, ignoring symmetry, this routing algorithm is the only fully adaptive routing algorithm that achieves both of these goals. The implementation of the routing algorithm requires relatively simple router control logic. The new algorithm is extended, in a straightforward manner to arbitrary dimension meshes. It needs only 4n-2 virtual channels, the minimum number for an n-dimensional mesh. All previous algorithms require an exponential number of virtual channels in the dimension of the mesh.

  12. Turbulent flow calculations using unstructured and adaptive meshes

    NASA Technical Reports Server (NTRS)

    Mavriplis, Dimitri J.

    1990-01-01

    A method of efficiently computing turbulent compressible flow over complex two dimensional configurations is presented. The method makes use of fully unstructured meshes throughout the entire flow-field, thus enabling the treatment of arbitrarily complex geometries and the use of adaptive meshing techniques throughout both viscous and inviscid regions of flow-field. Mesh generation is based on a locally mapped Delaunay technique in order to generate unstructured meshes with highly-stretched elements in the viscous regions. The flow equations are discretized using a finite element Navier-Stokes solver, and rapid convergence to steady-state is achieved using an unstructured multigrid algorithm. Turbulence modeling is performed using an inexpensive algebraic model, implemented for use on unstructured and adaptive meshes. Compressible turbulent flow solutions about multiple-element airfoil geometries are computed and compared with experimental data.

  13. A new physical model with multilayer architecture for facial expression animation using dynamic adaptive mesh.

    PubMed

    Zhang, Yu; Prakash, Edmond C; Sung, Eric

    2004-01-01

    This paper presents a new physically-based 3D facial model based on anatomical knowledge which provides high fidelity for facial expression animation while optimizing the computation. Our facial model has a multilayer biomechanical structure, incorporating a physically-based approximation to facial skin tissue, a set of anatomically-motivated facial muscle actuators, and underlying skull structure. In contrast to existing mass-spring-damper (MSD) facial models, our dynamic skin model uses the nonlinear springs to directly simulate the nonlinear visco-elastic behavior of soft tissue and a new kind of edge repulsion spring is developed to prevent collapse of the skin model. Different types of muscle models have been developed to simulate distribution of the muscle force applied on the skin due to muscle contraction. The presence of the skull advantageously constrain the skin movements, resulting in more accurate facial deformation and also guides the interactive placement of facial muscles. The governing dynamics are computed using a local semi-implicit ODE solver. In the dynamic simulation, an adaptive refinement automatically adapts the local resolution at which potential inaccuracies are detected depending on local deformation. The method, in effect, ensures the required speedup by concentrating computational time only where needed while ensuring realistic behavior within a predefined error threshold. This mechanism allows more pleasing animation results to be produced at a reduced computational cost.

  14. PARAMESH: A Parallel Adaptive Mesh Refinement Community Toolkit

    NASA Technical Reports Server (NTRS)

    MacNeice, Peter; Olson, Kevin M.; Mobarry, Clark; deFainchtein, Rosalinda; Packer, Charles

    1999-01-01

    In this paper, we describe a community toolkit which is designed to provide parallel support with adaptive mesh capability for a large and important class of computational models, those using structured, logically cartesian meshes. The package of Fortran 90 subroutines, called PARAMESH, is designed to provide an application developer with an easy route to extend an existing serial code which uses a logically cartesian structured mesh into a parallel code with adaptive mesh refinement. Alternatively, in its simplest use, and with minimal effort, it can operate as a domain decomposition tool for users who want to parallelize their serial codes, but who do not wish to use adaptivity. The package can provide them with an incremental evolutionary path for their code, converting it first to uniformly refined parallel code, and then later if they so desire, adding adaptivity.

  15. Grid adaptation using chimera composite overlapping meshes

    NASA Technical Reports Server (NTRS)

    Kao, Kai-Hsiung; Liou, Meng-Sing; Chow, Chuen-Yen

    1994-01-01

    The objective of this paper is to perform grid adaptation using composite overlapping meshes in regions of large gradient to accurately capture the salient features during computation. The chimera grid scheme, a multiple overset mesh technique, is used in combination with a Navier-Stokes solver. The numerical solution is first converged to a steady state based on an initial coarse mesh. Solution-adaptive enhancement is then performed by using a secondary fine grid system which oversets on top of the base grid in the high-gradient region, but without requiring the mesh boundaries to join in any special way. Communications through boundary interfaces between those separated grids are carried out using trilinear interpolation. Application to the Euler equations for shock reflections and to shock wave/boundary layer interaction problem are tested. With the present method, the salient features are well-resolved.

  16. Grid adaptation using Chimera composite overlapping meshes

    NASA Technical Reports Server (NTRS)

    Kao, Kai-Hsiung; Liou, Meng-Sing; Chow, Chuen-Yen

    1993-01-01

    The objective of this paper is to perform grid adaptation using composite over-lapping meshes in regions of large gradient to capture the salient features accurately during computation. The Chimera grid scheme, a multiple overset mesh technique, is used in combination with a Navier-Stokes solver. The numerical solution is first converged to a steady state based on an initial coarse mesh. Solution-adaptive enhancement is then performed by using a secondary fine grid system which oversets on top of the base grid in the high-gradient region, but without requiring the mesh boundaries to join in any special way. Communications through boundary interfaces between those separated grids are carried out using tri-linear interpolation. Applications to the Euler equations for shock reflections and to a shock wave/boundary layer interaction problem are tested. With the present method, the salient features are well resolved.

  17. Grid adaption using Chimera composite overlapping meshes

    NASA Technical Reports Server (NTRS)

    Kao, Kai-Hsiung; Liou, Meng-Sing; Chow, Chuen-Yen

    1993-01-01

    The objective of this paper is to perform grid adaptation using composite over-lapping meshes in regions of large gradient to capture the salient features accurately during computation. The Chimera grid scheme, a multiple overset mesh technique, is used in combination with a Navier-Stokes solver. The numerical solution is first converged to a steady state based on an initial coarse mesh. Solution-adaptive enhancement is then performed by using a secondary fine grid system which oversets on top of the base grid in the high-gradient region, but without requiring the mesh boundaries to join in any special way. Communications through boundary interfaces between those separated grids are carried out using tri-linear interpolation. Applications to the Euler equations for shock reflections and to a shock wave/boundary layer interaction problem are tested. With the present method, the salient features are well resolved.

  18. Using the Chombo Adaptive Mesh Refinement Model in Shallow Water Mode to Simulate Interactions of Tropical Cyclone-like Vortices

    NASA Astrophysics Data System (ADS)

    Ferguson, J. O.; Jablonowski, C.; Johansen, H.; McCorquodale, P.; Ullrich, P. A.

    2015-12-01

    Complex multi-scale atmospheric phenomena such as tropical cyclones challenge the coarse uniform grids of convectional climate models. Adaptive mesh refinement (AMR) techniques seek to mitigate these problems by providing sufficiently high-resolution grid patches only over features of interests while limiting the computational burden of requiring such resolutions globally. One such model is the non-hydrostatic, finite-volume Chombo-AMR general circulation model (GCM), which implements refinement in both space and time on a cubed-sphere grid. The 2D shallow-water equations exhibit many of the complexities of 3D GCM dynamical cores and serve as an effective method for testing the dynamical core and the refinement strategies of adaptive atmospheric models. We implement a shallow-water test case consisting of a pair of interacting tropical cyclone-like vortices. Small changes in the initial conditions can lead to a variety of interactions that develop fine-scale spiral band structures and large-scale wave trains. We investigate the accuracy and efficiency of AMR's ability to capture and effectively follow the evolution of the vortices in time. These simulations serve to test the effectiveness of refinement for both static and dynamic grid configurations as well as the sensitivity of the model results to the refinement criteria.

  19. Polyhedral shape model for terrain correction of gravity and gravity gradient data based on an adaptive mesh

    NASA Astrophysics Data System (ADS)

    Guo, Zhikui; Chen, Chao; Tao, Chunhui

    2016-04-01

    Since 2007, there are four China Da yang cruises (CDCs), which have been carried out to investigate polymetallic sulfides in the southwest Indian ridge (SWIR) and have acquired both gravity data and bathymetry data on the corresponding survey lines(Tao et al., 2014). Sandwell et al. (2014) published a new global marine gravity model including the free air gravity data and its first order vertical gradient (Vzz). Gravity data and its gradient can be used to extract unknown density structure information(e.g. crust thickness) under surface of the earth, but they contain all the mass effect under the observation point. Therefore, how to get accurate gravity and its gradient effect of the existing density structure (e.g. terrain) has been a key issue. Using the bathymetry data or ETOPO1 (http://www.ngdc.noaa.gov/mgg/global/global.html) model at a full resolution to calculate the terrain effect could spend too much computation time. We expect to develop an effective method that takes less time but can still yield the desired accuracy. In this study, a constant-density polyhedral model is used to calculate the gravity field and its vertical gradient, which is based on the work of Tsoulis (2012). According to gravity field attenuation with distance and variance of bathymetry, we present an adaptive mesh refinement and coarsening strategies to merge both global topography data and multi-beam bathymetry data. The local coarsening or size of mesh depends on user-defined accuracy and terrain variation (Davis et al., 2011). To depict terrain better, triangular surface element and rectangular surface element are used in fine and coarse mesh respectively. This strategy can also be applied to spherical coordinate in large region and global scale. Finally, we applied this method to calculate Bouguer gravity anomaly (BGA), mantle Bouguer anomaly(MBA) and their vertical gradient in SWIR. Further, we compared the result with previous results in the literature. Both synthetic model

  20. Arbitrary Lagrangian Eulerian Adaptive Mesh Refinement

    2009-09-29

    This is a simulation code involving an ALE (arbitrary Lagrangian-Eulerian) hydrocode with AMR (adaptive mesh refinement) and pluggable physics packages for material strength, heat conduction, radiation diffusion, and laser ray tracing developed a LLNL, UCSD, and Berkeley Lab. The code is an extension of the open source SAMRAI (Structured Adaptive Mesh Refinement Application Interface) code/library. The code can be used in laser facilities such as the National Ignition Facility. The code is alsi being appliedmore » to slurry flow (landslides).« less

  1. Variational Mesh Adaptation: Isotropy and Equidistribution

    NASA Astrophysics Data System (ADS)

    Huang, Weizhang

    2001-12-01

    We present a new approach for developing more robust and error-oriented mesh adaptation methods. Specifically, assuming that a regular (in cell shape) and uniform (in cell size) computational mesh is used (as is commonly done in computation), we develop a criterion for mesh adaptation based on an error function whose definition is motivated by the analysis of function variation and local error behavior for linear interpolation. The criterion is then decomposed into two aspects, the isotropy (or conformity) and uniformity (or equidistribution) requirements, each of which can be easier to deal with. The functionals that satisfy these conditions approximately are constructed using discrete and continuous inequalities. A new functional is finally formulated by combining the functionals corresponding to the isotropy and uniformity requirements. The features of the functional are analyzed and demonstrated by numerical results. In particular, unlike the existing mesh adaptation functionals, the new functional has clear geometric meanings of minimization. A mesh that has the desired properties of isotropy and equidistribution can be obtained by properly choosing the values of two parameters. The analysis presented in this article also provides a better understanding of the increasingly popular method of harmonic mapping in two dimensions.

  2. Vertical Scan (V-SCAN) for 3-D Grid Adaptive Mesh Refinement for an atmospheric Model Dynamical Core

    NASA Astrophysics Data System (ADS)

    Andronova, N. G.; Vandenberg, D.; Oehmke, R.; Stout, Q. F.; Penner, J. E.

    2009-12-01

    One of the major building blocks of a rigorous representation of cloud evolution in global atmospheric models is a parallel adaptive grid MPI-based communication library (an Adaptive Blocks for Locally Cartesian Topologies library -- ABLCarT), which manages the block-structured data layout, handles ghost cell updates among neighboring blocks and splits a block as refinements occur. The library has several modules that provide a layer of abstraction for adaptive refinement: blocks, which contain individual cells of user data; shells - the global geometry for the problem, including a sphere, reduced sphere, and now a 3D sphere; a load balancer for placement of blocks onto processors; and a communication support layer which encapsulates all data movement. A major performance concern with adaptive mesh refinement is how to represent calculations that have need to be sequenced in a particular order in a direction, such as calculating integrals along a specific path (e.g. atmospheric pressure or geopotential in the vertical dimension). This concern is compounded if the blocks have varying levels of refinement, or are scattered across different processors, as can be the case in parallel computing. In this paper we describe an implementation in ABLCarT of a vertical scan operation, which allows computing along vertical paths in the correct order across blocks transparent to their resolution and processor location. We test this functionality on a 2D and a 3D advection problem, which tests the performance of the model’s dynamics (transport) and physics (sources and sinks) for different model resolutions needed for inclusion of cloud formation.

  3. Parallel object-oriented adaptive mesh refinement

    SciTech Connect

    Balsara, D.; Quinlan, D.J.

    1997-04-01

    In this paper we study adaptive mesh refinement (AMR) for elliptic and hyperbolic systems. We use the Asynchronous Fast Adaptive Composite Grid Method (AFACX), a parallel algorithm based upon the of Fast Adaptive Composite Grid Method (FAC) as a test case of an adaptive elliptic solver. For our hyperbolic system example we use TVD and ENO schemes for solving the Euler and MHD equations. We use the structured grid load balancer MLB as a tool for obtaining a load balanced distribution in a parallel environment. Parallel adaptive mesh refinement poses difficulties in expressing both the basic single grid solver, whether elliptic or hyperbolic, in a fashion that parallelizes seamlessly. It also requires that these basic solvers work together within the adaptive mesh refinement algorithm which uses the single grid solvers as one part of its adaptive solution process. We show that use of AMR++, an object-oriented library within the OVERTURE Framework, simplifies the development of AMR applications. Parallel support is provided and abstracted through the use of the P++ parallel array class.

  4. Io's Plasma Environment During the Galileo Flyby: Global Three-Dimensional MHD Modeling with Adaptive Mesh Refinement

    NASA Technical Reports Server (NTRS)

    Combi, M. R.; Kabin, K.; Gombosi, T. I.; DeZeeuw, D. L.; Powell, K. G.

    1998-01-01

    The first results for applying a three-dimensional multimedia ideal MHD model for the mass-loaded flow of Jupiter's corotating magnetospheric plasma past Io are presented. The model is able to consider simultaneously physically realistic conditions for ion mass loading, ion-neutral drag, and intrinsic magnetic field in a full global calculation without imposing artificial dissipation. Io is modeled with an extended neutral atmosphere which loads the corotating plasma torus flow with mass, momentum, and energy. The governing equations are solved using adaptive mesh refinement on an unstructured Cartesian grid using an upwind scheme for AHMED. For the work described in this paper we explored a range of models without an intrinsic magnetic field for Io. We compare our results with particle and field measurements made during the December 7, 1995, flyby of to, as published by the Galileo Orbiter experiment teams. For two extreme cases of lower boundary conditions at Io, our model can quantitatively explain the variation of density along the spacecraft trajectory and can reproduce the general appearance of the variations of magnetic field and ion pressure and temperature. The net fresh ion mass-loading rates are in the range of approximately 300-650 kg/s, and equivalent charge exchange mass-loading rates are in the range approximately 540-1150 kg/s in the vicinity of Io.

  5. Multigrid solution strategies for adaptive meshing problems

    NASA Technical Reports Server (NTRS)

    Mavriplis, Dimitri J.

    1995-01-01

    This paper discusses the issues which arise when combining multigrid strategies with adaptive meshing techniques for solving steady-state problems on unstructured meshes. A basic strategy is described, and demonstrated by solving several inviscid and viscous flow cases. Potential inefficiencies in this basic strategy are exposed, and various alternate approaches are discussed, some of which are demonstrated with an example. Although each particular approach exhibits certain advantages, all methods have particular drawbacks, and the formulation of a completely optimal strategy is considered to be an open problem.

  6. GRChombo: Numerical relativity with adaptive mesh refinement

    NASA Astrophysics Data System (ADS)

    Clough, Katy; Figueras, Pau; Finkel, Hal; Kunesch, Markus; Lim, Eugene A.; Tunyasuvunakool, Saran

    2015-12-01

    In this work, we introduce {\\mathtt{GRChombo}}: a new numerical relativity code which incorporates full adaptive mesh refinement (AMR) using block structured Berger-Rigoutsos grid generation. The code supports non-trivial ‘many-boxes-in-many-boxes’ mesh hierarchies and massive parallelism through the message passing interface. {\\mathtt{GRChombo}} evolves the Einstein equation using the standard BSSN formalism, with an option to turn on CCZ4 constraint damping if required. The AMR capability permits the study of a range of new physics which has previously been computationally infeasible in a full 3 + 1 setting, while also significantly simplifying the process of setting up the mesh for these problems. We show that {\\mathtt{GRChombo}} can stably and accurately evolve standard spacetimes such as binary black hole mergers and scalar collapses into black holes, demonstrate the performance characteristics of our code, and discuss various physics problems which stand to benefit from the AMR technique.

  7. Anisotropic mesh adaptation on Lagrangian Coherent Structures

    NASA Astrophysics Data System (ADS)

    Miron, Philippe; Vétel, Jérôme; Garon, André; Delfour, Michel; Hassan, Mouhammad El

    2012-08-01

    The finite-time Lyapunov exponent (FTLE) is extensively used as a criterion to reveal fluid flow structures, including unsteady separation/attachment surfaces and vortices, in laminar and turbulent flows. However, for large and complex problems, flow structure identification demands computational methodologies that are more accurate and effective. With this objective in mind, we propose a new set of ordinary differential equations to compute the flow map, along with its first (gradient) and second order (Hessian) spatial derivatives. We show empirically that the gradient of the flow map computed in this way improves the pointwise accuracy of the FTLE field. Furthermore, the Hessian allows for simple interpolation error estimation of the flow map, and the construction of a continuous optimal and multiscale Lp metric. The Lagrangian particles, or nodes, are then iteratively adapted on the flow structures revealed by this metric. Typically, the L1 norm provides meshes best suited to capturing small scale structures, while the L∞ norm provides meshes optimized to capture large scale structures. This means that the mesh density near large scale structures will be greater with the L∞ norm than with the L1 norm for the same mesh complexity, which is why we chose this technique for this paper. We use it to optimize the mesh in the vicinity of LCS. It is found that Lagrangian Coherent Structures are best revealed with the minimum number of vertices with the L∞ metric.

  8. Details of tetrahedral anisotropic mesh adaptation

    NASA Astrophysics Data System (ADS)

    Jensen, Kristian Ejlebjerg; Gorman, Gerard

    2016-04-01

    We have implemented tetrahedral anisotropic mesh adaptation using the local operations of coarsening, swapping, refinement and smoothing in MATLAB without the use of any for- N loops, i.e. the script is fully vectorised. In the process of doing so, we have made three observations related to details of the implementation: 1. restricting refinement to a single edge split per element not only simplifies the code, it also improves mesh quality, 2. face to edge swapping is unnecessary, and 3. optimising for the Vassilevski functional tends to give a little higher value for the mean condition number functional than optimising for the condition number functional directly. These observations have been made for a uniform and a radial shock metric field, both starting from a structured mesh in a cube. Finally, we compare two coarsening techniques and demonstrate the importance of applying smoothing in the mesh adaptation loop. The results pertain to a unit cube geometry, but we also show the effect of corners and edges by applying the implementation in a spherical geometry.

  9. Electrostatic PIC with adaptive Cartesian mesh

    NASA Astrophysics Data System (ADS)

    Kolobov, Vladimir; Arslanbekov, Robert

    2016-05-01

    We describe an initial implementation of an electrostatic Particle-in-Cell (ES-PIC) module with adaptive Cartesian mesh in our Unified Flow Solver framework. Challenges of PIC method with cell-based adaptive mesh refinement (AMR) are related to a decrease of the particle-per-cell number in the refined cells with a corresponding increase of the numerical noise. The developed ES-PIC solver is validated for capacitively coupled plasma, its AMR capabilities are demonstrated for simulations of streamer development during high-pressure gas breakdown. It is shown that cell-based AMR provides a convenient particle management algorithm for exponential multiplications of electrons and ions in the ionization events.

  10. PLUM: Parallel Load Balancing for Adaptive Unstructured Meshes

    NASA Technical Reports Server (NTRS)

    Oliker, Leonid; Biswas, Rupak; Saini, Subhash (Technical Monitor)

    1998-01-01

    Mesh adaption is a powerful tool for efficient unstructured-grid computations but causes load imbalance among processors on a parallel machine. We present a novel method called PLUM to dynamically balance the processor workloads with a global view. This paper presents the implementation and integration of all major components within our dynamic load balancing strategy for adaptive grid calculations. Mesh adaption, repartitioning, processor assignment, and remapping are critical components of the framework that must be accomplished rapidly and efficiently so as not to cause a significant overhead to the numerical simulation. A data redistribution model is also presented that predicts the remapping cost on the SP2. This model is required to determine whether the gain from a balanced workload distribution offsets the cost of data movement. Results presented in this paper demonstrate that PLUM is an effective dynamic load balancing strategy which remains viable on a large number of processors.

  11. Visualization of adaptive mesh refinement data

    NASA Astrophysics Data System (ADS)

    Weber, Gunther H.; Hagen, Hans; Hamann, Bernd; Joy, Kenneth I.; Ligocki, Terry J.; Ma, Kwan-Liu; Shalf, John M.

    2001-05-01

    The complexity of physical phenomena often varies substantially over space and time. There can be regions where a physical phenomenon/quantity varies very little over a large extent. At the same time, there can be small regions where the same quantity exhibits highly complex variations. Adaptive mesh refinement (AMR) is a technique used in computational fluid dynamics to simulate phenomena with drastically varying scales concerning the complexity of the simulated variables. Using multiple nested grids of different resolutions, AMR combines the topological simplicity of structured-rectilinear grids, permitting efficient computational and storage, with the possibility to adapt grid resolutions in regions of complex behavior. We present methods for direct volume rendering of AMR data. Our methods utilize AMR grids directly for efficiency of the visualization process. We apply a hardware-accelerated rendering method to AMR data supporting interactive manipulation of color-transfer functions and viewing parameters. We also present a cell-projection-based rendering technique for AMR data.

  12. Structured Adaptive Mesh Refinement Application Infrastructure

    SciTech Connect

    2010-07-15

    SAMRAI is an object-oriented support library for structured adaptice mesh refinement (SAMR) simulation of computational science problems, modeled by systems of partial differential equations (PDEs). SAMRAI is developed and maintained in the Center for Applied Scientific Computing (CASC) under ASCI ITS and PSE support. SAMRAI is used in a variety of application research efforts at LLNL and in academia. These applications are developed in collaboration with SAMRAI development team members.

  13. An adaptive mesh-moving and refinement procedure for one-dimensional conservation laws

    NASA Technical Reports Server (NTRS)

    Biswas, Rupak; Flaherty, Joseph E.; Arney, David C.

    1993-01-01

    We examine the performance of an adaptive mesh-moving and /or local mesh refinement procedure for the finite difference solution of one-dimensional hyperbolic systems of conservation laws. Adaptive motion of a base mesh is designed to isolate spatially distinct phenomena, and recursive local refinement of the time step and cells of the stationary or moving base mesh is performed in regions where a refinement indicator exceeds a prescribed tolerance. These adaptive procedures are incorporated into a computer code that includes a MacCormack finite difference scheme wih Davis' artificial viscosity model and a discretization error estimate based on Richardson's extrapolation. Experiments are conducted on three problems in order to qualify the advantages of adaptive techniques relative to uniform mesh computations and the relative benefits of mesh moving and refinement. Key results indicate that local mesh refinement, with and without mesh moving, can provide reliable solutions at much lower computational cost than possible on uniform meshes; that mesh motion can be used to improve the results of uniform mesh solutions for a modest computational effort; that the cost of managing the tree data structure associated with refinement is small; and that a combination of mesh motion and refinement reliably produces solutions for the least cost per unit accuracy.

  14. Adaptive Meshing Techniques for Viscous Flow Calculations on Mixed Element Unstructured Meshes

    NASA Technical Reports Server (NTRS)

    Mavriplis, D. J.

    1997-01-01

    An adaptive refinement strategy based on hierarchical element subdivision is formulated and implemented for meshes containing arbitrary mixtures of tetrahendra, hexahendra, prisms and pyramids. Special attention is given to keeping memory overheads as low as possible. This procedure is coupled with an algebraic multigrid flow solver which operates on mixed-element meshes. Inviscid flows as well as viscous flows are computed an adaptively refined tetrahedral, hexahedral, and hybrid meshes. The efficiency of the method is demonstrated by generating an adapted hexahedral mesh containing 3 million vertices on a relatively inexpensive workstation.

  15. COSMOLOGICAL ADAPTIVE MESH REFINEMENT MAGNETOHYDRODYNAMICS WITH ENZO

    SciTech Connect

    Collins, David C.; Xu Hao; Norman, Michael L.; Li Hui; Li Shengtai

    2010-02-01

    In this work, we present EnzoMHD, the extension of the cosmological code Enzo to include the effects of magnetic fields through the ideal magnetohydrodynamics approximation. We use a higher order Godunov method for the computation of interface fluxes. We use two constrained transport methods to compute the electric field from those interface fluxes, which simultaneously advances the induction equation and maintains the divergence of the magnetic field. A second-order divergence-free reconstruction technique is used to interpolate the magnetic fields in the block-structured adaptive mesh refinement framework already extant in Enzo. This reconstruction also preserves the divergence of the magnetic field to machine precision. We use operator splitting to include gravity and cosmological expansion. We then present a series of cosmological and non-cosmological test problems to demonstrate the quality of solution resulting from this combination of solvers.

  16. Visualization of Scalar Adaptive Mesh Refinement Data

    SciTech Connect

    VACET; Weber, Gunther; Weber, Gunther H.; Beckner, Vince E.; Childs, Hank; Ligocki, Terry J.; Miller, Mark C.; Van Straalen, Brian; Bethel, E. Wes

    2007-12-06

    Adaptive Mesh Refinement (AMR) is a highly effective computation method for simulations that span a large range of spatiotemporal scales, such as astrophysical simulations, which must accommodate ranges from interstellar to sub-planetary. Most mainstream visualization tools still lack support for AMR grids as a first class data type and AMR code teams use custom built applications for AMR visualization. The Department of Energy's (DOE's) Science Discovery through Advanced Computing (SciDAC) Visualization and Analytics Center for Enabling Technologies (VACET) is currently working on extending VisIt, which is an open source visualization tool that accommodates AMR as a first-class data type. These efforts will bridge the gap between general-purpose visualization applications and highly specialized AMR visual analysis applications. Here, we give an overview of the state of the art in AMR scalar data visualization research.

  17. Visualization Tools for Adaptive Mesh Refinement Data

    SciTech Connect

    Weber, Gunther H.; Beckner, Vincent E.; Childs, Hank; Ligocki,Terry J.; Miller, Mark C.; Van Straalen, Brian; Bethel, E. Wes

    2007-05-09

    Adaptive Mesh Refinement (AMR) is a highly effective method for simulations that span a large range of spatiotemporal scales, such as astrophysical simulations that must accommodate ranges from interstellar to sub-planetary. Most mainstream visualization tools still lack support for AMR as a first class data type and AMR code teams use custom built applications for AMR visualization. The Department of Energy's (DOE's) Science Discovery through Advanced Computing (SciDAC) Visualization and Analytics Center for Enabling Technologies (VACET) is currently working on extending VisIt, which is an open source visualization tool that accommodates AMR as a first-class data type. These efforts will bridge the gap between general-purpose visualization applications and highly specialized AMR visual analysis applications. Here, we give an overview of the state of the art in AMR visualization research and tools and describe how VisIt currently handles AMR data.

  18. Adaptive Mesh Refinement Simulations of Relativistic Binaries

    NASA Astrophysics Data System (ADS)

    Motl, Patrick M.; Anderson, M.; Lehner, L.; Olabarrieta, I.; Tohline, J. E.; Liebling, S. L.; Rahman, T.; Hirschman, E.; Neilsen, D.

    2006-09-01

    We present recent results from our efforts to evolve relativistic binaries composed of compact objects. We simultaneously solve the general relativistic hydrodynamics equations to evolve the material components of the binary and Einstein's equations to evolve the space-time. These two codes are coupled through an adaptive mesh refinement driver (had). One of the ultimate goals of this project is to address the merger of a neutron star and black hole and assess the possible observational signature of such systems as gamma ray bursts. This work has been supported in part by NSF grants AST 04-07070 and PHY 03-26311 and in part through NASA's ATP program grant NAG5-13430. The computations were performed primarily at NCSA through grant MCA98N043 and at LSU's Center for Computation & Technology.

  19. Elliptic Solvers for Adaptive Mesh Refinement Grids

    SciTech Connect

    Quinlan, D.J.; Dendy, J.E., Jr.; Shapira, Y.

    1999-06-03

    We are developing multigrid methods that will efficiently solve elliptic problems with anisotropic and discontinuous coefficients on adaptive grids. The final product will be a library that provides for the simplified solution of such problems. This library will directly benefit the efforts of other Laboratory groups. The focus of this work is research on serial and parallel elliptic algorithms and the inclusion of our black-box multigrid techniques into this new setting. The approach applies the Los Alamos object-oriented class libraries that greatly simplify the development of serial and parallel adaptive mesh refinement applications. In the final year of this LDRD, we focused on putting the software together; in particular we completed the final AMR++ library, we wrote tutorials and manuals, and we built example applications. We implemented the Fast Adaptive Composite Grid method as the principal elliptic solver. We presented results at the Overset Grid Conference and other more AMR specific conferences. We worked on optimization of serial and parallel performance and published several papers on the details of this work. Performance remains an important issue and is the subject of continuing research work.

  20. Tetrahedral and Hexahedral Mesh Adaptation for CFD Problems

    NASA Technical Reports Server (NTRS)

    Biswas, Rupak; Strawn, Roger C.; Chancellor, Marisa K. (Technical Monitor)

    1997-01-01

    This paper presents two unstructured mesh adaptation schemes for problems in computational fluid dynamics. The procedures allow localized grid refinement and coarsening to efficiently capture aerodynamic flow features of interest. The first procedure is for purely tetrahedral grids; unfortunately, repeated anisotropic adaptation may significantly deteriorate the quality of the mesh. Hexahedral elements, on the other hand, can be subdivided anisotropically without mesh quality problems. Furthermore, hexahedral meshes yield more accurate solutions than their tetrahedral counterparts for the same number of edges. Both the tetrahedral and hexahedral mesh adaptation procedures use edge-based data structures that facilitate efficient subdivision by allowing individual edges to be marked for refinement or coarsening. However, for hexahedral adaptation, pyramids, prisms, and tetrahedra are used as buffer elements between refined and unrefined regions to eliminate hanging vertices. Computational results indicate that the hexahedral adaptation procedure is a viable alternative to adaptive tetrahedral schemes.

  1. Mesh adaptation technique for Fourier-domain fluorescence lifetime imaging

    SciTech Connect

    Soloviev, Vadim Y.

    2006-11-15

    A novel adaptive mesh technique in the Fourier domain is introduced for problems in fluorescence lifetime imaging. A dynamical adaptation of the three-dimensional scheme based on the finite volume formulation reduces computational time and balances the ill-posed nature of the inverse problem. Light propagation in the medium is modeled by the telegraph equation, while the lifetime reconstruction algorithm is derived from the Fredholm integral equation of the first kind. Stability and computational efficiency of the method are demonstrated by image reconstruction of two spherical fluorescent objects embedded in a tissue phantom.

  2. A parallel adaptive mesh refinement algorithm

    NASA Technical Reports Server (NTRS)

    Quirk, James J.; Hanebutte, Ulf R.

    1993-01-01

    Over recent years, Adaptive Mesh Refinement (AMR) algorithms which dynamically match the local resolution of the computational grid to the numerical solution being sought have emerged as powerful tools for solving problems that contain disparate length and time scales. In particular, several workers have demonstrated the effectiveness of employing an adaptive, block-structured hierarchical grid system for simulations of complex shock wave phenomena. Unfortunately, from the parallel algorithm developer's viewpoint, this class of scheme is quite involved; these schemes cannot be distilled down to a small kernel upon which various parallelizing strategies may be tested. However, because of their block-structured nature such schemes are inherently parallel, so all is not lost. In this paper we describe the method by which Quirk's AMR algorithm has been parallelized. This method is built upon just a few simple message passing routines and so it may be implemented across a broad class of MIMD machines. Moreover, the method of parallelization is such that the original serial code is left virtually intact, and so we are left with just a single product to support. The importance of this fact should not be underestimated given the size and complexity of the original algorithm.

  3. Parallelization of GeoClaw code for modeling geophysical flows with adaptive mesh refinement on many-core systems

    USGS Publications Warehouse

    Zhang, S.; Yuen, D.A.; Zhu, A.; Song, S.; George, D.L.

    2011-01-01

    We parallelized the GeoClaw code on one-level grid using OpenMP in March, 2011 to meet the urgent need of simulating tsunami waves at near-shore from Tohoku 2011 and achieved over 75% of the potential speed-up on an eight core Dell Precision T7500 workstation [1]. After submitting that work to SC11 - the International Conference for High Performance Computing, we obtained an unreleased OpenMP version of GeoClaw from David George, who developed the GeoClaw code as part of his PH.D thesis. In this paper, we will show the complementary characteristics of the two approaches used in parallelizing GeoClaw and the speed-up obtained by combining the advantage of each of the two individual approaches with adaptive mesh refinement (AMR), demonstrating the capabilities of running GeoClaw efficiently on many-core systems. We will also show a novel simulation of the Tohoku 2011 Tsunami waves inundating the Sendai airport and Fukushima Nuclear Power Plants, over which the finest grid distance of 20 meters is achieved through a 4-level AMR. This simulation yields quite good predictions about the wave-heights and travel time of the tsunami waves. ?? 2011 IEEE.

  4. AMR++: Object-Oriented Parallel Adaptive Mesh Refinement

    SciTech Connect

    Quinlan, D.; Philip, B.

    2000-02-02

    Adaptive mesh refinement (AMR) computations are complicated by their dynamic nature. The development of solvers for realistic applications is complicated by both the complexity of the AMR and the geometry of realistic problem domains. The additional complexity of distributed memory parallelism within such AMR applications most commonly exceeds the level of complexity that can be reasonable maintained with traditional approaches toward software development. This paper will present the details of our object-oriented work on the simplification of the use of adaptive mesh refinement on applications with complex geometries for both serial and distributed memory parallel computation. We will present an independent set of object-oriented abstractions (C++ libraries) well suited to the development of such seemingly intractable scientific computations. As an example of the use of this object-oriented approach we will present recent results of an application modeling fluid flow in the eye. Within this example, the geometry is too complicated for a single curvilinear coordinate grid and so a set of overlapping curvilinear coordinate grids' are used. Adaptive mesh refinement and the required grid generation work to support the refinement process is coupled together in the solution of essentially elliptic equations within this domain. This paper will focus on the management of complexity within development of the AMR++ library which forms a part of the Overture object-oriented framework for the solution of partial differential equations within scientific computing.

  5. Fully implicit adaptive mesh refinement algorithm for reduced MHD

    NASA Astrophysics Data System (ADS)

    Philip, Bobby; Pernice, Michael; Chacon, Luis

    2006-10-01

    In the macroscopic simulation of plasmas, the numerical modeler is faced with the challenge of dealing with multiple time and length scales. Traditional approaches based on explicit time integration techniques and fixed meshes are not suitable for this challenge, as such approaches prevent the modeler from using realistic plasma parameters to keep the computation feasible. We propose here a novel approach, based on implicit methods and structured adaptive mesh refinement (SAMR). Our emphasis is on both accuracy and scalability with the number of degrees of freedom. As a proof-of-principle, we focus on the reduced resistive MHD model as a basic MHD model paradigm, which is truly multiscale. The approach taken here is to adapt mature physics-based technology to AMR grids, and employ AMR-aware multilevel techniques (such as fast adaptive composite grid --FAC-- algorithms) for scalability. We demonstrate that the concept is indeed feasible, featuring near-optimal scalability under grid refinement. Results of fully-implicit, dynamically-adaptive AMR simulations in challenging dissipation regimes will be presented on a variety of problems that benefit from this capability, including tearing modes, the island coalescence instability, and the tilt mode instability. L. Chac'on et al., J. Comput. Phys. 178 (1), 15- 36 (2002) B. Philip, M. Pernice, and L. Chac'on, Lecture Notes in Computational Science and Engineering, accepted (2006)

  6. Elliptic Solvers with Adaptive Mesh Refinement on Complex Geometries

    SciTech Connect

    Phillip, B.

    2000-07-24

    Adaptive Mesh Refinement (AMR) is a numerical technique for locally tailoring the resolution computational grids. Multilevel algorithms for solving elliptic problems on adaptive grids include the Fast Adaptive Composite grid method (FAC) and its parallel variants (AFAC and AFACx). Theory that confirms the independence of the convergence rates of FAC and AFAC on the number of refinement levels exists under certain ellipticity and approximation property conditions. Similar theory needs to be developed for AFACx. The effectiveness of multigrid-based elliptic solvers such as FAC, AFAC, and AFACx on adaptively refined overlapping grids is not clearly understood. Finally, a non-trivial eye model problem will be solved by combining the power of using overlapping grids for complex moving geometries, AMR, and multilevel elliptic solvers.

  7. Procedure for Adapting Direct Simulation Monte Carlo Meshes

    NASA Technical Reports Server (NTRS)

    Woronowicz, Michael S.; Wilmoth, Richard G.; Carlson, Ann B.; Rault, Didier F. G.

    1992-01-01

    A technique is presented for adapting computational meshes used in the G2 version of the direct simulation Monte Carlo method. The physical ideas underlying the technique are discussed, and adaptation formulas are developed for use on solutions generated from an initial mesh. The effect of statistical scatter on adaptation is addressed, and results demonstrate the ability of this technique to achieve more accurate results without increasing necessary computational resources.

  8. Adaptive mesh refinement for stochastic reaction-diffusion processes

    SciTech Connect

    Bayati, Basil; Chatelain, Philippe; Koumoutsakos, Petros

    2011-01-01

    We present an algorithm for adaptive mesh refinement applied to mesoscopic stochastic simulations of spatially evolving reaction-diffusion processes. The transition rates for the diffusion process are derived on adaptive, locally refined structured meshes. Convergence of the diffusion process is presented and the fluctuations of the stochastic process are verified. Furthermore, a refinement criterion is proposed for the evolution of the adaptive mesh. The method is validated in simulations of reaction-diffusion processes as described by the Fisher-Kolmogorov and Gray-Scott equations.

  9. Adaptive-mesh algorithms for computational fluid dynamics

    NASA Technical Reports Server (NTRS)

    Powell, Kenneth G.; Roe, Philip L.; Quirk, James

    1993-01-01

    The basic goal of adaptive-mesh algorithms is to distribute computational resources wisely by increasing the resolution of 'important' regions of the flow and decreasing the resolution of regions that are less important. While this goal is one that is worthwhile, implementing schemes that have this degree of sophistication remains more of an art than a science. In this paper, the basic pieces of adaptive-mesh algorithms are described and some of the possible ways to implement them are discussed and compared. These basic pieces are the data structure to be used, the generation of an initial mesh, the criterion to be used to adapt the mesh to the solution, and the flow-solver algorithm on the resulting mesh. Each of these is discussed, with particular emphasis on methods suitable for the computation of compressible flows.

  10. Serial and parallel dynamic adaptation of general hybrid meshes

    NASA Astrophysics Data System (ADS)

    Kavouklis, Christos

    The Navier-Stokes equations are a standard mathematical representation of viscous fluid flow. Their numerical solution in three dimensions remains a computationally intensive and challenging task, despite recent advances in computer speed and memory. A strategy to increase accuracy of Navier-Stokes simulations, while maintaining computing resources to a minimum, is local refinement of the associated computational mesh in regions of large solution gradients and coarsening in regions where the solution does not vary appreciably. In this work we consider adaptation of general hybrid meshes for Computational Fluid Dynamics (CFD) applications. Hybrid meshes are composed of four types of elements; hexahedra, prisms, pyramids and tetrahedra, and have been proven a promising technology in accurately resolving fluid flow for complex geometries. The first part of this dissertation is concerned with the design and implementation of a serial scheme for the adaptation of general three dimensional hybrid meshes. We have defined 29 refinement types, for all four kinds of elements. The core of the present adaptation scheme is an iterative algorithm that flags mesh edges for refinement, so that the adapted mesh is conformal. Of primary importance is considered the design of a suitable dynamic data structure that facilitates refinement and coarsening operations and furthermore minimizes memory requirements. A special dynamic list is defined for mesh elements, in contrast with the usual tree structures. It contains only elements of the current adaptation step and minimal information that is utilized to reconstruct parent elements when the mesh is coarsened. In the second part of this work, a new parallel dynamic mesh adaptation and load balancing algorithm for general hybrid meshes is presented. Partitioning of a hybrid mesh reduces to partitioning of the corresponding dual graph. Communication among processors is based on the faces of the interpartition boundary. The distributed

  11. Content-Adaptive Finite Element Mesh Generation of 3-D Complex MR Volumes for Bioelectromagnetic Problems.

    PubMed

    Lee, W; Kim, T-S; Cho, M; Lee, S

    2005-01-01

    In studying bioelectromagnetic problems, finite element method offers several advantages over other conventional methods such as boundary element method. It allows truly volumetric analysis and incorporation of material properties such as anisotropy. Mesh generation is the first requirement in the finite element analysis and there are many different approaches in mesh generation. However conventional approaches offered by commercial packages and various algorithms do not generate content-adaptive meshes, resulting in numerous elements in the smaller volume regions, thereby increasing computational load and demand. In this work, we present an improved content-adaptive mesh generation scheme that is efficient and fast along with options to change the contents of meshes. For demonstration, mesh models of the head from a volume MRI are presented in 2-D and 3-D.

  12. FLY: a Tree Code for Adaptive Mesh Refinement

    NASA Astrophysics Data System (ADS)

    Becciani, U.; Antonuccio-Delogu, V.; Costa, A.; Ferro, D.

    FLY is a public domain parallel treecode, which makes heavy use of the one-sided communication paradigm to handle the management of the tree structure. It implements the equations for cosmological evolution and can be run for different cosmological models. This paper shows an example of the integration of a tree N-body code with an adaptive mesh, following the PARAMESH scheme. This new implementation will allow the FLY output, and more generally any binary output, to be used with any hydrodynamics code that adopts the PARAMESH data structure, to study compressible flow problems.

  13. An Efficient Dynamically Adaptive Mesh for Potentially Singular Solutions

    NASA Astrophysics Data System (ADS)

    Ceniceros, Hector D.; Hou, Thomas Y.

    2001-09-01

    We develop an efficient dynamically adaptive mesh generator for time-dependent problems in two or more dimensions. The mesh generator is motivated by the variational approach and is based on solving a new set of nonlinear elliptic PDEs for the mesh map. When coupled to a physical problem, the mesh map evolves with the underlying solution and maintains high adaptivity as the solution develops complicated structures and even singular behavior. The overall mesh strategy is simple to implement, avoids interpolation, and can be easily incorporated into a broad range of applications. The efficacy of the mesh is first demonstrated by two examples of blowing-up solutions to the 2-D semilinear heat equation. These examples show that the mesh can follow with high adaptivity a finite-time singularity process. The focus of applications presented here is however the baroclinic generation of vorticity in a strongly layered 2-D Boussinesq fluid, a challenging problem. The moving mesh follows effectively the flow resolving both its global features and the almost singular shear layers developed dynamically. The numerical results show the fast collapse to small scales and an exponential vorticity growth.

  14. Parallel adaptive mesh refinement for electronic structure calculations

    SciTech Connect

    Kohn, S.; Weare, J.; Ong, E.; Baden, S.

    1996-12-01

    We have applied structured adaptive mesh refinement techniques to the solution of the LDA equations for electronic structure calculations. Local spatial refinement concentrates memory resources and numerical effort where it is most needed, near the atomic centers and in regions of rapidly varying charge density. The structured grid representation enables us to employ efficient iterative solver techniques such as conjugate gradients with multigrid preconditioning. We have parallelized our solver using an object-oriented adaptive mesh refinement framework.

  15. Adaptive Mesh Enrichment for the Poisson-Boltzmann Equation

    NASA Astrophysics Data System (ADS)

    Dyshlovenko, Pavel

    2001-09-01

    An adaptive mesh enrichment procedure for a finite-element solution of the two-dimensional Poisson-Boltzmann equation is described. The mesh adaptation is performed by subdividing the cells using information obtained in the previous step of the solution and next rearranging the mesh to be a Delaunay triangulation. The procedure allows the gradual improvement of the quality of the solution and adjustment of the geometry of the problem. The performance of the proposed approach is illustrated by applying it to the problem of two identical colloidal particles in a symmetric electrolyte.

  16. 3D Finite Element Trajectory Code with Adaptive Meshing

    NASA Astrophysics Data System (ADS)

    Ives, Lawrence; Bui, Thuc; Vogler, William; Bauer, Andy; Shephard, Mark; Beal, Mark; Tran, Hien

    2004-11-01

    Beam Optics Analysis, a new, 3D charged particle program is available and in use for the design of complex, 3D electron guns and charged particle devices. The code reads files directly from most CAD and solid modeling programs, includes an intuitive Graphical User Interface (GUI), and a robust mesh generator that is fully automatic. Complex problems can be set up, and analysis initiated in minutes. The program includes a user-friendly post processor for displaying field and trajectory data using 3D plots and images. The electrostatic solver is based on the standard nodal finite element method. The magnetostatic field solver is based on the vector finite element method and is also called during the trajectory simulation process to solve for self magnetic fields. The user imports the geometry from essentially any commercial CAD program and uses the GUI to assign parameters (voltages, currents, dielectric constant) and designate emitters (including work function, emitter temperature, and number of trajectories). The the mesh is generated automatically and analysis is performed, including mesh adaptation to improve accuracy and optimize computational resources. This presentation will provide information on the basic structure of the code, its operation, and it's capabilities.

  17. Adaptive superposition of finite element meshes in linear and nonlinear dynamic analysis

    NASA Astrophysics Data System (ADS)

    Yue, Zhihua

    2005-11-01

    The numerical analysis of transient phenomena in solids, for instance, wave propagation and structural dynamics, is a very important and active area of study in engineering. Despite the current evolutionary state of modern computer hardware, practical analysis of large scale, nonlinear transient problems requires the use of adaptive methods where computational resources are locally allocated according to the interpolation requirements of the solution form. Adaptive analysis of transient problems involves obtaining solutions at many different time steps, each of which requires a sequence of adaptive meshes. Therefore, the execution speed of the adaptive algorithm is of paramount importance. In addition, transient problems require that the solution must be passed from one adaptive mesh to the next adaptive mesh with a bare minimum of solution-transfer error since this form of error compromises the initial conditions used for the next time step. A new adaptive finite element procedure (s-adaptive) is developed in this study for modeling transient phenomena in both linear elastic solids and nonlinear elastic solids caused by progressive damage. The adaptive procedure automatically updates the time step size and the spatial mesh discretization in transient analysis, achieving the accuracy and the efficiency requirements simultaneously. The novel feature of the s-adaptive procedure is the original use of finite element mesh superposition to produce spatial refinement in transient problems. The use of mesh superposition enables the s-adaptive procedure to completely avoid the need for cumbersome multipoint constraint algorithms and mesh generators, which makes the s-adaptive procedure extremely fast. Moreover, the use of mesh superposition enables the s-adaptive procedure to minimize the solution-transfer error. In a series of different solid mechanics problem types including 2-D and 3-D linear elastic quasi-static problems, 2-D material nonlinear quasi-static problems

  18. Methods and evaluations of MRI content-adaptive finite element mesh generation for bioelectromagnetic problems.

    PubMed

    Lee, W H; Kim, T-S; Cho, M H; Ahn, Y B; Lee, S Y

    2006-12-01

    In studying bioelectromagnetic problems, finite element analysis (FEA) offers several advantages over conventional methods such as the boundary element method. It allows truly volumetric analysis and incorporation of material properties such as anisotropic conductivity. For FEA, mesh generation is the first critical requirement and there exist many different approaches. However, conventional approaches offered by commercial packages and various algorithms do not generate content-adaptive meshes (cMeshes), resulting in numerous nodes and elements in modelling the conducting domain, and thereby increasing computational load and demand. In this work, we present efficient content-adaptive mesh generation schemes for complex biological volumes of MR images. The presented methodology is fully automatic and generates FE meshes that are adaptive to the geometrical contents of MR images, allowing optimal representation of conducting domain for FEA. We have also evaluated the effect of cMeshes on FEA in three dimensions by comparing the forward solutions from various cMesh head models to the solutions from the reference FE head model in which fine and equidistant FEs constitute the model. The results show that there is a significant gain in computation time with minor loss in numerical accuracy. We believe that cMeshes should be useful in the FEA of bioelectromagnetic problems.

  19. Adaptive Mesh Refinement Algorithms for Parallel Unstructured Finite Element Codes

    SciTech Connect

    Parsons, I D; Solberg, J M

    2006-02-03

    This project produced algorithms for and software implementations of adaptive mesh refinement (AMR) methods for solving practical solid and thermal mechanics problems on multiprocessor parallel computers using unstructured finite element meshes. The overall goal is to provide computational solutions that are accurate to some prescribed tolerance, and adaptivity is the correct path toward this goal. These new tools will enable analysts to conduct more reliable simulations at reduced cost, both in terms of analyst and computer time. Previous academic research in the field of adaptive mesh refinement has produced a voluminous literature focused on error estimators and demonstration problems; relatively little progress has been made on producing efficient implementations suitable for large-scale problem solving on state-of-the-art computer systems. Research issues that were considered include: effective error estimators for nonlinear structural mechanics; local meshing at irregular geometric boundaries; and constructing efficient software for parallel computing environments.

  20. PLUM: Parallel Load Balancing for Unstructured Adaptive Meshes

    NASA Technical Reports Server (NTRS)

    Oliker, Leonid

    1998-01-01

    Dynamic mesh adaption on unstructured grids is a powerful tool for computing large-scale problems that require grid modifications to efficiently resolve solution features. Unfortunately, an efficient parallel implementation is difficult to achieve, primarily due to the load imbalance created by the dynamically-changing nonuniform grid. To address this problem, we have developed PLUM, an automatic portable framework for performing adaptive large-scale numerical computations in a message-passing environment. First, we present an efficient parallel implementation of a tetrahedral mesh adaption scheme. Extremely promising parallel performance is achieved for various refinement and coarsening strategies on a realistic-sized domain. Next we describe PLUM, a novel method for dynamically balancing the processor workloads in adaptive grid computations. This research includes interfacing the parallel mesh adaption procedure based on actual flow solutions to a data remapping module, and incorporating an efficient parallel mesh repartitioner. A significant runtime improvement is achieved by observing that data movement for a refinement step should be performed after the edge-marking phase but before the actual subdivision. We also present optimal and heuristic remapping cost metrics that can accurately predict the total overhead for data redistribution. Several experiments are performed to verify the effectiveness of PLUM on sequences of dynamically adapted unstructured grids. Portability is demonstrated by presenting results on the two vastly different architectures of the SP2 and the Origin2OOO. Additionally, we evaluate the performance of five state-of-the-art partitioning algorithms that can be used within PLUM. It is shown that for certain classes of unsteady adaption, globally repartitioning the computational mesh produces higher quality results than diffusive repartitioning schemes. We also demonstrate that a coarse starting mesh produces high quality load balancing, at

  1. Adaptive upscaling with the dual mesh method

    SciTech Connect

    Guerillot, D.; Verdiere, S.

    1997-08-01

    The objective of this paper is to demonstrate that upscaling should be calculated during the flow simulation instead of trying to enhance the a priori upscaling methods. Hence, counter-examples are given to motivate our approach, the so-called Dual Mesh Method. The main steps of this numerical algorithm are recalled. Applications illustrate the necessity to consider different average relative permeability values depending on the direction in space. Moreover, these values could be different for the same average saturation. This proves that an a priori upscaling cannot be the answer even in homogeneous cases because of the {open_quotes}dynamical heterogeneity{close_quotes} created by the saturation profile. Other examples show the efficiency of the Dual Mesh Method applied to heterogeneous medium and to an actual field case in South America.

  2. ENZO: AN ADAPTIVE MESH REFINEMENT CODE FOR ASTROPHYSICS

    SciTech Connect

    Bryan, Greg L.; Turk, Matthew J.; Norman, Michael L.; Bordner, James; Xu, Hao; Kritsuk, Alexei G.; O'Shea, Brian W.; Smith, Britton; Abel, Tom; Wang, Peng; Skillman, Samuel W.; Wise, John H.; Reynolds, Daniel R.; Collins, David C.; Harkness, Robert P.; Kim, Ji-hoon; Kuhlen, Michael; Goldbaum, Nathan; Hummels, Cameron; Collaboration: Enzo Collaboration; and others

    2014-04-01

    This paper describes the open-source code Enzo, which uses block-structured adaptive mesh refinement to provide high spatial and temporal resolution for modeling astrophysical fluid flows. The code is Cartesian, can be run in one, two, and three dimensions, and supports a wide variety of physics including hydrodynamics, ideal and non-ideal magnetohydrodynamics, N-body dynamics (and, more broadly, self-gravity of fluids and particles), primordial gas chemistry, optically thin radiative cooling of primordial and metal-enriched plasmas (as well as some optically-thick cooling models), radiation transport, cosmological expansion, and models for star formation and feedback in a cosmological context. In addition to explaining the algorithms implemented, we present solutions for a wide range of test problems, demonstrate the code's parallel performance, and discuss the Enzo collaboration's code development methodology.

  3. Parallel paving: An algorithm for generating distributed, adaptive, all-quadrilateral meshes on parallel computers

    SciTech Connect

    Lober, R.R.; Tautges, T.J.; Vaughan, C.T.

    1997-03-01

    Paving is an automated mesh generation algorithm which produces all-quadrilateral elements. It can additionally generate these elements in varying sizes such that the resulting mesh adapts to a function distribution, such as an error function. While powerful, conventional paving is a very serial algorithm in its operation. Parallel paving is the extension of serial paving into parallel environments to perform the same meshing functions as conventional paving only on distributed, discretized models. This extension allows large, adaptive, parallel finite element simulations to take advantage of paving`s meshing capabilities for h-remap remeshing. A significantly modified version of the CUBIT mesh generation code has been developed to host the parallel paving algorithm and demonstrate its capabilities on both two dimensional and three dimensional surface geometries and compare the resulting parallel produced meshes to conventionally paved meshes for mesh quality and algorithm performance. Sandia`s {open_quotes}tiling{close_quotes} dynamic load balancing code has also been extended to work with the paving algorithm to retain parallel efficiency as subdomains undergo iterative mesh refinement.

  4. Adaptive mesh generation for viscous flows using Delaunay triangulation

    NASA Technical Reports Server (NTRS)

    Mavriplis, Dimitri J.

    1990-01-01

    A method for generating an unstructured triangular mesh in two dimensions, suitable for computing high Reynolds number flows over arbitrary configurations is presented. The method is based on a Delaunay triangulation, which is performed in a locally stretched space, in order to obtain very high aspect ratio triangles in the boundary layer and the wake regions. It is shown how the method can be coupled with an unstructured Navier-Stokes solver to produce a solution adaptive mesh generation procedure for viscous flows.

  5. Adaptive mesh generation for viscous flows using Delaunay triangulation

    NASA Technical Reports Server (NTRS)

    Mavriplis, Dimitri J.

    1988-01-01

    A method for generating an unstructured triangular mesh in two dimensions, suitable for computing high Reynolds number flows over arbitrary configurations is presented. The method is based on a Delaunay triangulation, which is performed in a locally stretched space, in order to obtain very high aspect ratio triangles in the boundary layer and the wake regions. It is shown how the method can be coupled with an unstructured Navier-Stokes solver to produce a solution adaptive mesh generation procedure for viscous flows.

  6. Parallel tetrahedral mesh adaptation with dynamic load balancing

    SciTech Connect

    Oliker, Leonid; Biswas, Rupak; Gabow, Harold N.

    2000-06-28

    The ability to dynamically adapt an unstructured grid is a powerful tool for efficiently solving computational problems with evolving physical features. In this paper, we report on our experience parallelizing an edge-based adaptation scheme, called 3D-TAG, using message passing. Results show excellent speedup when a realistic helicopter rotor mesh is randomly refined. However, performance deteriorates when the mesh is refined using a solution-based error indicator since mesh adaptation for practical problems occurs in a localized region, creating a severe load imbalance. To address this problem, we have developed PLUM, a global dynamic load balancing framework for adaptive numerical computations. Even though PLUM primarily balances processor workloads for the solution phase, it reduces the load imbalance problem within mesh adaptation by repartitioning the mesh after targeting edges for refinement but before the actual subdivision. This dramatically improves the performance of parallel 3D-TAG since refinement occurs in a more load balanced fashion. We also present optimal and heuristic algorithms that, when applied to the default mapping of a parallel repartitioner, significantly reduce the data redistribution overhead. Finally, portability is examined by comparing performance on three state-of-the-art parallel machines.

  7. Parallel Tetrahedral Mesh Adaptation with Dynamic Load Balancing

    NASA Technical Reports Server (NTRS)

    Oliker, Leonid; Biswas, Rupak; Gabow, Harold N.

    1999-01-01

    The ability to dynamically adapt an unstructured grid is a powerful tool for efficiently solving computational problems with evolving physical features. In this paper, we report on our experience parallelizing an edge-based adaptation scheme, called 3D_TAG. using message passing. Results show excellent speedup when a realistic helicopter rotor mesh is randomly refined. However. performance deteriorates when the mesh is refined using a solution-based error indicator since mesh adaptation for practical problems occurs in a localized region., creating a severe load imbalance. To address this problem, we have developed PLUM, a global dynamic load balancing framework for adaptive numerical computations. Even though PLUM primarily balances processor workloads for the solution phase, it reduces the load imbalance problem within mesh adaptation by repartitioning the mesh after targeting edges for refinement but before the actual subdivision. This dramatically improves the performance of parallel 3D_TAG since refinement occurs in a more load balanced fashion. We also present optimal and heuristic algorithms that, when applied to the default mapping of a parallel repartitioner, significantly reduce the data redistribution overhead. Finally, portability is examined by comparing performance on three state-of-the-art parallel machines.

  8. 3D Compressible Melt Transport with Adaptive Mesh Refinement

    NASA Astrophysics Data System (ADS)

    Dannberg, Juliane; Heister, Timo

    2015-04-01

    Melt generation and migration have been the subject of numerous investigations, but their typical time and length-scales are vastly different from mantle convection, which makes it difficult to study these processes in a unified framework. The equations that describe coupled Stokes-Darcy flow have been derived a long time ago and they have been successfully implemented and applied in numerical models (Keller et al., 2013). However, modelling magma dynamics poses the challenge of highly non-linear and spatially variable material properties, in particular the viscosity. Applying adaptive mesh refinement to this type of problems is particularly advantageous, as the resolution can be increased in mesh cells where melt is present and viscosity gradients are high, whereas a lower resolution is sufficient in regions without melt. In addition, previous models neglect the compressibility of both the solid and the fluid phase. However, experiments have shown that the melt density change from the depth of melt generation to the surface leads to a volume increase of up to 20%. Considering these volume changes in both phases also ensures self-consistency of models that strive to link melt generation to processes in the deeper mantle, where the compressibility of the solid phase becomes more important. We describe our extension of the finite-element mantle convection code ASPECT (Kronbichler et al., 2012) that allows for solving additional equations describing the behaviour of silicate melt percolating through and interacting with a viscously deforming host rock. We use the original compressible formulation of the McKenzie equations, augmented by an equation for the conservation of energy. This approach includes both melt migration and melt generation with the accompanying latent heat effects. We evaluate the functionality and potential of this method using a series of simple model setups and benchmarks, comparing results of the compressible and incompressible formulation and

  9. Adaptive moving mesh methods for simulating one-dimensional groundwater problems with sharp moving fronts

    USGS Publications Warehouse

    Huang, W.; Zheng, Lingyun; Zhan, X.

    2002-01-01

    Accurate modelling of groundwater flow and transport with sharp moving fronts often involves high computational cost, when a fixed/uniform mesh is used. In this paper, we investigate the modelling of groundwater problems using a particular adaptive mesh method called the moving mesh partial differential equation approach. With this approach, the mesh is dynamically relocated through a partial differential equation to capture the evolving sharp fronts with a relatively small number of grid points. The mesh movement and physical system modelling are realized by solving the mesh movement and physical partial differential equations alternately. The method is applied to the modelling of a range of groundwater problems, including advection dominated chemical transport and reaction, non-linear infiltration in soil, and the coupling of density dependent flow and transport. Numerical results demonstrate that sharp moving fronts can be accurately and efficiently captured by the moving mesh approach. Also addressed are important implementation strategies, e.g. the construction of the monitor function based on the interpolation error, control of mesh concentration, and two-layer mesh movement. Copyright ?? 2002 John Wiley and Sons, Ltd.

  10. Parallel adaptation of general three-dimensional hybrid meshes

    SciTech Connect

    Kavouklis, Christos Kallinderis, Yannis

    2010-05-01

    A new parallel dynamic mesh adaptation and load balancing algorithm for general hybrid grids has been developed. The meshes considered in this work are composed of four kinds of elements; tetrahedra, prisms, hexahedra and pyramids, which poses a challenge to parallel mesh adaptation. Additional complexity imposed by the presence of multiple types of elements affects especially data migration, updates of local data structures and interpartition data structures. Efficient partition of hybrid meshes has been accomplished by transforming them to suitable graphs and using serial graph partitioning algorithms. Communication among processors is based on the faces of the interpartition boundary and the termination detection algorithm of Dijkstra is employed to ensure proper flagging of edges for refinement. An inexpensive dynamic load balancing strategy is introduced to redistribute work load among processors after adaptation. In particular, only the initial coarse mesh, with proper weighting, is balanced which yields savings in computation time and relatively simple implementation of mesh quality preservation rules, while facilitating coarsening of refined elements. Special algorithms are employed for (i) data migration and dynamic updates of the local data structures, (ii) determination of the resulting interpartition boundary and (iii) identification of the communication pattern of processors. Several representative applications are included to evaluate the method.

  11. Adaptive meshing technique applied to an orthopaedic finite element contact problem.

    PubMed

    Roarty, Colleen M; Grosland, Nicole M

    2004-01-01

    Finite element methods have been applied extensively and with much success in the analysis of orthopaedic implants. Recently a growing interest has developed, in the orthopaedic biomechanics community, in how numerical models can be constructed for the optimal solution of problems in contact mechanics. New developments in this area are of paramount importance in the design of improved implants for orthopaedic surgery. Finite element and other computational techniques are widely applied in the analysis and design of hip and knee implants, with additional joints (ankle, shoulder, wrist) attracting increased attention. The objective of this investigation was to develop a simplified adaptive meshing scheme to facilitate the finite element analysis of a dual-curvature total wrist implant. Using currently available software, the analyst has great flexibility in mesh generation, but must prescribe element sizes and refinement schemes throughout the domain of interest. Unfortunately, it is often difficult to predict in advance a mesh spacing that will give acceptable results. Adaptive finite-element mesh capabilities operate to continuously refine the mesh to improve accuracy where it is required, with minimal intervention by the analyst. Such mesh adaptation generally means that in certain areas of the analysis domain, the size of the elements is decreased (or increased) and/or the order of the elements may be increased (or decreased). In concept, mesh adaptation is very appealing. Although there have been several previous applications of adaptive meshing for in-house FE codes, we have coupled an adaptive mesh formulation with the pre-existing commercial programs PATRAN (MacNeal-Schwendler Corp., USA) and ABAQUS (Hibbit Karlson and Sorensen, Pawtucket, RI). In doing so, we have retained several attributes of the commercial software, which are very attractive for orthopaedic implant applications.

  12. Dynamic mesh for TCAD modeling with ECORCE

    NASA Astrophysics Data System (ADS)

    Michez, A.; Boch, J.; Touboul, A.; Saigné, F.

    2016-08-01

    Mesh generation for TCAD modeling is challenging. Because densities of carriers can change by several orders of magnitude in thin areas, a significant change of the solution can be observed for two very similar meshes. The mesh must be defined at best to minimize this change. To address this issue, a criterion based on polynomial interpolation on adjacent nodes is proposed that adjusts accurately the mesh to the gradients of Degrees of Freedom. Furthermore, a dynamic mesh that follows changes of DF in DC and transient mode is a powerful tool for TCAD users. But, in transient modeling, adding nodes to a mesh induces oscillations in the solution that appears as spikes at the current collected at the contacts. This paper proposes two schemes that solve this problem. Examples show that using these techniques, the dynamic mesh generator of the TCAD tool ECORCE handle semiconductors devices in DC and transient mode.

  13. Adaptive mesh refinement and adjoint methods in geophysics simulations

    NASA Astrophysics Data System (ADS)

    Burstedde, Carsten

    2013-04-01

    It is an ongoing challenge to increase the resolution that can be achieved by numerical geophysics simulations. This applies to considering sub-kilometer mesh spacings in global-scale mantle convection simulations as well as to using frequencies up to 1 Hz in seismic wave propagation simulations. One central issue is the numerical cost, since for three-dimensional space discretizations, possibly combined with time stepping schemes, a doubling of resolution can lead to an increase in storage requirements and run time by factors between 8 and 16. A related challenge lies in the fact that an increase in resolution also increases the dimensionality of the model space that is needed to fully parametrize the physical properties of the simulated object (a.k.a. earth). Systems that exhibit a multiscale structure in space are candidates for employing adaptive mesh refinement, which varies the resolution locally. An example that we found well suited is the mantle, where plate boundaries and fault zones require a resolution on the km scale, while deeper area can be treated with 50 or 100 km mesh spacings. This approach effectively reduces the number of computational variables by several orders of magnitude. While in this case it is possible to derive the local adaptation pattern from known physical parameters, it is often unclear what are the most suitable criteria for adaptation. We will present the goal-oriented error estimation procedure, where such criteria are derived from an objective functional that represents the observables to be computed most accurately. Even though this approach is well studied, it is rarely used in the geophysics community. A related strategy to make finer resolution manageable is to design methods that automate the inference of model parameters. Tweaking more than a handful of numbers and judging the quality of the simulation by adhoc comparisons to known facts and observations is a tedious task and fundamentally limited by the turnaround times

  14. A structured multi-block solution-adaptive mesh algorithm with mesh quality assessment

    NASA Technical Reports Server (NTRS)

    Ingram, Clint L.; Laflin, Kelly R.; Mcrae, D. Scott

    1995-01-01

    The dynamic solution adaptive grid algorithm, DSAGA3D, is extended to automatically adapt 2-D structured multi-block grids, including adaption of the block boundaries. The extension is general, requiring only input data concerning block structure, connectivity, and boundary conditions. Imbedded grid singular points are permitted, but must be prevented from moving in space. Solutions for workshop cases 1 and 2 are obtained on multi-block grids and illustrate both increased resolution of and alignment with the solution. A mesh quality assessment criteria is proposed to determine how well a given mesh resolves and aligns with the solution obtained upon it. The criteria is used to evaluate the grid quality for solutions of workshop case 6 obtained on both static and dynamically adapted grids. The results indicate that this criteria shows promise as a means of evaluating resolution.

  15. A Spectral Adaptive Mesh Refinement Method for the Burgers equation

    NASA Astrophysics Data System (ADS)

    Nasr Azadani, Leila; Staples, Anne

    2013-03-01

    Adaptive mesh refinement (AMR) is a powerful technique in computational fluid dynamics (CFD). Many CFD problems have a wide range of scales which vary with time and space. In order to resolve all the scales numerically, high grid resolutions are required. The smaller the scales the higher the resolutions should be. However, small scales are usually formed in a small portion of the domain or in a special period of time. AMR is an efficient method to solve these types of problems, allowing high grid resolutions where and when they are needed and minimizing memory and CPU time. Here we formulate a spectral version of AMR in order to accelerate simulations of a 1D model for isotropic homogenous turbulence, the Burgers equation, as a first test of this method. Using pseudo spectral methods, we applied AMR in Fourier space. The spectral AMR (SAMR) method we present here is applied to the Burgers equation and the results are compared with the results obtained using standard solution methods performed using a fine mesh.

  16. 3D Compressible Melt Transport with Mesh Adaptivity

    NASA Astrophysics Data System (ADS)

    Dannberg, J.; Heister, T.

    2015-12-01

    Melt generation and migration have been the subject of numerous investigations. However, their typical time and length scales are vastly different from mantle convection, and the material properties are highly spatially variable and make the problem strongly non-linear. These challenges make it difficult to study these processes in a unified framework and in three dimensions. We present our extension of the mantle convection code ASPECT that allows for solving additional equations describing the behavior of melt percolating through and interacting with a viscously deforming host rock. One particular advantage is ASPECT's adaptive mesh refinement, as the resolution can be increased in areas where melt is present and viscosity gradients are steep, whereas a lower resolution is sufficient in regions without melt. Our approach includes both melt migration and melt generation, allowing for different melting parametrizations. In contrast to previous formulations, we consider the individual compressibilities of the solid and fluid phases in addition to compaction flow. This ensures self-consistency when linking melt generation to processes in the deeper mantle, where the compressibility of the solid phase becomes more important. We evaluate the functionality and potential of this method using a series of benchmarks and applications, including solitary waves, magmatic shear bands and melt generation and transport in a rising mantle plume. We compare results of the compressible and incompressible formulation and find melt volume differences of up to 15%. Moreover, we demonstrate that adaptive mesh refinement has the potential to reduce the runtime of a computation by more than one order of magnitude. Our model of magma dynamics provides a framework for investigating links between the deep mantle and melt generation and migration. This approach could prove particularly useful applied to modeling the generation of komatiites or other melts originating in greater depths.

  17. Kinetic solvers with adaptive mesh in phase space.

    PubMed

    Arslanbekov, Robert R; Kolobov, Vladimir I; Frolova, Anna A

    2013-12-01

    An adaptive mesh in phase space (AMPS) methodology has been developed for solving multidimensional kinetic equations by the discrete velocity method. A Cartesian mesh for both configuration (r) and velocity (v) spaces is produced using a "tree of trees" (ToT) data structure. The r mesh is automatically generated around embedded boundaries, and is dynamically adapted to local solution properties. The v mesh is created on-the-fly in each r cell. Mappings between neighboring v-space trees is implemented for the advection operator in r space. We have developed algorithms for solving the full Boltzmann and linear Boltzmann equations with AMPS. Several recent innovations were used to calculate the discrete Boltzmann collision integral with dynamically adaptive v mesh: the importance sampling, multipoint projection, and variance reduction methods. We have developed an efficient algorithm for calculating the linear Boltzmann collision integral for elastic and inelastic collisions of hot light particles in a Lorentz gas. Our AMPS technique has been demonstrated for simulations of hypersonic rarefied gas flows, ion and electron kinetics in weakly ionized plasma, radiation and light-particle transport through thin films, and electron streaming in semiconductors. We have shown that AMPS allows minimizing the number of cells in phase space to reduce the computational cost and memory usage for solving challenging kinetic problems.

  18. Adaptive anisotropic meshing for steady convection-dominated problems

    SciTech Connect

    Nguyen, Hoa; Gunzburger, Max; Ju, Lili; Burkardt, John

    2009-01-01

    Obtaining accurate solutions for convection–diffusion equations is challenging due to the presence of layers when convection dominates the diffusion. To solve this problem, we design an adaptive meshing algorithm which optimizes the alignment of anisotropic meshes with the numerical solution. Three main ingredients are used. First, the streamline upwind Petrov–Galerkin method is used to produce a stabilized solution. Second, an adapted metric tensor is computed from the approximate solution. Third, optimized anisotropic meshes are generated from the computed metric tensor by an anisotropic centroidal Voronoi tessellation algorithm. Our algorithm is tested on a variety of two-dimensional examples and the results shows that the algorithm is robust in detecting layers and efficient in avoiding non-physical oscillations in the numerical approximation.

  19. Adaptive surface meshing and multiresolution terrain depiction for SVS

    NASA Astrophysics Data System (ADS)

    Wiesemann, Thorsten; Schiefele, Jens; Kubbat, Wolfgang

    2001-08-01

    Many of today's and tomorrow's aviation applications demand accurate and reliable digital terrain elevation databases. Particularly future Vertical Cut Displays or 3D Synthetic Vision Systems (SVS) require accurate and hi-resolution data to offer a reliable terrain depiction. On the other hand, optimized or reduced terrain models are necessary to ensure real-time rendering and computing performance. In this paper a new method for adaptive terrain meshing and depiction for SVS is presented. The initial data set is decomposed by using a wavelet transform. By examining the wavelet coefficients, an adaptive surface approximation for various Level-of-Detail is determined. Additionally, the dyadic scaling of the wavelet transform is used to build a hierarchical quad-tree representation for the terrain data. This representation enhances fast interactive computations and real-time rendering methods. The proposed terrain representation is integrated into a standard navigation display. Due to the multi-resolution data organization, terrain depiction e.g. resolution is adaptive to a selected zooming level or flight phase. Moreover, the wavelet decomposition helps to define local regions of interest. A depicted terrain resolution has a finer grain nearby the current airplane position and gets coarser with increasing aircraft distance. In addition, flight critical regions can be depicted in a higher resolution.

  20. Adaptive mesh refinement for shocks and material interfaces

    SciTech Connect

    Dai, William Wenlong

    2010-01-01

    There are three kinds of adaptive mesh refinement (AMR) in structured meshes. Block-based AMR sometimes over refines meshes. Cell-based AMR treats cells cell by cell and thus loses the advantage of the nature of structured meshes. Patch-based AMR is intended to combine advantages of block- and cell-based AMR, i.e., the nature of structured meshes and sharp regions of refinement. But, patch-based AMR has its own difficulties. For example, patch-based AMR typically cannot preserve symmetries of physics problems. In this paper, we will present an approach for a patch-based AMR for hydrodynamics simulations. The approach consists of clustering, symmetry preserving, mesh continuity, flux correction, communications, management of patches, and load balance. The special features of this patch-based AMR include symmetry preserving, efficiency of refinement across shock fronts and material interfaces, special implementation of flux correction, and patch management in parallel computing environments. To demonstrate the capability of the AMR framework, we will show both two- and three-dimensional hydrodynamics simulations with many levels of refinement.

  1. An adaptive level set segmentation on a triangulated mesh.

    PubMed

    Xu, Meihe; Thompson, Paul M; Toga, Arthur W

    2004-02-01

    Level set methods offer highly robust and accurate methods for detecting interfaces of complex structures. Efficient techniques are required to transform an interface to a globally defined level set function. In this paper, a novel level set method based on an adaptive triangular mesh is proposed for segmentation of medical images. Special attention is paid to an adaptive mesh refinement and redistancing technique for level set propagation, in order to achieve higher resolution at the interface with minimum expense. First, a narrow band around the interface is built in an upwind fashion. An active square technique is used to determine the shortest distance correspondence (SDC) for each grid vertex. Simultaneously, we also give an efficient approach for signing the distance field. Then, an adaptive improvement algorithm is proposed, which essentially combines two basic techniques: a long-edge-based vertex insertion strategy, and a local improvement. These guarantee that the refined triangulation is related to features along the front and has elements with appropriate size and shape, which fit the front well. We propose a short-edge elimination scheme to coarsen the refined triangular mesh, in order to reduce the extra storage. Finally, we reformulate the general evolution equation by updating 1) the velocities and 2) the gradient of level sets on the triangulated mesh. We give an approach for tracing contours from the level set on the triangulated mesh. Given a two-dimensional image with N grids along a side, the proposed algorithms run in O(kN) time at each iteration. Quantitative analysis shows that our algorithm is of first order accuracy; and when the interface-fitted property is involved in the mesh refinement, both the convergence speed and numerical accuracy are greatly improved. We also analyze the effect of redistancing frequency upon convergence speed and accuracy. Numerical examples include the extraction of inner and outer surfaces of the cerebral cortex

  2. Numerical simulation of immiscible viscous fingering using adaptive unstructured meshes

    NASA Astrophysics Data System (ADS)

    Adam, A.; Salinas, P.; Percival, J. R.; Pavlidis, D.; Pain, C.; Muggeridge, A. H.; Jackson, M.

    2015-12-01

    Displacement of one fluid by another in porous media occurs in various settings including hydrocarbon recovery, CO2 storage and water purification. When the invading fluid is of lower viscosity than the resident fluid, the displacement front is subject to a Saffman-Taylor instability and is unstable to transverse perturbations. These instabilities can grow, leading to fingering of the invading fluid. Numerical simulation of viscous fingering is challenging. The physics is controlled by a complex interplay of viscous and diffusive forces and it is necessary to ensure physical diffusion dominates numerical diffusion to obtain converged solutions. This typically requires the use of high mesh resolution and high order numerical methods. This is computationally expensive. We demonstrate here the use of a novel control volume - finite element (CVFE) method along with dynamic unstructured mesh adaptivity to simulate viscous fingering with higher accuracy and lower computational cost than conventional methods. Our CVFE method employs a discontinuous representation for both pressure and velocity, allowing the use of smaller control volumes (CVs). This yields higher resolution of the saturation field which is represented CV-wise. Moreover, dynamic mesh adaptivity allows high mesh resolution to be employed where it is required to resolve the fingers and lower resolution elsewhere. We use our results to re-examine the existing criteria that have been proposed to govern the onset of instability.Mesh adaptivity requires the mapping of data from one mesh to another. Conventional methods such as consistent interpolation do not readily generalise to discontinuous fields and are non-conservative. We further contribute a general framework for interpolation of CV fields by Galerkin projection. The method is conservative, higher order and yields improved results, particularly with higher order or discontinuous elements where existing approaches are often excessively diffusive.

  3. Adaptive mesh refinement for 1-dimensional gas dynamics

    SciTech Connect

    Hedstrom, G.; Rodrigue, G.; Berger, M.; Oliger, J.

    1982-01-01

    We consider the solution of the one-dimensional equation of gas-dynamics. Accurate numerical solutions are difficult to obtain on a given spatial mesh because of the existence of physical regions where components of the exact solution are either discontinuous or have large gradient changes. Numerical methods treat these phenomena in a variety of ways. In this paper, the method of adaptive mesh refinement is used. A thorough description of this method for general hyperbolic systems is given elsewhere and only properties of the method pertinent to the system are elaborated.

  4. Adaptive mesh strategies for the spectral element method

    NASA Technical Reports Server (NTRS)

    Mavriplis, Catherine

    1992-01-01

    An adaptive spectral method was developed for the efficient solution of time dependent partial differential equations. Adaptive mesh strategies that include resolution refinement and coarsening by three different methods are illustrated on solutions to the 1-D viscous Burger equation and the 2-D Navier-Stokes equations for driven flow in a cavity. Sharp gradients, singularities, and regions of poor resolution are resolved optimally as they develop in time using error estimators which indicate the choice of refinement to be used. The adaptive formulation presents significant increases in efficiency, flexibility, and general capabilities for high order spectral methods.

  5. Optimal imaging with adaptive mesh refinement in electrical impedance tomography.

    PubMed

    Molinari, Marc; Blott, Barry H; Cox, Simon J; Daniell, Geoffrey J

    2002-02-01

    In non-linear electrical impedance tomography the goodness of fit of the trial images is assessed by the well-established statistical chi2 criterion applied to the measured and predicted datasets. Further selection from the range of images that fit the data is effected by imposing an explicit constraint on the form of the image, such as the minimization of the image gradients. In particular, the logarithm of the image gradients is chosen so that conductive and resistive deviations are treated in the same way. In this paper we introduce the idea of adaptive mesh refinement to the 2D problem so that the local scale of the mesh is always matched to the scale of the image structures. This improves the reconstruction resolution so that the image constraint adopted dominates and is not perturbed by the mesh discretization. The avoidance of unnecessary mesh elements optimizes the speed of reconstruction without degrading the resulting images. Starting with a mesh scale length of the order of the electrode separation it is shown that, for data obtained at presently achievable signal-to-noise ratios of 60 to 80 dB, one or two refinement stages are sufficient to generate high quality images.

  6. Parallel Block Structured Adaptive Mesh Refinement on Graphics Processing Units

    SciTech Connect

    Beckingsale, D. A.; Gaudin, W. P.; Hornung, R. D.; Gunney, B. T.; Gamblin, T.; Herdman, J. A.; Jarvis, S. A.

    2014-11-17

    Block-structured adaptive mesh refinement is a technique that can be used when solving partial differential equations to reduce the number of zones necessary to achieve the required accuracy in areas of interest. These areas (shock fronts, material interfaces, etc.) are recursively covered with finer mesh patches that are grouped into a hierarchy of refinement levels. Despite the potential for large savings in computational requirements and memory usage without a corresponding reduction in accuracy, AMR adds overhead in managing the mesh hierarchy, adding complex communication and data movement requirements to a simulation. In this paper, we describe the design and implementation of a native GPU-based AMR library, including: the classes used to manage data on a mesh patch, the routines used for transferring data between GPUs on different nodes, and the data-parallel operators developed to coarsen and refine mesh data. We validate the performance and accuracy of our implementation using three test problems and two architectures: an eight-node cluster, and over four thousand nodes of Oak Ridge National Laboratory’s Titan supercomputer. Our GPU-based AMR hydrodynamics code performs up to 4.87× faster than the CPU-based implementation, and has been scaled to over four thousand GPUs using a combination of MPI and CUDA.

  7. Parallel 3D Mortar Element Method for Adaptive Nonconforming Meshes

    NASA Technical Reports Server (NTRS)

    Feng, Huiyu; Mavriplis, Catherine; VanderWijngaart, Rob; Biswas, Rupak

    2004-01-01

    High order methods are frequently used in computational simulation for their high accuracy. An efficient way to avoid unnecessary computation in smooth regions of the solution is to use adaptive meshes which employ fine grids only in areas where they are needed. Nonconforming spectral elements allow the grid to be flexibly adjusted to satisfy the computational accuracy requirements. The method is suitable for computational simulations of unsteady problems with very disparate length scales or unsteady moving features, such as heat transfer, fluid dynamics or flame combustion. In this work, we select the Mark Element Method (MEM) to handle the non-conforming interfaces between elements. A new technique is introduced to efficiently implement MEM in 3-D nonconforming meshes. By introducing an "intermediate mortar", the proposed method decomposes the projection between 3-D elements and mortars into two steps. In each step, projection matrices derived in 2-D are used. The two-step method avoids explicitly forming/deriving large projection matrices for 3-D meshes, and also helps to simplify the implementation. This new technique can be used for both h- and p-type adaptation. This method is applied to an unsteady 3-D moving heat source problem. With our new MEM implementation, mesh adaptation is able to efficiently refine the grid near the heat source and coarsen the grid once the heat source passes. The savings in computational work resulting from the dynamic mesh adaptation is demonstrated by the reduction of the the number of elements used and CPU time spent. MEM and mesh adaptation, respectively, bring irregularity and dynamics to the computer memory access pattern. Hence, they provide a good way to gauge the performance of computer systems when running scientific applications whose memory access patterns are irregular and unpredictable. We select a 3-D moving heat source problem as the Unstructured Adaptive (UA) grid benchmark, a new component of the NAS Parallel

  8. Anisotropic norm-oriented mesh adaptation for a Poisson problem

    NASA Astrophysics Data System (ADS)

    Brèthes, Gautier; Dervieux, Alain

    2016-10-01

    We present a novel formulation for the mesh adaptation of the approximation of a Partial Differential Equation (PDE). The discussion is restricted to a Poisson problem. The proposed norm-oriented formulation extends the goal-oriented formulation since it is equation-based and uses an adjoint. At the same time, the norm-oriented formulation somewhat supersedes the goal-oriented one since it is basically a solution-convergent method. Indeed, goal-oriented methods rely on the reduction of the error in evaluating a chosen scalar output with the consequence that, as mesh size is increased (more degrees of freedom), only this output is proven to tend to its continuous analog while the solution field itself may not converge. A remarkable quality of goal-oriented metric-based adaptation is the mathematical formulation of the mesh adaptation problem under the form of the optimization, in the well-identified set of metrics, of a well-defined functional. In the new proposed formulation, we amplify this advantage. We search, in the same well-identified set of metrics, the minimum of a norm of the approximation error. The norm is prescribed by the user and the method allows addressing the case of multi-objective adaptation like, for example in aerodynamics, adaptating the mesh for drag, lift and moment in one shot. In this work, we consider the basic linear finite-element approximation and restrict our study to L2 norm in order to enjoy second-order convergence. Numerical examples for the Poisson problem are computed.

  9. A Diffusion Synthetic Acceleration Method for Block Adaptive Mesh Refinement.

    SciTech Connect

    Ward, R. C.; Baker, R. S.; Morel, J. E.

    2005-01-01

    A prototype two-dimensional Diffusion Synthetic Acceleration (DSA) method on a Block-based Adaptive Mesh Refinement (BAMR) transport mesh has been developed. The Block-Adaptive Mesh Refinement Diffusion Synthetic Acceleration (BAMR-DSA) method was tested in the PARallel TIme-Dependent SN (PARTISN) deterministic transport code. The BAMR-DSA equations are derived by differencing the DSA equation using a vertex-centered diffusion discretization that is diamond-like and may be characterized as 'partially' consistent. The derivation of a diffusion discretization that is fully consistent with diamond transport differencing on BAMR mesh does not appear to be possible. However, despite being partially consistent, the BAMR-DSA method is effective for many applications. The BAMR-DSA solver was implemented and tested in two dimensions for rectangular (XY) and cylindrical (RZ) geometries. Testing results confirm that a partially consistent BAMR-DSA method will introduce instabilities for extreme cases, e.g., scattering ratios approaching 1.0 with optically thick cells, but for most realistic problems the BAMR-DSA method provides effective acceleration. The initial use of a full matrix to store and LU-Decomposition to solve the BAMR-DSA equations has been extended to include Compressed Sparse Row (CSR) storage and a Conjugate Gradient (CG) solver. The CSR and CG methods provide significantly more efficient and faster storage and solution methods.

  10. Configurational forces and variational mesh adaptation in solid dynamics

    NASA Astrophysics Data System (ADS)

    Zielonka, Matias G.

    This thesis is concerned with the exploration and development of a variational finite element mesh adaption framework for non-linear solid dynamics and its conceptual links with the theory of dynamic configurational forces. The distinctive attribute of this methodology is that the underlying variational principle of the problem under study is used to supply both the discretized fields and the mesh on which the discretization is supported. To this end a mixed-multifield version of Hamilton's principle of stationary action and Lagrange-d'Alembert, principle is proposed, a fresh perspective on the theory of dynamic configurational forces is presented, and a unifying variational formulation that generalizes the framework to systems with general dissipative behavior is developed. A mixed finite element formulation with independent spatial interpolations for deformations and velocities and a mixed variational integrator with independent time interpolations for the resulting nodal parameters is constructed. This discretization is supported on a continuously deforming mesh that is not prescribed at the outset but computed as part of the solution. The resulting space-time discretization satisfies exact discrete configurational force balance and exhibits excellent long term global energy stability behavior. The robustness of the mesh adaption framework is assessed and demonstrated with a set of examples and convergence tests.

  11. Projection of Discontinuous Galerkin Variable Distributions During Adaptive Mesh Refinement

    NASA Astrophysics Data System (ADS)

    Ballesteros, Carlos; Herrmann, Marcus

    2012-11-01

    Adaptive mesh refinement (AMR) methods decrease the computational expense of CFD simulations by increasing the density of solution cells only in areas of the computational domain that are of interest in that particular simulation. In particular, unstructured Cartesian AMR has several advantages over other AMR approaches, as it does not require the creation of numerous guard-cell blocks, neighboring cell lookups become straightforward, and the hexahedral nature of the mesh cells greatly simplifies the refinement and coarsening operations. The h-refinement from this AMR approach can be leveraged by making use of highly-accurate, but computationally costly methods, such as the Discontinuous Galerkin (DG) numerical method. DG methods are capable of high orders of accuracy while retaining stencil locality--a property critical to AMR using unstructured meshes. However, the use of DG methods with AMR requires the use of special flux and projection operators during refinement and coarsening operations in order to retain the high order of accuracy. The flux and projection operators needed for refinement and coarsening of unstructured Cartesian adaptive meshes using Legendre polynomial test functions will be discussed, and their performance will be shown using standard test cases.

  12. AN ADAPTIVE PARTICLE-MESH GRAVITY SOLVER FOR ENZO

    SciTech Connect

    Passy, Jean-Claude; Bryan, Greg L.

    2014-11-01

    We describe and implement an adaptive particle-mesh algorithm to solve the Poisson equation for grid-based hydrodynamics codes with nested grids. The algorithm is implemented and extensively tested within the astrophysical code Enzo against the multigrid solver available by default. We find that while both algorithms show similar accuracy for smooth mass distributions, the adaptive particle-mesh algorithm is more accurate for the case of point masses, and is generally less noisy. We also demonstrate that the two-body problem can be solved accurately in a configuration with nested grids. In addition, we discuss the effect of subcycling, and demonstrate that evolving all the levels with the same timestep yields even greater precision.

  13. An adaptive mesh finite volume method for the Euler equations of gas dynamics

    NASA Astrophysics Data System (ADS)

    Mungkasi, Sudi

    2016-06-01

    The Euler equations have been used to model gas dynamics for decades. They consist of mathematical equations for the conservation of mass, momentum, and energy of the gas. For a large time value, the solution may contain discontinuities, even when the initial condition is smooth. A standard finite volume numerical method is not able to give accurate solutions to the Euler equations around discontinuities. Therefore we solve the Euler equations using an adaptive mesh finite volume method. In this paper, we present a new construction of the adaptive mesh finite volume method with an efficient computation of the refinement indicator. The adaptive method takes action automatically at around places having inaccurate solutions. Inaccurate solutions are reconstructed to reduce the error by refining the mesh locally up to a certain level. On the other hand, if the solution is already accurate, then the mesh is coarsened up to another certain level to minimize computational efforts. We implement the numerical entropy production as the mesh refinement indicator. As a test problem, we take the Sod shock tube problem. Numerical results show that the adaptive method is more promising than the standard one in solving the Euler equations of gas dynamics.

  14. Parallel adaptive mesh refinement techniques for plasticity problems

    NASA Technical Reports Server (NTRS)

    Barry, W. J.; Jones, M. T.; Plassmann, P. E.

    1997-01-01

    The accurate modeling of the nonlinear properties of materials can be computationally expensive. Parallel computing offers an attractive way for solving such problems; however, the efficient use of these systems requires the vertical integration of a number of very different software components, we explore the solution of two- and three-dimensional, small-strain plasticity problems. We consider a finite-element formulation of the problem with adaptive refinement of an unstructured mesh to accurately model plastic transition zones. We present a framework for the parallel implementation of such complex algorithms. This framework, using libraries from the SUMAA3d project, allows a user to build a parallel finite-element application without writing any parallel code. To demonstrate the effectiveness of this approach on widely varying parallel architectures, we present experimental results from an IBM SP parallel computer and an ATM-connected network of Sun UltraSparc workstations. The results detail the parallel performance of the computational phases of the application during the process while the material is incrementally loaded.

  15. Boltzmann Solver with Adaptive Mesh in Velocity Space

    SciTech Connect

    Kolobov, Vladimir I.; Arslanbekov, Robert R.; Frolova, Anna A.

    2011-05-20

    We describe the implementation of direct Boltzmann solver with Adaptive Mesh in Velocity Space (AMVS) using quad/octree data structure. The benefits of the AMVS technique are demonstrated for the charged particle transport in weakly ionized plasmas where the collision integral is linear. We also describe the implementation of AMVS for the nonlinear Boltzmann collision integral. Test computations demonstrate both advantages and deficiencies of the current method for calculations of narrow-kernel distributions.

  16. A fourth order accurate adaptive mesh refinement method forpoisson's equation

    SciTech Connect

    Barad, Michael; Colella, Phillip

    2004-08-20

    We present a block-structured adaptive mesh refinement (AMR) method for computing solutions to Poisson's equation in two and three dimensions. It is based on a conservative, finite-volume formulation of the classical Mehrstellen methods. This is combined with finite volume AMR discretizations to obtain a method that is fourth-order accurate in solution error, and with easily verifiable solvability conditions for Neumann and periodic boundary conditions.

  17. Advances in Patch-Based Adaptive Mesh Refinement Scalability

    SciTech Connect

    Gunney, Brian T.N.; Anderson, Robert W.

    2015-12-18

    Patch-based structured adaptive mesh refinement (SAMR) is widely used for high-resolution simu- lations. Combined with modern supercomputers, it could provide simulations of unprecedented size and resolution. A persistent challenge for this com- bination has been managing dynamically adaptive meshes on more and more MPI tasks. The dis- tributed mesh management scheme in SAMRAI has made some progress SAMR scalability, but early al- gorithms still had trouble scaling past the regime of 105 MPI tasks. This work provides two critical SAMR regridding algorithms, which are integrated into that scheme to ensure efficiency of the whole. The clustering algorithm is an extension of the tile- clustering approach, making it more flexible and efficient in both clustering and parallelism. The partitioner is a new algorithm designed to prevent the network congestion experienced by its prede- cessor. We evaluated performance using weak- and strong-scaling benchmarks designed to be difficult for dynamic adaptivity. Results show good scaling on up to 1.5M cores and 2M MPI tasks. Detailed timing diagnostics suggest scaling would continue well past that.

  18. Advances in Patch-Based Adaptive Mesh Refinement Scalability

    DOE PAGES

    Gunney, Brian T.N.; Anderson, Robert W.

    2015-12-18

    Patch-based structured adaptive mesh refinement (SAMR) is widely used for high-resolution simu- lations. Combined with modern supercomputers, it could provide simulations of unprecedented size and resolution. A persistent challenge for this com- bination has been managing dynamically adaptive meshes on more and more MPI tasks. The dis- tributed mesh management scheme in SAMRAI has made some progress SAMR scalability, but early al- gorithms still had trouble scaling past the regime of 105 MPI tasks. This work provides two critical SAMR regridding algorithms, which are integrated into that scheme to ensure efficiency of the whole. The clustering algorithm is an extensionmore » of the tile- clustering approach, making it more flexible and efficient in both clustering and parallelism. The partitioner is a new algorithm designed to prevent the network congestion experienced by its prede- cessor. We evaluated performance using weak- and strong-scaling benchmarks designed to be difficult for dynamic adaptivity. Results show good scaling on up to 1.5M cores and 2M MPI tasks. Detailed timing diagnostics suggest scaling would continue well past that.« less

  19. Adaptive radial basis function mesh deformation using data reduction

    NASA Astrophysics Data System (ADS)

    Gillebaart, T.; Blom, D. S.; van Zuijlen, A. H.; Bijl, H.

    2016-09-01

    Radial Basis Function (RBF) mesh deformation is one of the most robust mesh deformation methods available. Using the greedy (data reduction) method in combination with an explicit boundary correction, results in an efficient method as shown in literature. However, to ensure the method remains robust, two issues are addressed: 1) how to ensure that the set of control points remains an accurate representation of the geometry in time and 2) how to use/automate the explicit boundary correction, while ensuring a high mesh quality. In this paper, we propose an adaptive RBF mesh deformation method, which ensures the set of control points always represents the geometry/displacement up to a certain (user-specified) criteria, by keeping track of the boundary error throughout the simulation and re-selecting when needed. Opposed to the unit displacement and prescribed displacement selection methods, the adaptive method is more robust, user-independent and efficient, for the cases considered. Secondly, the analysis of a single high aspect ratio cell is used to formulate an equation for the correction radius needed, depending on the characteristics of the correction function used, maximum aspect ratio, minimum first cell height and boundary error. Based on the analysis two new radial basis correction functions are derived and proposed. This proposed automated procedure is verified while varying the correction function, Reynolds number (and thus first cell height and aspect ratio) and boundary error. Finally, the parallel efficiency is studied for the two adaptive methods, unit displacement and prescribed displacement for both the CPU as well as the memory formulation with a 2D oscillating and translating airfoil with oscillating flap, a 3D flexible locally deforming tube and deforming wind turbine blade. Generally, the memory formulation requires less work (due to the large amount of work required for evaluating RBF's), but the parallel efficiency reduces due to the limited

  20. Visualizing Geophysical Flow Problems with Adaptive Mesh Refinement

    NASA Astrophysics Data System (ADS)

    Sevre, E. O.; Yuen, D. A.; George, D. L.; Lee, S.

    2011-12-01

    Adaptive Mesh Refinement (AMR) is a technique used in software to decompose a computational domain based on the level of refinement necessary for spatial and temporal calculations. Comparing AMR runs to uniform grids allows for an unbounded gain in computational time. In this paper we will look at techniques for visualizing tsunami simulations that were run with AMR using the GeoClaw [Berger2011-1, Berger2011-2] software. Due to the computational efficiency of AMR we have decided to look into techniques for visualization of AMR data. By having good visualization tools for geoscientists more time can be spent interpreting results and analyzing data. Good visualization tools can be adapted easily to work with a variety of output formats, and the goal of this work is to provide a foundation for geoscientists to work with. In the past year GeoClaw has been used to model the 2011 Tohoku tsunami originating off the coast of Sendai Japan and delivering catastrophic damage to the Fukushima power plant. The aftermath of this single geologic event is still making headlines 4 months after the fact [Fackler2011]. GeoClaw utilizes the shallow water equations to model a variety of flows that range from tsunami to floods to landslides and debris flows [George2011]. With the advanced computations provided by AMR it is important for researchers to visualize and understand ways that are meaningful to both scientists and civilians affected by the potential outcomes of the computation. Special visualization techniques can be used to visualize and look at data generated with AMR. By incorporating these techniques into their software geoscientists will be able to harness powerful computational tools, such as GeoClaw, while also maintaining an informative view of their data.

  1. Block-structured adaptive mesh refinement - theory, implementation and application

    SciTech Connect

    Deiterding, Ralf

    2011-01-01

    Structured adaptive mesh refinement (SAMR) techniques can enable cutting-edge simulations of problems governed by conservation laws. Focusing on the strictly hyperbolic case, these notes explain all algorithmic and mathematical details of a technically relevant implementation tailored for distributed memory computers. An overview of the background of commonly used finite volume discretizations for gas dynamics is included and typical benchmarks to quantify accuracy and performance of the dynamically adaptive code are discussed. Large-scale simulations of shock-induced realistic combustion in non-Cartesian geometry and shock-driven fluid-structure interaction with fully coupled dynamic boundary motion demonstrate the applicability of the discussed techniques for complex scenarios.

  2. Applications of automatic mesh generation and adaptive methods in computational medicine

    SciTech Connect

    Schmidt, J.A.; Macleod, R.S.; Johnson, C.R.; Eason, J.C.

    1995-12-31

    Important problems in Computational Medicine exist that can benefit from the implementation of adaptive mesh refinement techniques. Biological systems are so inherently complex that only efficient models running on state of the art hardware can begin to simulate reality. To tackle the complex geometries associated with medical applications we present a general purpose mesh generation scheme based upon the Delaunay tessellation algorithm and an iterative point generator. In addition, automatic, two- and three-dimensional adaptive mesh refinement methods are presented that are derived from local and global estimates of the finite element error. Mesh generation and adaptive refinement techniques are utilized to obtain accurate approximations of bioelectric fields within anatomically correct models of the heart and human thorax. Specifically, we explore the simulation of cardiac defibrillation and the general forward and inverse problems in electrocardiography (ECG). Comparisons between uniform and adaptive refinement techniques are made to highlight the computational efficiency and accuracy of adaptive methods in the solution of field problems in computational medicine.

  3. Laser ray tracing in a parallel arbitrary Lagrangian-Eulerian adaptive mesh refinement hydrocode

    NASA Astrophysics Data System (ADS)

    Masters, N. D.; Kaiser, T. B.; Anderson, R. W.; Eder, D. C.; Fisher, A. C.; Koniges, A. E.

    2010-08-01

    ALE-AMR is a new hydrocode that we are developing as a predictive modeling tool for debris and shrapnel formation in high-energy laser experiments. In this paper we present our approach to implementing laser ray tracing in ALE-AMR. We present the basic concepts of laser ray tracing and our approach to efficiently traverse the adaptive mesh hierarchy.

  4. N-Body Code with Adaptive Mesh Refinement

    NASA Astrophysics Data System (ADS)

    Yahagi, Hideki; Yoshii, Yuzuru

    2001-09-01

    We have developed a simulation code with the techniques that enhance both spatial and time resolution of the particle-mesh (PM) method, for which the spatial resolution is restricted by the spacing of structured mesh. The adaptive-mesh refinement (AMR) technique subdivides the cells that satisfy the refinement criterion recursively. The hierarchical meshes are maintained by the special data structure and are modified in accordance with the change of particle distribution. In general, as the resolution of the simulation increases, its time step must be shortened and more computational time is required to complete the simulation. Since the AMR enhances the spatial resolution locally, we reduce the time step locally also, instead of shortening it globally. For this purpose, we used a technique of hierarchical time steps (HTS), which changes the time step, from particle to particle, depending on the size of the cell in which particles reside. Some test calculations show that our implementation of AMR and HTS is successful. We have performed cosmological simulation runs based on our code and found that many of halo objects have density profiles that are well fitted to the universal profile proposed in 1996 by Navarro, Frenk, & White over the entire range of their radius.

  5. Numerical study of Taylor bubbles with adaptive unstructured meshes

    NASA Astrophysics Data System (ADS)

    Xie, Zhihua; Pavlidis, Dimitrios; Percival, James; Pain, Chris; Matar, Omar; Hasan, Abbas; Azzopardi, Barry

    2014-11-01

    The Taylor bubble is a single long bubble which nearly fills the entire cross section of a liquid-filled circular tube. This type of bubble flow regime often occurs in gas-liquid slug flows in many industrial applications, including oil-and-gas production, chemical and nuclear reactors, and heat exchangers. The objective of this study is to investigate the fluid dynamics of Taylor bubbles rising in a vertical pipe filled with oils of extremely high viscosity (mimicking the ``heavy oils'' found in the oil-and-gas industry). A modelling and simulation framework is presented here which can modify and adapt anisotropic unstructured meshes to better represent the underlying physics of bubble rise and reduce the computational effort without sacrificing accuracy. The numerical framework consists of a mixed control-volume and finite-element formulation, a ``volume of fluid''-type method for the interface capturing based on a compressive control volume advection method, and a force-balanced algorithm for the surface tension implementation. Numerical examples of some benchmark tests and the dynamics of Taylor bubbles are presented to show the capability of this method. EPSRC Programme Grant, MEMPHIS, EP/K0039761/1.

  6. Divergence-Free Adaptive Mesh Refinement for Magnetohydrodynamics

    NASA Astrophysics Data System (ADS)

    Balsara, Dinshaw S.

    2001-12-01

    Several physical systems, such as nonrelativistic and relativistic magnetohydrodynamics (MHD), radiation MHD, electromagnetics, and incompressible hydrodynamics, satisfy Stoke's law type equations for the divergence-free evolution of vector fields. In this paper we present a full-fledged scheme for the second-order accurate, divergence-free evolution of vector fields on an adaptive mesh refinement (AMR) hierarchy. We focus here on adaptive mesh MHD. However, the scheme has applicability to the other systems of equations mentioned above. The scheme is based on making a significant advance in the divergence-free reconstruction of vector fields. In that sense, it complements the earlier work of D. S. Balsara and D. S. Spicer (1999, J. Comput. Phys. 7, 270) where we discussed the divergence-free time-update of vector fields which satisfy Stoke's law type evolution equations. Our advance in divergence-free reconstruction of vector fields is such that it reduces to the total variation diminishing (TVD) property for one-dimensional evolution and yet goes beyond it in multiple dimensions. For that reason, it is extremely suitable for the construction of higher order Godunov schemes for MHD. Both the two-dimensional and three-dimensional reconstruction strategies are developed. A slight extension of the divergence-free reconstruction procedure yields a divergence-free prolongation strategy for prolonging magnetic fields on AMR hierarchies. Divergence-free restriction is also discussed. Because our work is based on an integral formulation, divergence-free restriction and prolongation can be carried out on AMR meshes with any integral refinement ratio, though we specialize the expressions for the most popular situation where the refinement ratio is two. Furthermore, we pay attention to the fact that in order to efficiently evolve the MHD equations on AMR hierarchies, the refined meshes must evolve in time with time steps that are a fraction of their parent mesh's time step

  7. Multilevel Error Estimation and Adaptive h-Refinement for Cartesian Meshes with Embedded Boundaries

    NASA Technical Reports Server (NTRS)

    Aftosmis, M. J.; Berger, M. J.; Kwak, Dochan (Technical Monitor)

    2002-01-01

    This paper presents the development of a mesh adaptation module for a multilevel Cartesian solver. While the module allows mesh refinement to be driven by a variety of different refinement parameters, a central feature in its design is the incorporation of a multilevel error estimator based upon direct estimates of the local truncation error using tau-extrapolation. This error indicator exploits the fact that in regions of uniform Cartesian mesh, the spatial operator is exactly the same on the fine and coarse grids, and local truncation error estimates can be constructed by evaluating the residual on the coarse grid of the restricted solution from the fine grid. A new strategy for adaptive h-refinement is also developed to prevent errors in smooth regions of the flow from being masked by shocks and other discontinuous features. For certain classes of error histograms, this strategy is optimal for achieving equidistribution of the refinement parameters on hierarchical meshes, and therefore ensures grid converged solutions will be achieved for appropriately chosen refinement parameters. The robustness and accuracy of the adaptation module is demonstrated using both simple model problems and complex three dimensional examples using meshes with from 10(exp 6), to 10(exp 7) cells.

  8. How to model wireless mesh networks topology

    NASA Astrophysics Data System (ADS)

    Sanni, M. L.; Hashim, A. A.; Anwar, F.; Ahmed, G. S. M.; Ali, S.

    2013-12-01

    The specification of network connectivity model or topology is the beginning of design and analysis in Computer Network researches. Wireless Mesh Networks is an autonomic network that is dynamically self-organised, self-configured while the mesh nodes establish automatic connectivity with the adjacent nodes in the relay network of wireless backbone routers. Researches in Wireless Mesh Networks range from node deployment to internetworking issues with sensor, Internet and cellular networks. These researches require modelling of relationships and interactions among nodes including technical characteristics of the links while satisfying the architectural requirements of the physical network. However, the existing topology generators model geographic topologies which constitute different architectures, thus may not be suitable in Wireless Mesh Networks scenarios. The existing methods of topology generation are explored, analysed and parameters for their characterisation are identified. Furthermore, an algorithm for the design of Wireless Mesh Networks topology based on square grid model is proposed in this paper. The performance of the topology generated is also evaluated. This research is particularly important in the generation of a close-to-real topology for ensuring relevance of design to the intended network and validity of results obtained in Wireless Mesh Networks researches.

  9. Laser Ray Tracing in a Parallel Arbitrary Lagrangian-Eulerian Adaptive Mesh Refinement Hydrocode

    SciTech Connect

    Masters, N D; Kaiser, T B; Anderson, R W; Eder, D C; Fisher, A C; Koniges, A E

    2009-09-28

    ALE-AMR is a new hydrocode that we are developing as a predictive modeling tool for debris and shrapnel formation in high-energy laser experiments. In this paper we present our approach to implementing laser ray-tracing in ALE-AMR. We present the equations of laser ray tracing, our approach to efficient traversal of the adaptive mesh hierarchy in which we propagate computational rays through a virtual composite mesh consisting of the finest resolution representation of the modeled space, and anticipate simulations that will be compared to experiments for code validation.

  10. An unstructured-mesh atmospheric model for nonhydrostatic dynamics: Towards optimal mesh resolution

    NASA Astrophysics Data System (ADS)

    Szmelter, Joanna; Zhang, Zhao; Smolarkiewicz, Piotr K.

    2015-08-01

    The paper advances the limited-area anelastic model (Smolarkiewicz et al. (2013) [45]) for investigation of nonhydrostatic dynamics in mesoscale atmospheric flows. New developments include the extension to a tetrahedral-based median-dual option for unstructured meshes and a static mesh adaptivity technique using an error indicator based on inherent properties of the Multidimensional Positive Definite Advection Transport Algorithm (MPDATA). The model employs semi-implicit nonoscillatory forward-in-time integrators for soundproof PDEs, built on MPDATA and a robust non-symmetric Krylov-subspace elliptic solver. Finite-volume spatial discretisation adopts an edge-based data structure. Simulations of stratified orographic flows and the associated gravity-wave phenomena in media with uniform and variable dispersive properties verify the advancement and demonstrate the potential of heterogeneous anisotropic discretisation with large variation in spatial resolution for study of complex stratified flows that can be computationally unattainable with regular grids.

  11. Patch-based Adaptive Mesh Refinement for Multimaterial Hydrodynamics

    SciTech Connect

    Lomov, I; Pember, R; Greenough, J; Liu, B

    2005-10-18

    We present a patch-based direct Eulerian adaptive mesh refinement (AMR) algorithm for modeling real equation-of-state, multimaterial compressible flow with strength. Our approach to AMR uses a hierarchical, structured grid approach first developed by (Berger and Oliger 1984), (Berger and Oliger 1984). The grid structure is dynamic in time and is composed of nested uniform rectangular grids of varying resolution. The integration scheme on the grid hierarchy is a recursive procedure in which the coarse grids are advanced, then the fine grids are advanced multiple steps to reach the same time, and finally the coarse and fine grids are synchronized to remove conservation errors during the separate advances. The methodology presented here is based on a single grid algorithm developed for multimaterial gas dynamics by (Colella et al. 1993), refined by(Greenough et al. 1995), and extended to the solution of solid mechanics problems with significant strength by (Lomov and Rubin 2003). The single grid algorithm uses a second-order Godunov scheme with an approximate single fluid Riemann solver and a volume-of-fluid treatment of material interfaces. The method also uses a non-conservative treatment of the deformation tensor and an acoustic approximation for shear waves in the Riemann solver. This departure from a strict application of the higher-order Godunov methodology to the equation of solid mechanics is justified due to the fact that highly nonlinear behavior of shear stresses is rare. This algorithm is implemented in two codes, Geodyn and Raptor, the latter of which is a coupled rad-hydro code. The present discussion will be solely concerned with hydrodynamics modeling. Results from a number of simulations for flows with and without strength will be presented.

  12. AMRA: An Adaptive Mesh Refinement hydrodynamic code for astrophysics

    NASA Astrophysics Data System (ADS)

    Plewa, T.; Müller, E.

    2001-08-01

    Implementation details and test cases of a newly developed hydrodynamic code, amra, are presented. The numerical scheme exploits the adaptive mesh refinement technique coupled to modern high-resolution schemes which are suitable for relativistic and non-relativistic flows. Various physical processes are incorporated using the operator splitting approach, and include self-gravity, nuclear burning, physical viscosity, implicit and explicit schemes for conductive transport, simplified photoionization, and radiative losses from an optically thin plasma. Several aspects related to the accuracy and stability of the scheme are discussed in the context of hydrodynamic and astrophysical flows.

  13. Computational relativistic astrophysics with adaptive mesh refinement: Testbeds

    SciTech Connect

    Evans, Edwin; Iyer, Sai; Tao Jian; Wolfmeyer, Randy; Zhang Huimin; Schnetter, Erik; Suen, Wai-Mo

    2005-04-15

    We have carried out numerical simulations of strongly gravitating systems based on the Einstein equations coupled to the relativistic hydrodynamic equations using adaptive mesh refinement (AMR) techniques. We show AMR simulations of NS binary inspiral and coalescence carried out on a workstation having an accuracy equivalent to that of a 1025{sup 3} regular unigrid simulation, which is, to the best of our knowledge, larger than all previous simulations of similar NS systems on supercomputers. We believe the capability opens new possibilities in general relativistic simulations.

  14. Implementation and application of adaptive mesh refinement for thermochemical mantle convection studies

    NASA Astrophysics Data System (ADS)

    Leng, Wei; Zhong, Shijie

    2011-04-01

    Numerical modeling of mantle convection is challenging. Owing to the multiscale nature of mantle dynamics, high resolution is often required in localized regions, with coarser resolution being sufficient elsewhere. When investigating thermochemical mantle convection, high resolution is required to resolve sharp and often discontinuous boundaries between distinct chemical components. In this paper, we present a 2-D finite element code with adaptive mesh refinement techniques for simulating compressible thermochemical mantle convection. By comparing model predictions with a range of analytical and previously published benchmark solutions, we demonstrate the accuracy of our code. By refining and coarsening the mesh according to certain criteria and dynamically adjusting the number of particles in each element, our code can simulate such problems efficiently, dramatically reducing the computational requirements (in terms of memory and CPU time) when compared to a fixed, uniform mesh simulation. The resolving capabilities of the technique are further highlighted by examining plume-induced entrainment in a thermochemical mantle convection simulation.

  15. Parallel Processing of Adaptive Meshes with Load Balancing

    NASA Technical Reports Server (NTRS)

    Das, Sajal K.; Harvey, Daniel J.; Biswas, Rupak; Biegel, Bryan (Technical Monitor)

    2001-01-01

    Many scientific applications involve grids that lack a uniform underlying structure. These applications are often also dynamic in nature in that the grid structure significantly changes between successive phases of execution. In parallel computing environments, mesh adaptation of unstructured grids through selective refinement/coarsening has proven to be an effective approach. However, achieving load balance while minimizing interprocessor communication and redistribution costs is a difficult problem. Traditional dynamic load balancers are mostly inadequate because they lack a global view of system loads across processors. In this paper, we propose a novel and general-purpose load balancer that utilizes symmetric broadcast networks (SBN) as the underlying communication topology, and compare its performance with a successful global load balancing environment, called PLUM, specifically created to handle adaptive unstructured applications. Our experimental results on an IBM SP2 demonstrate that the SBN-based load balancer achieves lower redistribution costs than that under PLUM by overlapping processing and data migration.

  16. Dynamic Load Balancing for Adaptive Meshes using Symmetric Broadcast Networks

    NASA Technical Reports Server (NTRS)

    Das, Sajal K.; Harvey, Daniel J.; Biswas, Rupak; Saini, Subhash (Technical Monitor)

    1998-01-01

    Many scientific applications involve grids that lack a uniform underlying structure. These applications are often dynamic in the sense that the grid structure significantly changes between successive phases of execution. In parallel computing environments, mesh adaptation of grids through selective refinement/coarsening has proven to be an effective approach. However, achieving load balance while minimizing inter-processor communication and redistribution costs is a difficult problem. Traditional dynamic load balancers are mostly inadequate because they lack a global view across processors. In this paper, we compare a novel load balancer that utilizes symmetric broadcast networks (SBN) to a successful global load balancing environment (PLUM) created to handle adaptive unstructured applications. Our experimental results on the IBM SP2 demonstrate that performance of the proposed SBN load balancer is comparable to results achieved under PLUM.

  17. Simulating Multi-scale Fluid Flows Using Adaptive Mesh Refinement Methods

    NASA Astrophysics Data System (ADS)

    Rowe, Kristopher; Lamb, Kevin

    2015-11-01

    When modelling flows with disparate length scales one must use a computational mesh that is fine enough to capture the smallest phenomena of interest. Traditional computational fluid dynamics models apply a mesh of uniform resolution to the entire computational domain; however, if the smallest scales of interest are isolated much of the computational resources used in these simulations will be wasted in regions where they are not needed. Adaptive mesh refinement methods seek to only apply resolution where it is needed. Beginning with a single coarse grid, a nested hierarchy of block structured grids is built in regions of the fluid flow where more resolution is necessary. As the fluid flow varies in time this hierarchy of grids is dynamically rebuilt to follow the phenomena of interest. Through the modelling of the interaction of vortices with wall boundary layers, it will be demonstrated that adaptive mesh refinement methods will produce equivalent results to traditional single resolution codes while using less processors, memory, and wall-clock time. Additionally, it is possible to model such flows to higher Reynolds numbers than have been feasible previously. This work was supported by NSERC and SHARCNET.

  18. A Comparison Of Two Approaches To Modeling Capture Zones At The Site-Scale: Adaptive Mesh Refinement Within A Basin-Scale Model And Site-Scale/Basin-Scale Model Coupling

    NASA Astrophysics Data System (ADS)

    Keating, E. H.; Vesselinov, V. V.

    2001-12-01

    We are evaluating several alternative approaches to the general problem of simulating site-scale flow and transport using fine grid resolution while maintaining consistency with a regional-scale, coarse-grid flow model. In this paper, we use the example of modeling capture zones for water supply wells on the Pajarito Plateau in Northern New Mexico, using the finite-element heat and mass simulator FEHM. We compare two different models: 1) a basin-scale model (~6400 km2) using adaptive mesh refinement to increase grid resolution in the vicinity of the water supply well fields, and 2) a site-scale model (~560km2) which is coupled to the basin-scale model via specified fluxes along lateral site-scale boundaries. The goals of this study are to estimate capture zones and to determine the robustness of these estimates given uncertainty in the model parameter estimates and fluxes along site-scale boundaries. There are two primary advantages of the site-scale-model approach. It allows us to increase the vertical grid resolution and hence better represent site-scale heterogeneity, and with it we are able to apply on the water table a more spatially-detailed distribution of recharge. The primary disadvantages of this approach are difficulties related to 1) transferring basin-model fluxes to lateral site-scale-model boundaries and 2) parameter estimation within the coupled-model framework. Using the parameter estimation code (PEST), we calibrated the basin model against the head and flux datasets, estimated fluxes to the lateral boundaries of the site-scale model, and determined their uncertainty. We used these predicted fluxes as lateral boundary conditions in the site-scale model calibration runs. Sensitivity analyses demonstrated that predictions of capture zones using either modeling approach are sensitive to permeability values for a few key hydrostratigraphic units. The uncertainty in some of these key parameters was lower for the basin model than for the site

  19. An adaptive grid-based all hexahedral meshing algorithm based on 2-refinement.

    SciTech Connect

    Edgel, Jared; Benzley, Steven E.; Owen, Steven James

    2010-08-01

    Most adaptive mesh generation algorithms employ a 3-refinement method. This method, although easy to employ, provides a mesh that is often too coarse in some areas and over refined in other areas. Because this method generates 27 new hexes in place of a single hex, there is little control on mesh density. This paper presents an adaptive all-hexahedral grid-based meshing algorithm that employs a 2-refinement method. 2-refinement is based on dividing the hex to be refined into eight new hexes. This method allows a greater control on mesh density when compared to a 3-refinement procedure. This adaptive all-hexahedral meshing algorithm provides a mesh that is efficient for analysis by providing a high element density in specific locations and a reduced mesh density in other areas. In addition, this tool can be effectively used for inside-out hexahedral grid based schemes, using Cartesian structured grids for the base mesh, which have shown great promise in accommodating automatic all-hexahedral algorithms. This adaptive all-hexahedral grid-based meshing algorithm employs a 2-refinement insertion method. This allows greater control on mesh density when compared to 3-refinement methods. This algorithm uses a two layer transition zone to increase element quality and keeps transitions from lower to higher mesh densities smooth. Templates were introduced to allow both convex and concave refinement.

  20. Adaptive mesh generation for edge-element finite element method

    NASA Astrophysics Data System (ADS)

    Tsuboi, Hajime; Gyimothy, Szabolcs

    2001-06-01

    An adaptive mesh generation method for two- and three-dimensional finite element methods using edge elements is proposed. Since the tangential component continuity is preserved when using edge elements, the strategy of creating new nodes is based on evaluation of the normal component of the magnetic vector potential across element interfaces. The evaluation is performed at the middle point of edge of a triangular element for two-dimensional problems or at the gravity center of triangular surface of a tetrahedral element for three-dimensional problems. At the boundary of two elements, the error estimator is the ratio of the normal component discontinuity to the maximum value of the potential in the same material. One or more nodes are set at the middle points of the edges according to the value of the estimator as well as the subdivision of elements where new nodes have been created. A final mesh will be obtained after several iterations. Some computation results of two- and three-dimensional problems using the proposed method are shown.

  1. Using high-order methods on adaptively refined block-structured meshes - discretizations, interpolations, and filters.

    SciTech Connect

    Ray, Jaideep; Lefantzi, Sophia; Najm, Habib N.; Kennedy, Christopher A.

    2006-01-01

    Block-structured adaptively refined meshes (SAMR) strive for efficient resolution of partial differential equations (PDEs) solved on large computational domains by clustering mesh points only where required by large gradients. Previous work has indicated that fourth-order convergence can be achieved on such meshes by using a suitable combination of high-order discretizations, interpolations, and filters and can deliver significant computational savings over conventional second-order methods at engineering error tolerances. In this paper, we explore the interactions between the errors introduced by discretizations, interpolations and filters. We develop general expressions for high-order discretizations, interpolations, and filters, in multiple dimensions, using a Fourier approach, facilitating the high-order SAMR implementation. We derive a formulation for the necessary interpolation order for given discretization and derivative orders. We also illustrate this order relationship empirically using one and two-dimensional model problems on refined meshes. We study the observed increase in accuracy with increasing interpolation order. We also examine the empirically observed order of convergence, as the effective resolution of the mesh is increased by successively adding levels of refinement, with different orders of discretization, interpolation, or filtering.

  2. TRIM: A finite-volume MHD algorithm for an unstructured adaptive mesh

    SciTech Connect

    Schnack, D.D.; Lottati, I.; Mikic, Z.

    1995-07-01

    The authors describe TRIM, a MHD code which uses finite volume discretization of the MHD equations on an unstructured adaptive grid of triangles in the poloidal plane. They apply it to problems related to modeling tokamak toroidal plasmas. The toroidal direction is treated by a pseudospectral method. Care was taken to center variables appropriately on the mesh and to construct a self adjoint diffusion operator for cell centered variables.

  3. Adaptive Mesh Refinement in Computational Astrophysics -- Methods and Applications

    NASA Astrophysics Data System (ADS)

    Balsara, D.

    2001-12-01

    The advent of robust, reliable and accurate higher order Godunov schemes for many of the systems of equations of interest in computational astrophysics has made it important to understand how to solve them in multi-scale fashion. This is so because the physics associated with astrophysical phenomena evolves in multi-scale fashion and we wish to arrive at a multi-scale simulational capability to represent the physics. Because astrophysical systems have magnetic fields, multi-scale magnetohydrodynamics (MHD) is of especial interest. In this paper we first discuss general issues in adaptive mesh refinement (AMR). We then focus on the important issues in carrying out divergence-free AMR-MHD and catalogue the progress we have made in that area. We show that AMR methods lend themselves to easy parallelization. We then discuss applications of the RIEMANN framework for AMR-MHD to problems in computational astophysics.

  4. Structured adaptive mesh refinement on the connection machine

    SciTech Connect

    Berger, M.J. . Courant Inst. of Mathematical Sciences); Saltzman, J.S. )

    1993-01-01

    Adaptive mesh refinement has proven itself to be a useful tool in a large collection of applications. By refining only a small portion of the computational domain, computational savings of up to a factor of 80 in 3 dimensional calculations have been obtained on serial machines. A natural question is, can this algorithm be used on massively parallel machines and still achieve the same efficiencies We have designed a data layout scheme for mapping grid points to processors that preserves locality and minimizes global communication for the CM-200. The effect of the data layout scheme is that at the finest level nearby grid points from adjacent grids in physical space are in adjacent memory locations. Furthermore, coarse grid points are arranged in memory to be near their associated fine grid points. We show applications of the algorithm to inviscid compressible fluid flow in two space dimensions.

  5. Finite element adaptive mesh analysis using a cluster of workstations

    NASA Astrophysics Data System (ADS)

    Wang, K. P.; Bruch, J. C., Jr.

    1998-01-01

    Parallel computation on clusters of workstations is becoming one of the major trends in the study of parallel computations, because of their high computing speed, cost effectiveness and scalability. This paper presents studies of using a cluster of workstations for the finite element adaptive mesh analysis of a free surface seepage problem. A parallel algorithm proven to be simple to implement and efficient is used to perform the analysis. A network of workstations is used as the hardware of a parallel system. Two parallel software packages, P4 and PVM (parallel virtual machine), are used to handle communications among networked workstations. Computational issues to be discussed are domain decomposition, load balancing, and communication time.

  6. Production-quality Tools for Adaptive Mesh RefinementVisualization

    SciTech Connect

    Weber, Gunther H.; Childs, Hank; Bonnell, Kathleen; Meredith,Jeremy; Miller, Mark; Whitlock, Brad; Bethel, E. Wes

    2007-10-25

    Adaptive Mesh Refinement (AMR) is a highly effectivesimulation method for spanning a large range of spatiotemporal scales,such as astrophysical simulations that must accommodate ranges frominterstellar to sub-planetary. Most mainstream visualization tools stilllack support for AMR as a first class data type and AMR code teams usecustom built applications for AMR visualization. The Department ofEnergy's (DOE's) Science Discovery through Advanced Computing (SciDAC)Visualization and Analytics Center for Enabling Technologies (VACET) isextending and deploying VisIt, an open source visualization tool thataccommodates AMR as a first-class data type, for use asproduction-quality, parallel-capable AMR visual data analysisinfrastructure. This effort will help science teams that use AMR-basedsimulations and who develop their own AMR visual data analysis softwareto realize cost and labor savings.

  7. Unstructured and adaptive mesh generation for high Reynolds number viscous flows

    NASA Technical Reports Server (NTRS)

    Mavriplis, Dimitri J.

    1991-01-01

    A method for generating and adaptively refining a highly stretched unstructured mesh suitable for the computation of high-Reynolds-number viscous flows about arbitrary two-dimensional geometries was developed. The method is based on the Delaunay triangulation of a predetermined set of points and employs a local mapping in order to achieve the high stretching rates required in the boundary-layer and wake regions. The initial mesh-point distribution is determined in a geometry-adaptive manner which clusters points in regions of high curvature and sharp corners. Adaptive mesh refinement is achieved by adding new points in regions of large flow gradients, and locally retriangulating; thus, obviating the need for global mesh regeneration. Initial and adapted meshes about complex multi-element airfoil geometries are shown and compressible flow solutions are computed on these meshes.

  8. Novel adaptation of the demodulation technology for gear damage detection to variable amplitudes of mesh harmonics

    NASA Astrophysics Data System (ADS)

    Combet, F.; Gelman, L.

    2011-04-01

    In this paper, a novel adaptive demodulation technique including a new diagnostic feature is proposed for gear diagnosis in conditions of variable amplitudes of the mesh harmonics. This vibration technique employs the time synchronous average (TSA) of vibration signals. The new adaptive diagnostic feature is defined as the ratio of the sum of the sideband components of the envelope spectrum of a mesh harmonic to the measured power of the mesh harmonic. The proposed adaptation of the technique is justified theoretically and experimentally by the high level of the positive covariance between amplitudes of the mesh harmonics and the sidebands in conditions of variable amplitudes of the mesh harmonics. It is shown that the adaptive demodulation technique preserves effectiveness of local fault detection of gears operating in conditions of variable mesh amplitudes.

  9. Unstructured adaptive mesh computations of rotorcraft high-speed impulsive noise

    NASA Technical Reports Server (NTRS)

    Strawn, Roger; Garceau, Michael; Biswas, Rupak

    1993-01-01

    A new method is developed for modeling helicopter high-speed impulsive (HSI) noise. The aerodynamics and acoustics near the rotor blade tip are computed by solving the Euler equations on an unstructured grid. A stationary Kirchhoff surface integral is then used to propagate these acoustic signals to the far field. The near-field Euler solver uses a solution-adaptive grid scheme to improve the resolution of the acoustic signal. Grid points are locally added and/or deleted from the mesh at each adaptive step. An important part of this procedure is the choice of an appropriate error indicator. The error indicator is computed from the flow field solution and determines the regions for mesh coarsening and refinement. Computed results for HSI noise compare favorably with experimental data for three different hovering rotor cases.

  10. Adaptive Multiresolution or Adaptive Mesh Refinement? A Case Study for 2D Euler Equations

    SciTech Connect

    Deiterding, Ralf; Domingues, Margarete O.; Gomes, Sonia M.; Roussel, Olivier; Schneider, Kai

    2009-01-01

    We present adaptive multiresolution (MR) computations of the two-dimensional compressible Euler equations for a classical Riemann problem. The results are then compared with respect to accuracy and computational efficiency, in terms of CPU time and memory requirements, with the corresponding finite volume scheme on a regular grid. For the same test-case, we also perform computations using adaptive mesh refinement (AMR) imposing similar accuracy requirements. The results thus obtained are compared in terms of computational overhead and compression of the computational grid, using in addition either local or global time stepping strategies. We preliminarily conclude that the multiresolution techniques yield improved memory compression and gain in CPU time with respect to the adaptive mesh refinement method.

  11. Fluidity: a fully-unstructured adaptive mesh computational framework for geodynamics

    NASA Astrophysics Data System (ADS)

    Kramer, S. C.; Davies, D.; Wilson, C. R.

    2010-12-01

    Fluidity is a finite element, finite volume fluid dynamics model developed by the Applied Modelling and Computation Group at Imperial College London. Several features of the model make it attractive for use in geodynamics. A core finite element library enables the rapid implementation and investigation of new numerical schemes. For example, the function spaces used for each variable can be changed allowing properties of the discretisation, such as stability, conservation and balance, to be easily varied and investigated. Furthermore, unstructured, simplex meshes allow the underlying resolution to vary rapidly across the computational domain. Combined with dynamic mesh adaptivity, where the mesh is periodically optimised to the current conditions, this allows significant savings in computational cost over traditional chessboard-like structured mesh simulations [1]. In this study we extend Fluidity (using the Portable, Extensible Toolkit for Scientific Computation [PETSc, 2]) to Stokes flow problems relevant to geodynamics. However, due to the assumptions inherent in all models, it is necessary to properly verify and validate the code before applying it to any large-scale problems. In recent years this has been made easier by the publication of a series of ‘community benchmarks’ for geodynamic modelling. We discuss the use of several of these to help validate Fluidity [e.g. 3, 4]. The experimental results of Vatteville et al. [5] are then used to validate Fluidity against laboratory measurements. This test case is also used to highlight the computational advantages of using adaptive, unstructured meshes - significantly reducing the number of nodes and total CPU time required to match a fixed mesh simulation. References: 1. C. C. Pain et al. Comput. Meth. Appl. M, 190:3771-3796, 2001. doi:10.1016/S0045-7825(00)00294-2. 2. B. Satish et al. http://www.mcs.anl.gov/petsc/petsc-2/, 2001. 3. Blankenbach et al. Geophys. J. Int., 98:23-28, 1989. 4. Busse et al. Geophys

  12. Lung lobe modeling and segmentation with individualized surface meshes

    NASA Astrophysics Data System (ADS)

    Blaffert, Thomas; Barschdorf, Hans; von Berg, Jens; Dries, Sebastian; Franz, Astrid; Klinder, Tobias; Lorenz, Cristian; Renisch, Steffen; Wiemker, Rafael

    2008-03-01

    An automated segmentation of lung lobes in thoracic CT images is of interest for various diagnostic purposes like the quantification of emphysema or the localization of tumors within the lung. Although the separating lung fissures are visible in modern multi-slice CT-scanners, their contrast in the CT-image often does not separate the lobes completely. This makes it impossible to build a reliable segmentation algorithm without additional information. Our approach uses general anatomical knowledge represented in a geometrical mesh model to construct a robust lobe segmentation, which even gives reasonable estimates of lobe volumes if fissures are not visible at all. The paper describes the generation of the lung model mesh including lobes by an average volume model, its adaptation to individual patient data using a special fissure feature image, and a performance evaluation over a test data set showing an average segmentation accuracy of 1 to 3 mm.

  13. Implicit adaptive mesh refinement for 2D reduced resistive magnetohydrodynamics

    NASA Astrophysics Data System (ADS)

    Philip, Bobby; Chacón, Luis; Pernice, Michael

    2008-10-01

    An implicit structured adaptive mesh refinement (SAMR) solver for 2D reduced magnetohydrodynamics (MHD) is described. The time-implicit discretization is able to step over fast normal modes, while the spatial adaptivity resolves thin, dynamically evolving features. A Jacobian-free Newton-Krylov method is used for the nonlinear solver engine. For preconditioning, we have extended the optimal "physics-based" approach developed in [L. Chacón, D.A. Knoll, J.M. Finn, An implicit, nonlinear reduced resistive MHD solver, J. Comput. Phys. 178 (2002) 15-36] (which employed multigrid solver technology in the preconditioner for scalability) to SAMR grids using the well-known Fast Adaptive Composite grid (FAC) method [S. McCormick, Multilevel Adaptive Methods for Partial Differential Equations, SIAM, Philadelphia, PA, 1989]. A grid convergence study demonstrates that the solver performance is independent of the number of grid levels and only depends on the finest resolution considered, and that it scales well with grid refinement. The study of error generation and propagation in our SAMR implementation demonstrates that high-order (cubic) interpolation during regridding, combined with a robustly damping second-order temporal scheme such as BDF2, is required to minimize impact of grid errors at coarse-fine interfaces on the overall error of the computation for this MHD application. We also demonstrate that our implementation features the desired property that the overall numerical error is dependent only on the finest resolution level considered, and not on the base-grid resolution or on the number of refinement levels present during the simulation. We demonstrate the effectiveness of the tool on several challenging problems.

  14. Curved Mesh Correction And Adaptation Tool to Improve COMPASS Electromagnetic Analyses

    SciTech Connect

    Luo, X.; Shephard, M.; Lee, L.Q.; Ng, C.; Ge, L.; /SLAC

    2011-11-14

    SLAC performs large-scale simulations for the next-generation accelerator design using higher-order finite elements. This method requires using valid curved meshes and adaptive mesh refinement in complex 3D curved domains to achieve its fast rate of convergence. ITAPS has developed a procedure to address those mesh requirements to enable petascale electromagnetic accelerator simulations by SLAC. The results demonstrate that those correct valid curvilinear meshes can not only make the simulation more reliable but also improve computational efficiency up to 30%. This paper presents a procedure to track moving adaptive mesh refinement in curved domains. The procedure is capable of generating suitable curvilinear meshes to enable large-scale accelerator simulations. The procedure can generate valid curved meshes with substantially fewer elements to improve the computational efficiency and reliability of the COMPASS electromagnetic analyses. Future work will focus on the scalable parallelization of all steps for petascale simulations.

  15. Analysis of hypersonic aircraft inlets using flow adaptive mesh algorithms

    NASA Astrophysics Data System (ADS)

    Neaves, Michael Dean

    The numerical investigation into the dynamics of unsteady inlet flowfields is applied to a three-dimensional scramjet inlet-isolator-diffuser geometry designed for hypersonic type applications. The Reynolds-Averaged Navier-Stokes equations are integrated in time using a subiterating, time-accurate implicit algorithm. Inviscid fluxes are calculated using the Low Diffusion Flux Splitting Scheme of Edwards. A modified version of the dynamic solution-adaptive point movement algorithm of Benson and McRae is used in a coupled mode to dynamically resolve the features of the flow by enhancing the spatial accuracy of the simulations. The unsteady mesh terms are incorporated into the flow solver via the inviscid fluxes. The dynamic solution-adaptive grid algorithm of Benson and McRae is modified to improve orthogonality at the boundaries to ensure accurate application of boundary conditions and properly resolve turbulent boundary layers. Shock tube simulations are performed to ascertain the effectiveness of the algorithm for unsteady flow situations on fixed and moving grids. Unstarts due to a combustor and freestream angle of attack perturbations are simulated in a three-dimensional inlet-isolator-diffuser configuration.

  16. Advanced Geologic Modeling Using CAD and Unstructured Meshes

    NASA Astrophysics Data System (ADS)

    Melnikova, Y.; Jacquemyn, C.; Osman, H.; Gorman, G.; Hampson, G.; Jackson, M.

    2015-12-01

    Capturing complex, multiscale geologic heterogeneity in subsurface flow models is challenging. Surface-based modeling (SBM) offers an alternative approach to conventional grid-based methods. In SBM, all geologic features that impact the distribution of material properties, such as porosity and permeability, are modeled as volumes bounded by surfaces. Within these volumes, termed geologic domains, the material properties are constant. A typical model contains numerous such domains. The surfaces have parametric, grid-free representation which, in principle, allows for unlimited complexity, since no resolution is implied at the stage of modeling and features of any scale can be included. We demonstrate a method to create stochastic, surface-based models using computer aided design (CAD) and efficiently discretise them for flow simulation. The surfaces are represented using non-uniform, rational B-splines (NURBS), and processed in a CAD environment employing Boolean operations. We show examples of fluvial channels, fracture networks and scour events. Cartesian-like grids are not able to capture the complex geometries in these models without using excessively large numbers of grid blocks. Unstructured meshes can more efficiently approximate the geometries. However, high aspect ratio features and varying curvatures present challenges for algorithms to produce quality, unstructured meshes without excessive user interaction. We contribute an automated integrated workflow that processes the input geometry created in the CAD environment, creates the final model, and discretises it with a quality tetrahedral mesh. For computational efficiency, we use a geometry-adaptive mesh that distributes the element density and size in accordance with the geometrical complexity of the model. We show examples of finite-element flow simulations of the resulting geologic models. The new approach has broad application in modeling subsurface flow.

  17. Adaptively deformed mesh based interface method for elliptic equations with discontinuous coefficients

    PubMed Central

    Xia, Kelin; Zhan, Meng; Wan, Decheng; Wei, Guo-Wei

    2011-01-01

    Mesh deformation methods are a versatile strategy for solving partial differential equations (PDEs) with a vast variety of practical applications. However, these methods break down for elliptic PDEs with discontinuous coefficients, namely, elliptic interface problems. For this class of problems, the additional interface jump conditions are required to maintain the well-posedness of the governing equation. Consequently, in order to achieve high accuracy and high order convergence, additional numerical algorithms are required to enforce the interface jump conditions in solving elliptic interface problems. The present work introduces an interface technique based adaptively deformed mesh strategy for resolving elliptic interface problems. We take the advantages of the high accuracy, flexibility and robustness of the matched interface and boundary (MIB) method to construct an adaptively deformed mesh based interface method for elliptic equations with discontinuous coefficients. The proposed method generates deformed meshes in the physical domain and solves the transformed governed equations in the computational domain, which maintains regular Cartesian meshes. The mesh deformation is realized by a mesh transformation PDE, which controls the mesh redistribution by a source term. The source term consists of a monitor function, which builds in mesh contraction rules. Both interface geometry based deformed meshes and solution gradient based deformed meshes are constructed to reduce the L∞ and L2 errors in solving elliptic interface problems. The proposed adaptively deformed mesh based interface method is extensively validated by many numerical experiments. Numerical results indicate that the adaptively deformed mesh based interface method outperforms the original MIB method for dealing with elliptic interface problems. PMID:22586356

  18. An object-oriented approach for parallel self adaptive mesh refinement on block structured grids

    NASA Technical Reports Server (NTRS)

    Lemke, Max; Witsch, Kristian; Quinlan, Daniel

    1993-01-01

    Self-adaptive mesh refinement dynamically matches the computational demands of a solver for partial differential equations to the activity in the application's domain. In this paper we present two C++ class libraries, P++ and AMR++, which significantly simplify the development of sophisticated adaptive mesh refinement codes on (massively) parallel distributed memory architectures. The development is based on our previous research in this area. The C++ class libraries provide abstractions to separate the issues of developing parallel adaptive mesh refinement applications into those of parallelism, abstracted by P++, and adaptive mesh refinement, abstracted by AMR++. P++ is a parallel array class library to permit efficient development of architecture independent codes for structured grid applications, and AMR++ provides support for self-adaptive mesh refinement on block-structured grids of rectangular non-overlapping blocks. Using these libraries, the application programmers' work is greatly simplified to primarily specifying the serial single grid application and obtaining the parallel and self-adaptive mesh refinement code with minimal effort. Initial results for simple singular perturbation problems solved by self-adaptive multilevel techniques (FAC, AFAC), being implemented on the basis of prototypes of the P++/AMR++ environment, are presented. Singular perturbation problems frequently arise in large applications, e.g. in the area of computational fluid dynamics. They usually have solutions with layers which require adaptive mesh refinement and fast basic solvers in order to be resolved efficiently.

  19. CONSTRAINED-TRANSPORT MAGNETOHYDRODYNAMICS WITH ADAPTIVE MESH REFINEMENT IN CHARM

    SciTech Connect

    Miniati, Francesco; Martin, Daniel F. E-mail: DFMartin@lbl.gov

    2011-07-01

    We present the implementation of a three-dimensional, second-order accurate Godunov-type algorithm for magnetohydrodynamics (MHD) in the adaptive-mesh-refinement (AMR) cosmological code CHARM. The algorithm is based on the full 12-solve spatially unsplit corner-transport-upwind (CTU) scheme. The fluid quantities are cell-centered and are updated using the piecewise-parabolic method (PPM), while the magnetic field variables are face-centered and are evolved through application of the Stokes theorem on cell edges via a constrained-transport (CT) method. The so-called multidimensional MHD source terms required in the predictor step for high-order accuracy are applied in a simplified form which reduces their complexity in three dimensions without loss of accuracy or robustness. The algorithm is implemented on an AMR framework which requires specific synchronization steps across refinement levels. These include face-centered restriction and prolongation operations and a reflux-curl operation, which maintains a solenoidal magnetic field across refinement boundaries. The code is tested against a large suite of test problems, including convergence tests in smooth flows, shock-tube tests, classical two- and three-dimensional MHD tests, a three-dimensional shock-cloud interaction problem, and the formation of a cluster of galaxies in a fully cosmological context. The magnetic field divergence is shown to remain negligible throughout.

  20. An adaptive mesh refinement algorithm for the discrete ordinates method

    SciTech Connect

    Jessee, J.P.; Fiveland, W.A.; Howell, L.H.; Colella, P.; Pember, R.B.

    1996-03-01

    The discrete ordinates form of the radiative transport equation (RTE) is spatially discretized and solved using an adaptive mesh refinement (AMR) algorithm. This technique permits the local grid refinement to minimize spatial discretization error of the RTE. An error estimator is applied to define regions for local grid refinement; overlapping refined grids are recursively placed in these regions; and the RTE is then solved over the entire domain. The procedure continues until the spatial discretization error has been reduced to a sufficient level. The following aspects of the algorithm are discussed: error estimation, grid generation, communication between refined levels, and solution sequencing. This initial formulation employs the step scheme, and is valid for absorbing and isotopically scattering media in two-dimensional enclosures. The utility of the algorithm is tested by comparing the convergence characteristics and accuracy to those of the standard single-grid algorithm for several benchmark cases. The AMR algorithm provides a reduction in memory requirements and maintains the convergence characteristics of the standard single-grid algorithm; however, the cases illustrate that efficiency gains of the AMR algorithm will not be fully realized until three-dimensional geometries are considered.

  1. Global Load Balancing with Parallel Mesh Adaption on Distributed-Memory Systems

    NASA Technical Reports Server (NTRS)

    Biswas, Rupak; Oliker, Leonid; Sohn, Andrew

    1996-01-01

    Dynamic mesh adaption on unstructured grids is a powerful tool for efficiently computing unsteady problems to resolve solution features of interest. Unfortunately, this causes load imbalance among processors on a parallel machine. This paper describes the parallel implementation of a tetrahedral mesh adaption scheme and a new global load balancing method. A heuristic remapping algorithm is presented that assigns partitions to processors such that the redistribution cost is minimized. Results indicate that the parallel performance of the mesh adaption code depends on the nature of the adaption region and show a 35.5X speedup on 64 processors of an SP2 when 35% of the mesh is randomly adapted. For large-scale scientific computations, our load balancing strategy gives almost a sixfold reduction in solver execution times over non-balanced loads. Furthermore, our heuristic remapper yields processor assignments that are less than 3% off the optimal solutions but requires only 1% of the computational time.

  2. A Robust and Scalable Software Library for Parallel Adaptive Refinement on Unstructured Meshes

    NASA Technical Reports Server (NTRS)

    Lou, John Z.; Norton, Charles D.; Cwik, Thomas A.

    1999-01-01

    The design and implementation of Pyramid, a software library for performing parallel adaptive mesh refinement (PAMR) on unstructured meshes, is described. This software library can be easily used in a variety of unstructured parallel computational applications, including parallel finite element, parallel finite volume, and parallel visualization applications using triangular or tetrahedral meshes. The library contains a suite of well-designed and efficiently implemented modules that perform operations in a typical PAMR process. Among these are mesh quality control during successive parallel adaptive refinement (typically guided by a local-error estimator), parallel load-balancing, and parallel mesh partitioning using the ParMeTiS partitioner. The Pyramid library is implemented in Fortran 90 with an interface to the Message-Passing Interface (MPI) library, supporting code efficiency, modularity, and portability. An EM waveguide filter application, adaptively refined using the Pyramid library, is illustrated.

  3. Using Adaptive Mesh Refinment to Simulate Storm Surge

    NASA Astrophysics Data System (ADS)

    Mandli, K. T.; Dawson, C.

    2012-12-01

    Coastal hazards related to strong storms such as hurricanes and typhoons are one of the most frequently recurring and wide spread hazards to coastal communities. Storm surges are among the most devastating effects of these storms, and their prediction and mitigation through numerical simulations is of great interest to coastal communities that need to plan for the subsequent rise in sea level during these storms. Unfortunately these simulations require a large amount of resolution in regions of interest to capture relevant effects resulting in a computational cost that may be intractable. This problem is exacerbated in situations where a large number of similar runs is needed such as in design of infrastructure or forecasting with ensembles of probable storms. One solution to address the problem of computational cost is to employ adaptive mesh refinement (AMR) algorithms. AMR functions by decomposing the computational domain into regions which may vary in resolution as time proceeds. Decomposing the domain as the flow evolves makes this class of methods effective at ensuring that computational effort is spent only where it is needed. AMR also allows for placement of computational resolution independent of user interaction and expectation of the dynamics of the flow as well as particular regions of interest such as harbors. The simulation of many different applications have only been made possible by using AMR-type algorithms, which have allowed otherwise impractical simulations to be performed for much less computational expense. Our work involves studying how storm surge simulations can be improved with AMR algorithms. We have implemented relevant storm surge physics in the GeoClaw package and tested how Hurricane Ike's surge into Galveston Bay and up the Houston Ship Channel compares to available tide gauge data. We will also discuss issues dealing with refinement criteria, optimal resolution and refinement ratios, and inundation.

  4. RAM: a Relativistic Adaptive Mesh Refinement Hydrodynamics Code

    SciTech Connect

    Zhang, Wei-Qun; MacFadyen, Andrew I.; /Princeton, Inst. Advanced Study

    2005-06-06

    The authors have developed a new computer code, RAM, to solve the conservative equations of special relativistic hydrodynamics (SRHD) using adaptive mesh refinement (AMR) on parallel computers. They have implemented a characteristic-wise, finite difference, weighted essentially non-oscillatory (WENO) scheme using the full characteristic decomposition of the SRHD equations to achieve fifth-order accuracy in space. For time integration they use the method of lines with a third-order total variation diminishing (TVD) Runge-Kutta scheme. They have also implemented fourth and fifth order Runge-Kutta time integration schemes for comparison. The implementation of AMR and parallelization is based on the FLASH code. RAM is modular and includes the capability to easily swap hydrodynamics solvers, reconstruction methods and physics modules. In addition to WENO they have implemented a finite volume module with the piecewise parabolic method (PPM) for reconstruction and the modified Marquina approximate Riemann solver to work with TVD Runge-Kutta time integration. They examine the difficulty of accurately simulating shear flows in numerical relativistic hydrodynamics codes. They show that under-resolved simulations of simple test problems with transverse velocity components produce incorrect results and demonstrate the ability of RAM to correctly solve these problems. RAM has been tested in one, two and three dimensions and in Cartesian, cylindrical and spherical coordinates. they have demonstrated fifth-order accuracy for WENO in one and two dimensions and performed detailed comparison with other schemes for which they show significantly lower convergence rates. Extensive testing is presented demonstrating the ability of RAM to address challenging open questions in relativistic astrophysics.

  5. Development of three-dimensional hydrodynamical and MHD codes using Adaptive Mesh Refinement scheme with TVD

    NASA Astrophysics Data System (ADS)

    den, M.; Yamashita, K.; Ogawa, T.

    A three-dimensional (3D) hydrodynamical (HD) and magneto-hydrodynamical (MHD) simulation codes using an adaptive mesh refinement (AMR) scheme are developed. This method places fine grids over areas of interest such as shock waves in order to obtain high resolution and places uniform grids with lower resolution in other area. Thus AMR scheme can provide a combination of high solution accuracy and computational robustness. We demonstrate numerical results for a simplified model of a shock propagation, which strongly indicate that the AMR techniques have the ability to resolve disturbances in an interplanetary space. We also present simulation results for MHD code.

  6. A Parallel Implementation of Multilevel Recursive Spectral Bisection for Application to Adaptive Unstructured Meshes. Chapter 1

    NASA Technical Reports Server (NTRS)

    Barnard, Stephen T.; Simon, Horst; Lasinski, T. A. (Technical Monitor)

    1994-01-01

    The design of a parallel implementation of multilevel recursive spectral bisection is described. The goal is to implement a code that is fast enough to enable dynamic repartitioning of adaptive meshes.

  7. Importance of dynamic mesh adaptivity for simulation of viscous fingering in porous media

    NASA Astrophysics Data System (ADS)

    Mostaghimi, P.; Jackson, M.; Pain, C.; Gorman, G.

    2014-12-01

    Viscous fingering is a major concern in many natural and engineered processes such as water flooding of heavy-oil reservoirs. Common reservoir simulators employ low-order finite volume/difference methods on structured grids to resolve this phenomenon. However, their approach suffers from a significant numerical dispersion error along the fingering patterns due to insufficient mesh resolution and smears out some important features of the flow. We propose use of an unstructured control volume finite element method for simulation of viscous fingering in porous media. Our approach is equipped with anisotropic mesh adaptivity where the mesh resolution is optimized based on the evolving features of flow. The adaptive algorithm uses a metric tensor field based on solution error estimates to locally control the size and shape of elements in the metric. We resolve the viscous fingering patterns accurately and reduce the numerical dispersion error significantly. The mesh optimization, generates an unstructured coarse mesh in other regions of the computational domain which significantly decreases the computational cost. The effect of grid resolution on the resolved fingers is thoroughly investigated. We analyze the computational cost of mesh adaptivty on unstructured mesh and compare it with common finite volume methods. The results of this study suggests that mesh adaptivity is an efficient and accurate approach for resolving complex behaviors and instabilities of flow in porous media such as viscous fingering.

  8. Improved Simulation of Electrodiffusion in the Node of Ranvier by Mesh Adaptation

    PubMed Central

    Dione, Ibrahima; Briffard, Thomas; Doyon, Nicolas

    2016-01-01

    In neural structures with complex geometries, numerical resolution of the Poisson-Nernst-Planck (PNP) equations is necessary to accurately model electrodiffusion. This formalism allows one to describe ionic concentrations and the electric field (even away from the membrane) with arbitrary spatial and temporal resolution which is impossible to achieve with models relying on cable theory. However, solving the PNP equations on complex geometries involves handling intricate numerical difficulties related either to the spatial discretization, temporal discretization or the resolution of the linearized systems, often requiring large computational resources which have limited the use of this approach. In the present paper, we investigate the best ways to use the finite elements method (FEM) to solve the PNP equations on domains with discontinuous properties (such as occur at the membrane-cytoplasm interface). 1) Using a simple 2D geometry to allow comparison with analytical solution, we show that mesh adaptation is a very (if not the most) efficient way to obtain accurate solutions while limiting the computational efforts, 2) We use mesh adaptation in a 3D model of a node of Ranvier to reveal details of the solution which are nearly impossible to resolve with other modelling techniques. For instance, we exhibit a non linear distribution of the electric potential within the membrane due to the non uniform width of the myelin and investigate its impact on the spatial profile of the electric field in the Debye layer. PMID:27548674

  9. Improved Simulation of Electrodiffusion in the Node of Ranvier by Mesh Adaptation.

    PubMed

    Dione, Ibrahima; Deteix, Jean; Briffard, Thomas; Chamberland, Eric; Doyon, Nicolas

    2016-01-01

    In neural structures with complex geometries, numerical resolution of the Poisson-Nernst-Planck (PNP) equations is necessary to accurately model electrodiffusion. This formalism allows one to describe ionic concentrations and the electric field (even away from the membrane) with arbitrary spatial and temporal resolution which is impossible to achieve with models relying on cable theory. However, solving the PNP equations on complex geometries involves handling intricate numerical difficulties related either to the spatial discretization, temporal discretization or the resolution of the linearized systems, often requiring large computational resources which have limited the use of this approach. In the present paper, we investigate the best ways to use the finite elements method (FEM) to solve the PNP equations on domains with discontinuous properties (such as occur at the membrane-cytoplasm interface). 1) Using a simple 2D geometry to allow comparison with analytical solution, we show that mesh adaptation is a very (if not the most) efficient way to obtain accurate solutions while limiting the computational efforts, 2) We use mesh adaptation in a 3D model of a node of Ranvier to reveal details of the solution which are nearly impossible to resolve with other modelling techniques. For instance, we exhibit a non linear distribution of the electric potential within the membrane due to the non uniform width of the myelin and investigate its impact on the spatial profile of the electric field in the Debye layer.

  10. Improved Simulation of Electrodiffusion in the Node of Ranvier by Mesh Adaptation.

    PubMed

    Dione, Ibrahima; Deteix, Jean; Briffard, Thomas; Chamberland, Eric; Doyon, Nicolas

    2016-01-01

    In neural structures with complex geometries, numerical resolution of the Poisson-Nernst-Planck (PNP) equations is necessary to accurately model electrodiffusion. This formalism allows one to describe ionic concentrations and the electric field (even away from the membrane) with arbitrary spatial and temporal resolution which is impossible to achieve with models relying on cable theory. However, solving the PNP equations on complex geometries involves handling intricate numerical difficulties related either to the spatial discretization, temporal discretization or the resolution of the linearized systems, often requiring large computational resources which have limited the use of this approach. In the present paper, we investigate the best ways to use the finite elements method (FEM) to solve the PNP equations on domains with discontinuous properties (such as occur at the membrane-cytoplasm interface). 1) Using a simple 2D geometry to allow comparison with analytical solution, we show that mesh adaptation is a very (if not the most) efficient way to obtain accurate solutions while limiting the computational efforts, 2) We use mesh adaptation in a 3D model of a node of Ranvier to reveal details of the solution which are nearly impossible to resolve with other modelling techniques. For instance, we exhibit a non linear distribution of the electric potential within the membrane due to the non uniform width of the myelin and investigate its impact on the spatial profile of the electric field in the Debye layer. PMID:27548674

  11. Software abstractions and computational issues in parallel structure adaptive mesh methods for electronic structure calculations

    SciTech Connect

    Kohn, S.; Weare, J.; Ong, E.; Baden, S.

    1997-05-01

    We have applied structured adaptive mesh refinement techniques to the solution of the LDA equations for electronic structure calculations. Local spatial refinement concentrates memory resources and numerical effort where it is most needed, near the atomic centers and in regions of rapidly varying charge density. The structured grid representation enables us to employ efficient iterative solver techniques such as conjugate gradient with FAC multigrid preconditioning. We have parallelized our solver using an object- oriented adaptive mesh refinement framework.

  12. Finite-volume goal-oriented mesh adaptation for aerodynamics using functional derivative with respect to nodal coordinates

    NASA Astrophysics Data System (ADS)

    Todarello, Giovanni; Vonck, Floris; Bourasseau, Sébastien; Peter, Jacques; Désidéri, Jean-Antoine

    2016-05-01

    A new goal-oriented mesh adaptation method for finite volume/finite difference schemes is extended from the structured mesh framework to a more suitable setting for adaptation of unstructured meshes. The method is based on the total derivative of the goal with respect to volume mesh nodes that is computable after the solution of the goal discrete adjoint equation. The asymptotic behaviour of this derivative is assessed on regularly refined unstructured meshes. A local refinement criterion is derived from the requirement of limiting the first order change in the goal that an admissible node displacement may cause. Mesh adaptations are then carried out for classical test cases of 2D Euler flows. Efficiency and local density of the adapted meshes are presented. They are compared with those obtained with a more classical mesh adaptation method in the framework of finite volume/finite difference schemes [46]. Results are very close although the present method only makes usage of the current grid.

  13. Efficient simulation of three-dimensional anisotropic cardiac tissue using an adaptive mesh refinement method.

    PubMed

    Cherry, Elizabeth M; Greenside, Henry S; Henriquez, Craig S

    2003-09-01

    A recently developed space-time adaptive mesh refinement algorithm (AMRA) for simulating isotropic one- and two-dimensional excitable media is generalized to simulate three-dimensional anisotropic media. The accuracy and efficiency of the algorithm is investigated for anisotropic and inhomogeneous 2D and 3D domains using the Luo-Rudy 1 (LR1) and FitzHugh-Nagumo models. For a propagating wave in a 3D slab of tissue with LR1 membrane kinetics and rotational anisotropy comparable to that found in the human heart, factors of 50 and 30 are found, respectively, for the speedup and for the savings in memory compared to an algorithm using a uniform space-time mesh at the finest resolution of the AMRA method. For anisotropic 2D and 3D media, we find no reduction in accuracy compared to a uniform space-time mesh. These results suggest that the AMRA will be able to simulate the 3D electrical dynamics of canine ventricles quantitatively for 1 s using 32 1-GHz Alpha processors in approximately 9 h.

  14. Cell-based Adaptive Mesh Refinement on the GPU with Applications to Exascale Supercomputing

    NASA Astrophysics Data System (ADS)

    Trujillo, Dennis; Robey, Robert; Davis, Neal; Nicholaeff, David

    2011-10-01

    We present an OpenCL implementation of a cell-based adaptive mesh refinement (AMR) scheme for the shallow water equations. The challenges associated with ensuring the locality of algorithm architecture to fully exploit the massive number of parallel threads on the GPU is discussed. This includes a proof of concept that a cell-based AMR code can be effectively implemented, even on a small scale, in the memory and threading model provided by OpenCL. Additionally, the program requires dynamic memory in order to properly implement the mesh; as this is not supported in the OpenCL 1.1 standard, a combination of CPU memory management and GPU computation effectively implements a dynamic memory allocation scheme. Load balancing is achieved through a new stencil-based implementation of a space-filling curve, eliminating the need for a complete recalculation of the indexing on the mesh. A cartesian grid hash table scheme to allow fast parallel neighbor accesses is also discussed. Finally, the relative speedup of the GPU-enabled AMR code is compared to the original serial version. We conclude that parallelization using the GPU provides significant speedup for typical numerical applications and is feasible for scientific applications in the next generation of supercomputing.

  15. Star formation with adaptive mesh refinement and magnetohydrodynamics

    NASA Astrophysics Data System (ADS)

    Collins, David C.

    2009-01-01

    In this thesis, we develop an adaptive mesh refinement (AMR) code including magnetic fields, and use it to perform high resolution simulations of magnetized molecular clouds. The purpose of these simulations is to study present day star formation in the presence of turbulence and magnetic fields. We first present MHDEnzo, the extension of the cosmology and astrophysics code Enzo to include the effects magnetic fields. We use a higher order Godunov Riemann solver for the computation of interface fluxes; constrained transport to compute the electric field from those interface fluxes, which advances the induction equation in a divergence free manner; divergence free reconstruction technique to interpolate the magnetic fields to fine grids; operator splitting to include gravity and cosmological expansion. We present a series of test problems to demonstrate the quality of solution achieved. Additionally, we present several other solvers that were developed along the way. Finally we present the results from several AMR simulations that study isothermal turbulence in the presence of magnetic fields and self gravity. Ten simulations with initial Mach number 8.9 were studied varying several parameters; virial parameter a from 0.52 to 3.1; whether they were continuously stirred or allowed to decay; and the number of refinement levels (4 or 6). Measurements of the density probability density function (PDF) were made, showing both the expected log normal distribution and an additional power law. Measurements of the line of sight magnetic field vs. column density are done, giving excellent agreement with recent observations. The line width vs. size relationship is measured and compared with good agreement to observations, reproducing both turbulent and collapse signatures The core mass distribution is measured and agrees well with observations of Serpens and Perseus core samples, but the power-law distribution in Ophiuchus is not reproduced by our simulations. Finally we

  16. Standard and goal-oriented adaptive mesh refinement applied to radiation transport on 2D unstructured triangular meshes

    SciTech Connect

    Yaqi Wang; Jean C. Ragusa

    2011-02-01

    Standard and goal-oriented adaptive mesh refinement (AMR) techniques are presented for the linear Boltzmann transport equation. A posteriori error estimates are employed to drive the AMR process and are based on angular-moment information rather than on directional information, leading to direction-independent adapted meshes. An error estimate based on a two-mesh approach and a jump-based error indicator are compared for various test problems. In addition to the standard AMR approach, where the global error in the solution is diminished, a goal-oriented AMR procedure is devised and aims at reducing the error in user-specified quantities of interest. The quantities of interest are functionals of the solution and may include, for instance, point-wise flux values or average reaction rates in a subdomain. A high-order (up to order 4) Discontinuous Galerkin technique with standard upwinding is employed for the spatial discretization; the discrete ordinates method is used to treat the angular variable.

  17. Higher-order schemes with CIP method and adaptive Soroban grid towards mesh-free scheme

    NASA Astrophysics Data System (ADS)

    Yabe, Takashi; Mizoe, Hiroki; Takizawa, Kenji; Moriki, Hiroshi; Im, Hyo-Nam; Ogata, Youichi

    2004-02-01

    A new class of body-fitted grid system that can keep the third-order accuracy in time and space is proposed with the help of the CIP (constrained interpolation profile/cubic interpolated propagation) method. The grid system consists of the straight lines and grid points moving along these lines like abacus - Soroban in Japanese. The length of each line and the number of grid points in each line can be different. The CIP scheme is suitable to this mesh system and the calculation of large CFL (>10) at locally refined mesh is easily performed. Mesh generation and searching of upstream departure point are very simple and almost mesh-free treatment is possible. Adaptive grid movement and local mesh refinement are demonstrated.

  18. An Adaptive Mesh Refinement Strategy for Immersed Boundary/Interface Methods.

    PubMed

    Li, Zhilin; Song, Peng

    2012-01-01

    An adaptive mesh refinement strategy is proposed in this paper for the Immersed Boundary and Immersed Interface methods for two-dimensional elliptic interface problems involving singular sources. The interface is represented by the zero level set of a Lipschitz function φ(x,y). Our adaptive mesh refinement is done within a small tube of |φ(x,y)|≤ δ with finer Cartesian meshes. The discrete linear system of equations is solved by a multigrid solver. The AMR methods could obtain solutions with accuracy that is similar to those on a uniform fine grid by distributing the mesh more economically, therefore, reduce the size of the linear system of the equations. Numerical examples presented show the efficiency of the grid refinement strategy.

  19. An Adaptive Mesh Refinement Strategy for Immersed Boundary/Interface Methods

    PubMed Central

    Li, Zhilin; Song, Peng

    2012-01-01

    An adaptive mesh refinement strategy is proposed in this paper for the Immersed Boundary and Immersed Interface methods for two-dimensional elliptic interface problems involving singular sources. The interface is represented by the zero level set of a Lipschitz function φ(x,y). Our adaptive mesh refinement is done within a small tube of |φ(x,y)|≤ δ with finer Cartesian meshes. The discrete linear system of equations is solved by a multigrid solver. The AMR methods could obtain solutions with accuracy that is similar to those on a uniform fine grid by distributing the mesh more economically, therefore, reduce the size of the linear system of the equations. Numerical examples presented show the efficiency of the grid refinement strategy. PMID:22670155

  20. Multifluid adaptive-mesh simulation of the solar wind interaction with the local interstellar medium

    SciTech Connect

    Kryukov, I. A.; Borovikov, S. N.; Pogorelov, N. V.; Zank, G. P.

    2006-09-26

    DOE's SciDAC adaptive mesh refinement code Chombo has been modified for solution of compressible MHD flows with the application of high resolution, shock-capturing numerical schemes. The code developed is further extended to involve multiple fluids and applied to the problem of the solar wind interaction with the local interstellar medium. For this purpose, a set of MHD equations is solved together with a few sets of the Euler gas dynamics equations, depending on the number of neutral fluids included in the model. Our first results are presented that were obtained in the framework of an axially symmetric multifluid model which is applicable to magnetic-field-aligned flows. Details are shown of the generation and development of Rayleigh-Taylor and Kelvin-Helmholtz instabilities of the heliopause. A comparison is given of the results obtained with a two- and four-fluid models.

  1. Design of computer-generated beam-shaping holograms by iterative finite-element mesh adaption.

    PubMed

    Dresel, T; Beyerlein, M; Schwider, J

    1996-12-10

    Computer-generated phase-only holograms can be used for laser beam shaping, i.e., for focusing a given aperture with intensity and phase distributions into a pregiven intensity pattern in their focal planes. A numerical approach based on iterative finite-element mesh adaption permits the design of appropriate phase functions for the task of focusing into two-dimensional reconstruction patterns. Both the hologram aperture and the reconstruction pattern are covered by mesh mappings. An iterative procedure delivers meshes with intensities equally distributed over the constituting elements. This design algorithm adds new elementary focuser functions to what we call object-oriented hologram design. Some design examples are discussed.

  2. ENZO+MORAY: radiation hydrodynamics adaptive mesh refinement simulations with adaptive ray tracing

    NASA Astrophysics Data System (ADS)

    Wise, John H.; Abel, Tom

    2011-07-01

    We describe a photon-conserving radiative transfer algorithm, using a spatially-adaptive ray-tracing scheme, and its parallel implementation into the adaptive mesh refinement cosmological hydrodynamics code ENZO. By coupling the solver with the energy equation and non-equilibrium chemistry network, our radiation hydrodynamics framework can be utilized to study a broad range of astrophysical problems, such as stellar and black hole feedback. Inaccuracies can arise from large time-steps and poor sampling; therefore, we devised an adaptive time-stepping scheme and a fast approximation of the optically-thin radiation field with multiple sources. We test the method with several radiative transfer and radiation hydrodynamics tests that are given in Iliev et al. We further test our method with more dynamical situations, for example, the propagation of an ionization front through a Rayleigh-Taylor instability, time-varying luminosities and collimated radiation. The test suite also includes an expanding H II region in a magnetized medium, utilizing the newly implemented magnetohydrodynamics module in ENZO. This method linearly scales with the number of point sources and number of grid cells. Our implementation is scalable to 512 processors on distributed memory machines and can include the radiation pressure and secondary ionizations from X-ray radiation. It is included in the newest public release of ENZO.

  3. 3D Adaptive Mesh Refinement Simulations of Pellet Injection in Tokamaks

    SciTech Connect

    R. Samtaney; S.C. Jardin; P. Colella; D.F. Martin

    2003-10-20

    We present results of Adaptive Mesh Refinement (AMR) simulations of the pellet injection process, a proven method of refueling tokamaks. AMR is a computationally efficient way to provide the resolution required to simulate realistic pellet sizes relative to device dimensions. The mathematical model comprises of single-fluid MHD equations with source terms in the continuity equation along with a pellet ablation rate model. The numerical method developed is an explicit unsplit upwinding treatment of the 8-wave formulation, coupled with a MAC projection method to enforce the solenoidal property of the magnetic field. The Chombo framework is used for AMR. The role of the E x B drift in mass redistribution during inside and outside pellet injections is emphasized.

  4. White Dwarf Mergers on Adaptive Meshes. I. Methodology and Code Verification

    NASA Astrophysics Data System (ADS)

    Katz, Max P.; Zingale, Michael; Calder, Alan C.; Swesty, F. Douglas; Almgren, Ann S.; Zhang, Weiqun

    2016-03-01

    The Type Ia supernova (SN Ia) progenitor problem is one of the most perplexing and exciting problems in astrophysics, requiring detailed numerical modeling to complement observations of these explosions. One possible progenitor that has merited recent theoretical attention is the white dwarf (WD) merger scenario, which has the potential to naturally explain many of the observed characteristics of SNe Ia. To date there have been relatively few self-consistent simulations of merging WD systems using mesh-based hydrodynamics. This is the first paper in a series describing simulations of these systems using a hydrodynamics code with adaptive mesh refinement. In this paper we describe our numerical methodology and discuss our implementation in the compressible hydrodynamics code CASTRO, which solves the Euler equations, and the Poisson equation for self-gravity, and couples the gravitational and rotation forces to the hydrodynamics. Standard techniques for coupling gravitation and rotation forces to the hydrodynamics do not adequately conserve the total energy of the system for our problem, but recent advances in the literature allow progress and we discuss our implementation here. We present a set of test problems demonstrating the extent to which our software sufficiently models a system where large amounts of mass are advected on the computational domain over long timescales. Future papers in this series will describe our treatment of the initial conditions of these systems and will examine the early phases of the merger to determine its viability for triggering a thermonuclear detonation.

  5. Automatic off-body overset adaptive Cartesian mesh method based on an octree approach

    SciTech Connect

    Peron, Stephanie; Benoit, Christophe

    2013-01-01

    This paper describes a method for generating adaptive structured Cartesian grids within a near-body/off-body mesh partitioning framework for the flow simulation around complex geometries. The off-body Cartesian mesh generation derives from an octree structure, assuming each octree leaf node defines a structured Cartesian block. This enables one to take into account the large scale discrepancies in terms of resolution between the different bodies involved in the simulation, with minimum memory requirements. Two different conversions from the octree to Cartesian grids are proposed: the first one generates Adaptive Mesh Refinement (AMR) type grid systems, and the second one generates abutting or minimally overlapping Cartesian grid set. We also introduce an algorithm to control the number of points at each adaptation, that automatically determines relevant values of the refinement indicator driving the grid refinement and coarsening. An application to a wing tip vortex computation assesses the capability of the method to capture accurately the flow features.

  6. The direct simulation Monte Carlo method using unstructured adaptive mesh and its application

    NASA Astrophysics Data System (ADS)

    Wu, J.-S.; Tseng, K.-C.; Kuo, C.-H.

    2002-02-01

    The implementation of an adaptive mesh-embedding (h-refinement) scheme using unstructured grid in two-dimensional direct simulation Monte Carlo (DSMC) method is reported. In this technique, local isotropic refinement is used to introduce new mesh where the local cell Knudsen number is less than some preset value. This simple scheme, however, has several severe consequences affecting the performance of the DSMC method. Thus, we have applied a technique to remove the hanging node, by introducing the an-isotropic refinement in the interfacial cells between refined and non-refined cells. Not only does this remedy increase a negligible amount of work, but it also removes all the difficulties presented in the originals scheme. We have tested the proposed scheme for argon gas in a high-speed driven cavity flow. The results show an improved flow resolution as compared with that of un-adaptive mesh. Finally, we have used triangular adaptive mesh to compute a near-continuum gas flow, a hypersonic flow over a cylinder. The results show fairly good agreement with previous studies. In summary, the proposed simple mesh adaptation is very useful in computing rarefied gas flows, which involve both complicated geometry and highly non-uniform density variations throughout the flow field. Copyright

  7. Development of a scalable gas-dynamics solver with adaptive mesh refinement

    NASA Astrophysics Data System (ADS)

    Korkut, Burak

    There are various computational physics areas in which Direct Simulation Monte Carlo (DSMC) and Particle in Cell (PIC) methods are being employed. The accuracy of results from such simulations depend on the fidelity of the physical models being used. The computationally demanding nature of these problems make them ideal candidates to make use of modern supercomputers. The software developed to run such simulations also needs special attention so that the maintainability and extendability is considered with the recent numerical methods and programming paradigms. Suited for gas-dynamics problems, a software called SUGAR (Scalable Unstructured Gas dynamics with Adaptive mesh Refinement) has recently been developed and written in C++ and MPI. Physical and numerical models were added to this framework to simulate ion thruster plumes. SUGAR is used to model the charge-exchange (CEX) reactions occurring between the neutral and ion species as well as the induced electric field effect due to ions. Multiple adaptive mesh refinement (AMR) meshes were used in order to capture different physical length scales present in the flow. A multiple-thruster configuration was run to extend the studies to cases for which there is no axial or radial symmetry present that could only be modeled with a three-dimensional simulation capability. The combined plume structure showed interactions between individual thrusters where AMR capability captured this in an automated way. The back flow for ions was found to occur when CEX and momentum-exchange (MEX) collisions are present and strongly enhanced when the induced electric field is considered. The ion energy distributions in the back flow region were obtained and it was found that the inclusion of the electric field modeling is the most important factor in determining its shape. The plume back flow structure was also examined for a triple-thruster, 3-D geometry case and it was found that the ion velocity in the back flow region appears to be

  8. Using Multi-threading for the Automatic Load Balancing of 2D Adaptive Finite Element Meshes

    NASA Technical Reports Server (NTRS)

    Heber, Gerd; Biswas, Rupak; Thulasiraman, Parimala; Gao, Guang R.; Saini, Subhash (Technical Monitor)

    1998-01-01

    In this paper, we present a multi-threaded approach for the automatic load balancing of adaptive finite element (FE) meshes The platform of our choice is the EARTH multi-threaded system which offers sufficient capabilities to tackle this problem. We implement the adaption phase of FE applications oil triangular meshes and exploit the EARTH token mechanism to automatically balance the resulting irregular and highly nonuniform workload. We discuss the results of our experiments oil EARTH-SP2, on implementation of EARTH on the IBM SP2 with different load balancing strategies that are built into the runtime system.

  9. Adaptive unstructured meshing for thermal stress analysis of built-up structures

    NASA Technical Reports Server (NTRS)

    Dechaumphai, Pramote

    1992-01-01

    An adaptive unstructured meshing technique for mechanical and thermal stress analysis of built-up structures has been developed. A triangular membrane finite element and a new plate bending element are evaluated on a panel with a circular cutout and a frame stiffened panel. The adaptive unstructured meshing technique, without a priori knowledge of the solution to the problem, generates clustered elements only where needed. An improved solution accuracy is obtained at a reduced problem size and analysis computational time as compared to the results produced by the standard finite element procedure.

  10. Parallelization of Unsteady Adaptive Mesh Refinement for Unstructured Navier-Stokes Solvers

    NASA Technical Reports Server (NTRS)

    Schwing, Alan M.; Nompelis, Ioannis; Candler, Graham V.

    2014-01-01

    This paper explores the implementation of the MPI parallelization in a Navier-Stokes solver using adaptive mesh re nement. Viscous and inviscid test problems are considered for the purpose of benchmarking, as are implicit and explicit time advancement methods. The main test problem for comparison includes e ects from boundary layers and other viscous features and requires a large number of grid points for accurate computation. Ex- perimental validation against double cone experiments in hypersonic ow are shown. The adaptive mesh re nement shows promise for a staple test problem in the hypersonic com- munity. Extension to more advanced techniques for more complicated ows is described.

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

    SciTech Connect

    Chen, Xiaodong; Yang, Vigor

    2014-07-15

    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.

  12. Adaptation of Block-Structured Adaptive Mesh Refinement to Particle-In-Cell simulations

    NASA Astrophysics Data System (ADS)

    Vay, Jean-Luc; Colella, Phillip; McCorquodale, Peter; Friedman, Alex; Grote, Dave

    2001-10-01

    Particle-In-Cell (PIC) methods which solve the Maxwell equations (or a simplification) on a regular Cartesian grid are routinely used to simulate plasma and particle beam systems. Several techniques have been developed to accommodate irregular boundaries and scale variations. We describe here an ongoing effort to adapt the block-structured Adaptive Mesh Refinement (AMR) algorithm (http://seesar.lbl.gov/AMR/) to the Particle-In-Cell method. The AMR technique connects grids having different resolutions, using interpolation. Special care has to be taken to avoid the introduction of spurious forces close to the boundary of the inner, high-resolution grid, or at least to reduce such forces to an acceptable level. The Berkeley AMR library CHOMBO has been modified and coupled to WARP3d (D.P. Grote et al., Fusion Engineering and Design), 32-33 (1996), 193-200, a PIC code which is used for the development of high current accelerators for Heavy Ion Fusion. The methods and preliminary results will be presented.

  13. Efficient low-bit-rate adaptive mesh-based motion compensation technique

    NASA Astrophysics Data System (ADS)

    Mahmoud, Hanan A.; Bayoumi, Magdy A.

    2001-08-01

    This paper proposes a two-stage global motion estimation method using a novel quadtree block-based motion estimation technique and an active mesh model. In the first stage, motion parameters are estimated by fitting block-based motion vectors computed using a new efficient quadtree technique, that divides a frame into equilateral triangle blocks using the quad-tree structure. Arbitrary partition shapes are achieved by allowing 4-to-1, 3-to-1 and 2-1 merge/combine of sibling blocks having the same motion vector . In the second stage, the mesh is constructed using an adaptive triangulation procedure that places more triangles over areas with high motion content, these areas are estimated during the first stage. finally the motion compensation is achieved by using a novel algorithm that is carried by both the encoder and the decoder to determine the optimal triangulation of the resultant partitions followed by affine mapping at the encoder. Computer simulation results show that the proposed method gives better performance that the conventional ones in terms of the peak signal-to-noise ration (PSNR) and the compression ratio (CR).

  14. Detached Eddy Simulation of the UH-60 Rotor Wake Using Adaptive Mesh Refinement

    NASA Technical Reports Server (NTRS)

    Chaderjian, Neal M.; Ahmad, Jasim U.

    2012-01-01

    Time-dependent Navier-Stokes flow simulations have been carried out for a UH-60 rotor with simplified hub in forward flight and hover flight conditions. Flexible rotor blades and flight trim conditions are modeled and established by loosely coupling the OVERFLOW Computational Fluid Dynamics (CFD) code with the CAMRAD II helicopter comprehensive code. High order spatial differences, Adaptive Mesh Refinement (AMR), and Detached Eddy Simulation (DES) are used to obtain highly resolved vortex wakes, where the largest turbulent structures are captured. Special attention is directed towards ensuring the dual time accuracy is within the asymptotic range, and verifying the loose coupling convergence process using AMR. The AMR/DES simulation produced vortical worms for forward flight and hover conditions, similar to previous results obtained for the TRAM rotor in hover. AMR proved to be an efficient means to capture a rotor wake without a priori knowledge of the wake shape.

  15. A GPU implementation of adaptive mesh refinement to simulate tsunamis generated by landslides

    NASA Astrophysics Data System (ADS)

    de la Asunción, Marc; Castro, Manuel J.

    2016-04-01

    In this work we propose a CUDA implementation for the simulation of landslide-generated tsunamis using a two-layer Savage-Hutter type model and adaptive mesh refinement (AMR). The AMR method consists of dynamically increasing the spatial resolution of the regions of interest of the domain while keeping the rest of the domain at low resolution, thus obtaining better runtimes and similar results compared to increasing the spatial resolution of the entire domain. Our AMR implementation uses a patch-based approach, it supports up to three levels, power-of-two ratios of refinement, different refinement criteria and also several user parameters to control the refinement and clustering behaviour. A strategy based on the variation of the cell values during the simulation is used to interpolate and propagate the values of the fine cells. Several numerical experiments using artificial and realistic scenarios are presented.

  16. On the Computation of Integral Curves in Adaptive Mesh Refinement Vector Fields

    SciTech Connect

    Deines, Eduard; Weber, Gunther H.; Garth, Christoph; Van Straalen, Brian; Borovikov, Sergey; Martin, Daniel F.; Joy, Kenneth I.

    2011-06-27

    Integral curves, such as streamlines, streaklines, pathlines, and timelines, are an essential tool in the analysis of vector field structures, offering straightforward and intuitive interpretation of visualization results. While such curves have a long-standing tradition in vector field visualization, their application to Adaptive Mesh Refinement (AMR) simulation results poses unique problems. AMR is a highly effective discretization method for a variety of physical simulation problems and has recently been applied to the study of vector fields in flow and magnetohydrodynamic applications. The cell-centered nature of AMR data and discontinuities in the vector field representation arising from AMR level boundaries complicate the application of numerical integration methods to compute integral curves. In this paper, we propose a novel approach to alleviate these problems and show its application to streamline visualization in an AMR model of the magnetic field of the solar system as well as to a simulation of two incompressible viscous vortex rings merging.

  17. SU-D-207-04: GPU-Based 4D Cone-Beam CT Reconstruction Using Adaptive Meshing Method

    SciTech Connect

    Zhong, Z; Gu, X; Iyengar, P; Mao, W; Wang, J; Guo, X

    2015-06-15

    Purpose: Due to the limited number of projections at each phase, the image quality of a four-dimensional cone-beam CT (4D-CBCT) is often degraded, which decreases the accuracy of subsequent motion modeling. One of the promising methods is the simultaneous motion estimation and image reconstruction (SMEIR) approach. The objective of this work is to enhance the computational speed of the SMEIR algorithm using adaptive feature-based tetrahedral meshing and GPU-based parallelization. Methods: The first step is to generate the tetrahedral mesh based on the features of a reference phase 4D-CBCT, so that the deformation can be well captured and accurately diffused from the mesh vertices to voxels of the image volume. After the mesh generation, the updated motion model and other phases of 4D-CBCT can be obtained by matching the 4D-CBCT projection images at each phase with the corresponding forward projections of the deformed reference phase of 4D-CBCT. The entire process of this 4D-CBCT reconstruction method is implemented on GPU, resulting in significantly increasing the computational efficiency due to its tremendous parallel computing ability. Results: A 4D XCAT digital phantom was used to test the proposed mesh-based image reconstruction algorithm. The image Result shows both bone structures and inside of the lung are well-preserved and the tumor position can be well captured. Compared to the previous voxel-based CPU implementation of SMEIR, the proposed method is about 157 times faster for reconstructing a 10 -phase 4D-CBCT with dimension 256×256×150. Conclusion: The GPU-based parallel 4D CBCT reconstruction method uses the feature-based mesh for estimating motion model and demonstrates equivalent image Result with previous voxel-based SMEIR approach, with significantly improved computational speed.

  18. A fast, robust, and simple implicit method for adaptive time-stepping on adaptive mesh-refinement grids

    NASA Astrophysics Data System (ADS)

    Commerçon, B.; Debout, V.; Teyssier, R.

    2014-03-01

    Context. Implicit solvers present strong limitations when used on supercomputing facilities and in particular for adaptive mesh-refinement codes. Aims: We present a new method for implicit adaptive time-stepping on adaptive mesh-refinement grids. We implement it in the radiation-hydrodynamics solver we designed for the RAMSES code for astrophysical purposes and, more particularly, for protostellar collapse. Methods: We briefly recall the radiation-hydrodynamics equations and the adaptive time-stepping methodology used for hydrodynamical solvers. We then introduce the different types of boundary conditions (Dirichlet, Neumann, and Robin) that are used at the interface between levels and present our implementation of the new method in the RAMSES code. The method is tested against classical diffusion and radiation-hydrodynamics tests, after which we present an application for protostellar collapse. Results: We show that using Dirichlet boundary conditions at level interfaces is a good compromise between robustness and accuracy and that it can be used in structure formation calculations. The gain in computational time over our former unique time step method ranges from factors of 5 to 50 depending on the level of adaptive time-stepping and on the problem. We successfully compare the old and new methods for protostellar collapse calculations that involve highly non linear physics. Conclusions: We have developed a simple but robust method for adaptive time-stepping of implicit scheme on adaptive mesh-refinement grids. It can be applied to a wide variety of physical problems that involve diffusion processes.

  19. Adaptive mesh refinement techniques for the immersed interface method applied to flow problems.

    PubMed

    Li, Zhilin; Song, Peng

    2013-06-01

    In this paper, we develop an adaptive mesh refinement strategy of the Immersed Interface Method for flow problems with a moving interface. The work is built on the AMR method developed for two-dimensional elliptic interface problems in the paper [12] (CiCP, 12(2012), 515-527). The interface is captured by the zero level set of a Lipschitz continuous function φ(x, y, t). Our adaptive mesh refinement is built within a small band of |φ(x, y, t)| ≤ δ with finer Cartesian meshes. The AMR-IIM is validated for Stokes and Navier-Stokes equations with exact solutions, moving interfaces driven by the surface tension, and classical bubble deformation problems. A new simple area preserving strategy is also proposed in this paper for the level set method.

  20. Adaptive mesh refinement techniques for the immersed interface method applied to flow problems

    PubMed Central

    Li, Zhilin; Song, Peng

    2013-01-01

    In this paper, we develop an adaptive mesh refinement strategy of the Immersed Interface Method for flow problems with a moving interface. The work is built on the AMR method developed for two-dimensional elliptic interface problems in the paper [12] (CiCP, 12(2012), 515–527). The interface is captured by the zero level set of a Lipschitz continuous function φ(x, y, t). Our adaptive mesh refinement is built within a small band of |φ(x, y, t)| ≤ δ with finer Cartesian meshes. The AMR-IIM is validated for Stokes and Navier-Stokes equations with exact solutions, moving interfaces driven by the surface tension, and classical bubble deformation problems. A new simple area preserving strategy is also proposed in this paper for the level set method. PMID:23794763

  1. Adaptive mesh refinement and multilevel iteration for multiphase, multicomponent flow in porous media

    SciTech Connect

    Hornung, R.D.

    1996-12-31

    An adaptive local mesh refinement (AMR) algorithm originally developed for unsteady gas dynamics is extended to multi-phase flow in porous media. Within the AMR framework, we combine specialized numerical methods to treat the different aspects of the partial differential equations. Multi-level iteration and domain decomposition techniques are incorporated to accommodate elliptic/parabolic behavior. High-resolution shock capturing schemes are used in the time integration of the hyperbolic mass conservation equations. When combined with AMR, these numerical schemes provide high resolution locally in a more efficient manner than if they were applied on a uniformly fine computational mesh. We will discuss the interplay of physical, mathematical, and numerical concerns in the application of adaptive mesh refinement to flow in porous media problems of practical interest.

  2. Failure of Anisotropic Unstructured Mesh Adaption Based on Multidimensional Residual Minimization

    NASA Technical Reports Server (NTRS)

    Wood, William A.; Kleb, William L.

    2003-01-01

    An automated anisotropic unstructured mesh adaptation strategy is proposed, implemented, and assessed for the discretization of viscous flows. The adaption criteria is based upon the minimization of the residual fluctuations of a multidimensional upwind viscous flow solver. For scalar advection, this adaption strategy has been shown to use fewer grid points than gradient based adaption, naturally aligning mesh edges with discontinuities and characteristic lines. The adaption utilizes a compact stencil and is local in scope, with four fundamental operations: point insertion, point deletion, edge swapping, and nodal displacement. Evaluation of the solution-adaptive strategy is performed for a two-dimensional blunt body laminar wind tunnel case at Mach 10. The results demonstrate that the strategy suffers from a lack of robustness, particularly with regard to alignment of the bow shock in the vicinity of the stagnation streamline. In general, constraining the adaption to such a degree as to maintain robustness results in negligible improvement to the solution. Because the present method fails to consistently or significantly improve the flow solution, it is rejected in favor of simple uniform mesh refinement.

  3. Parallel, Gradient-Based Anisotropic Mesh Adaptation for Re-entry Vehicle Configurations

    NASA Technical Reports Server (NTRS)

    Bibb, Karen L.; Gnoffo, Peter A.; Park, Michael A.; Jones, William T.

    2006-01-01

    Two gradient-based adaptation methodologies have been implemented into the Fun3d refine GridEx infrastructure. A spring-analogy adaptation which provides for nodal movement to cluster mesh nodes in the vicinity of strong shocks has been extended for general use within Fun3d, and is demonstrated for a 70 sphere cone at Mach 2. A more general feature-based adaptation metric has been developed for use with the adaptation mechanics available in Fun3d, and is applicable to any unstructured, tetrahedral, flow solver. The basic functionality of general adaptation is explored through a case of flow over the forebody of a 70 sphere cone at Mach 6. A practical application of Mach 10 flow over an Apollo capsule, computed with the Felisa flow solver, is given to compare the adaptive mesh refinement with uniform mesh refinement. The examples of the paper demonstrate that the gradient-based adaptation capability as implemented can give an improvement in solution quality.

  4. CRASH: A BLOCK-ADAPTIVE-MESH CODE FOR RADIATIVE SHOCK HYDRODYNAMICS-IMPLEMENTATION AND VERIFICATION

    SciTech Connect

    Van der Holst, B.; Toth, G.; Sokolov, I. V.; Myra, E. S.; Fryxell, B.; Drake, R. P.; Powell, K. G.; Holloway, J. P.; Stout, Q.; Adams, M. L.; Morel, J. E.; Karni, S.

    2011-06-01

    We describe the Center for Radiative Shock Hydrodynamics (CRASH) code, a block-adaptive-mesh code for multi-material radiation hydrodynamics. The implementation solves the radiation diffusion model with a gray or multi-group method and uses a flux-limited diffusion approximation to recover the free-streaming limit. Electrons and ions are allowed to have different temperatures and we include flux-limited electron heat conduction. The radiation hydrodynamic equations are solved in the Eulerian frame by means of a conservative finite-volume discretization in either one-, two-, or three-dimensional slab geometry or in two-dimensional cylindrical symmetry. An operator-split method is used to solve these equations in three substeps: (1) an explicit step of a shock-capturing hydrodynamic solver; (2) a linear advection of the radiation in frequency-logarithm space; and (3) an implicit solution of the stiff radiation diffusion, heat conduction, and energy exchange. We present a suite of verification test problems to demonstrate the accuracy and performance of the algorithms. The applications are for astrophysics and laboratory astrophysics. The CRASH code is an extension of the Block-Adaptive Tree Solarwind Roe Upwind Scheme (BATS-R-US) code with a new radiation transfer and heat conduction library and equation-of-state and multi-group opacity solvers. Both CRASH and BATS-R-US are part of the publicly available Space Weather Modeling Framework.

  5. Adaptive Mesh Refinement for High Accuracy Wall Loss Determination in Accelerating Cavity Design

    SciTech Connect

    Ge, L

    2004-06-14

    This paper presents the improvement in wall loss determination when adaptive mesh refinement (AMR) methods are used with the parallel finite element eigensolver Omega3P. We show that significant reduction in the number of degrees of freedom (DOFs) as well as a faster rate of convergence can be achieved as compared with results from uniform mesh refinement in determining cavity wall loss to a desired accuracy. Test cases for which measurements are available will be examined, and comparison with uniform refinement results will be discussed.

  6. Hybrid numerical method with adaptive overlapping meshes for solving nonstationary problems in continuum mechanics

    NASA Astrophysics Data System (ADS)

    Burago, N. G.; Nikitin, I. S.; Yakushev, V. L.

    2016-06-01

    Techniques that improve the accuracy of numerical solutions and reduce their computational costs are discussed as applied to continuum mechanics problems with complex time-varying geometry. The approach combines shock-capturing computations with the following methods: (1) overlapping meshes for specifying complex geometry; (2) elastic arbitrarily moving adaptive meshes for minimizing the approximation errors near shock waves, boundary layers, contact discontinuities, and moving boundaries; (3) matrix-free implementation of efficient iterative and explicit-implicit finite element schemes; (4) balancing viscosity (version of the stabilized Petrov-Galerkin method); (5) exponential adjustment of physical viscosity coefficients; and (6) stepwise correction of solutions for providing their monotonicity and conservativeness.

  7. Interface Reconstruction in Two-and Three-Dimensional Arbitrary Lagrangian-Euderian Adaptive Mesh Refinement Simulations

    SciTech Connect

    Masters, N D; Anderson, R W; Elliott, N S; Fisher, A C; Gunney, B T; Koniges, A E

    2007-08-28

    Modeling of high power laser and ignition facilities requires new techniques because of the higher energies and higher operational costs. We report on the development and application of a new interface reconstruction algorithm for chamber modeling code that combines ALE (Arbitrary Lagrangian Eulerian) techniques with AMR (Adaptive Mesh Refinement). The code is used for the simulation of complex target elements in the National Ignition Facility (NIF) and other similar facilities. The interface reconstruction scheme is required to adequately describe the debris/shrapnel (including fragments or droplets) resulting from energized materials that could affect optics or diagnostic sensors. Traditional ICF modeling codes that choose to implement ALE + AMR techniques will also benefit from this new scheme. The ALE formulation requires material interfaces (including those of generated particles or droplets) to be tracked. We present the interface reconstruction scheme developed for NIF's ALE-AMR and discuss how it is affected by adaptive mesh refinement and the ALE mesh. Results of the code are shown for NIF and OMEGA target configurations.

  8. Adaptive Mesh Refinement in Curvilinear Body-Fitted Grid Systems

    NASA Technical Reports Server (NTRS)

    Steinthorsson, Erlendur; Modiano, David; Colella, Phillip

    1995-01-01

    To be truly compatible with structured grids, an AMR algorithm should employ a block structure for the refined grids to allow flow solvers to take advantage of the strengths of unstructured grid systems, such as efficient solution algorithms for implicit discretizations and multigrid schemes. One such algorithm, the AMR algorithm of Berger and Colella, has been applied to and adapted for use with body-fitted structured grid systems. Results are presented for a transonic flow over a NACA0012 airfoil (AGARD-03 test case) and a reflection of a shock over a double wedge.

  9. Adaptive mesh refinement in curvilinear body-fitted grid systems

    NASA Astrophysics Data System (ADS)

    Steinthorsson, Erlendur; Modiano, David; Colella, Phillip

    1995-10-01

    To be truly compatible with structured grids, an AMR algorithm should employ a block structure for the refined grids to allow flow solvers to take advantage of the strengths of unstructured grid systems, such as efficient solution algorithms for implicit discretizations and multigrid schemes. One such algorithm, the AMR algorithm of Berger and Colella, has been applied to and adapted for use with body-fitted structured grid systems. Results are presented for a transonic flow over a NACA0012 airfoil (AGARD-03 test case) and a reflection of a shock over a double wedge.

  10. ADAPTIVE MESH REFINEMENT SIMULATIONS OF GALAXY FORMATION: EXPLORING NUMERICAL AND PHYSICAL PARAMETERS

    SciTech Connect

    Hummels, Cameron B.; Bryan, Greg L.

    2012-04-20

    We carry out adaptive mesh refinement cosmological simulations of Milky Way mass halos in order to investigate the formation of disk-like galaxies in a {Lambda}-dominated cold dark matter model. We evolve a suite of five halos to z = 0 and find a gas disk formation in each; however, in agreement with previous smoothed particle hydrodynamics simulations (that did not include a subgrid feedback model), the rotation curves of all halos are centrally peaked due to a massive spheroidal component. Our standard model includes radiative cooling and star formation, but no feedback. We further investigate this angular momentum problem by systematically modifying various simulation parameters including: (1) spatial resolution, ranging from 1700 to 212 pc; (2) an additional pressure component to ensure that the Jeans length is always resolved; (3) low star formation efficiency, going down to 0.1%; (4) fixed physical resolution as opposed to comoving resolution; (5) a supernova feedback model that injects thermal energy to the local cell; and (6) a subgrid feedback model which suppresses cooling in the immediate vicinity of a star formation event. Of all of these, we find that only the last (cooling suppression) has any impact on the massive spheroidal component. In particular, a simulation with cooling suppression and feedback results in a rotation curve that, while still peaked, is considerably reduced from our standard runs.

  11. Adaptive hp-FEM with dynamical meshes for transient heat and moisture transfer problems

    NASA Astrophysics Data System (ADS)

    Solin, Pavel; Dubcova, Lenka; Kruis, Jaroslav

    2010-04-01

    We are concerned with the time-dependent multiphysics problem of heat and moisture transfer in the context of civil engineering applications. The problem is challenging due to its multiscale nature (temperature usually propagates orders of magnitude faster than moisture), different characters of the two fields (moisture exhibits boundary layers which are not present in the temperature field), extremely long integration times (30 years or more), and lack of viable error control mechanisms. In order to solve the problem efficiently, we employ a novel multimesh adaptive higher-order finite element method (hp-FEM) based on dynamical meshes and adaptive time step control. We investigate the possibility to approximate the temperature and humidity fields on individual dynamical meshes equipped with mutually independent adaptivity mechanisms. Numerical examples related to a realistic nuclear reactor vessel simulation are presented.

  12. An adaptive embedded mesh procedure for leading-edge vortex flows

    NASA Technical Reports Server (NTRS)

    Powell, Kenneth G.; Beer, Michael A.; Law, Glenn W.

    1989-01-01

    A procedure for solving the conical Euler equations on an adaptively refined mesh is presented, along with a method for determining which cells to refine. The solution procedure is a central-difference cell-vertex scheme. The adaptation procedure is made up of a parameter on which the refinement decision is based, and a method for choosing a threshold value of the parameter. The refinement parameter is a measure of mesh-convergence, constructed by comparison of locally coarse- and fine-grid solutions. The threshold for the refinement parameter is based on the curvature of the curve relating the number of cells flagged for refinement to the value of the refinement threshold. Results for three test cases are presented. The test problem is that of a delta wing at angle of attack in a supersonic free-stream. The resulting vortices and shocks are captured efficiently by the adaptive code.

  13. Integration over two-dimensional Brillouin zones by adaptive mesh refinement

    NASA Astrophysics Data System (ADS)

    Henk, J.

    2001-07-01

    Adaptive mesh-refinement (AMR) schemes for integration over two-dimensional Brillouin zones are presented and their properties are investigated in detail. A salient feature of these integration techniques is that the grid of sampling points is automatically adapted to the integrand in such a way that regions with high accuracy demand are sampled with high density, while the other regions are sampled with low density. This adaptation may save a sizable amount of computation time in comparison with those integration methods without mesh refinement. Several AMR schemes for one- and two-dimensional integration are introduced. As an application, the spin-dependent conductance of electronic tunneling through planar junctions is investigated and discussed with regard to Brillouin zone integration.

  14. PLUM: Parallel Load Balancing for Unstructured Adaptive Meshes. Degree awarded by Colorado Univ.

    NASA Technical Reports Server (NTRS)

    Oliker, Leonid

    1998-01-01

    Dynamic mesh adaption on unstructured grids is a powerful tool for computing large-scale problems that require grid modifications to efficiently resolve solution features. By locally refining and coarsening the mesh to capture physical phenomena of interest, such procedures make standard computational methods more cost effective. Unfortunately, an efficient parallel implementation of these adaptive methods is rather difficult to achieve, primarily due to the load imbalance created by the dynamically-changing nonuniform grid. This requires significant communication at runtime, leading to idle processors and adversely affecting the total execution time. Nonetheless, it is generally thought that unstructured adaptive- grid techniques will constitute a significant fraction of future high-performance supercomputing. Various dynamic load balancing methods have been reported to date; however, most of them either lack a global view of loads across processors or do not apply their techniques to realistic large-scale applications.

  15. Solving kinetic equations with adaptive mesh in phase space for rarefied gas dynamics and plasma physics (Invited)

    SciTech Connect

    Kolobov, Vladimir; Arslanbekov, Robert; Frolova, Anna

    2014-12-09

    The paper describes an Adaptive Mesh in Phase Space (AMPS) technique for solving kinetic equations with deterministic mesh-based methods. The AMPS technique allows automatic generation of adaptive Cartesian mesh in both physical and velocity spaces using a Tree-of-Trees data structure. We illustrate advantages of AMPS for simulations of rarefied gas dynamics and electron kinetics on low temperature plasmas. In particular, we consider formation of the velocity distribution functions in hypersonic flows, particle kinetics near oscillating boundaries, and electron kinetics in a radio-frequency sheath. AMPS provide substantial savings in computational cost and increased efficiency of the mesh-based kinetic solvers.

  16. Solving kinetic equations with adaptive mesh in phase space for rarefied gas dynamics and plasma physics (Invited)

    NASA Astrophysics Data System (ADS)

    Kolobov, Vladimir; Arslanbekov, Robert; Frolova, Anna

    2014-12-01

    The paper describes an Adaptive Mesh in Phase Space (AMPS) technique for solving kinetic equations with deterministic mesh-based methods. The AMPS technique allows automatic generation of adaptive Cartesian mesh in both physical and velocity spaces using a Tree-of-Trees data structure. We illustrate advantages of AMPS for simulations of rarefied gas dynamics and electron kinetics on low temperature plasmas. In particular, we consider formation of the velocity distribution functions in hypersonic flows, particle kinetics near oscillating boundaries, and electron kinetics in a radio-frequency sheath. AMPS provide substantial savings in computational cost and increased efficiency of the mesh-based kinetic solvers.

  17. Level-by-level artificial viscosity and visualization for MHD simulation with adaptive mesh refinement

    NASA Astrophysics Data System (ADS)

    Hatori, Tomoharu; Ito, Atsushi M.; Nunami, Masanori; Usui, Hideyuki; Miura, Hideaki

    2016-08-01

    We propose a numerical method to determine the artificial viscosity in magnetohydrodynamics (MHD) simulations with adaptive mesh refinement (AMR) method, where the artificial viscosity is adaptively changed due to the resolution level of the AMR hierarchy. Although the suitable value of the artificial viscosity depends on the governing equations and the model of target problem, it can be determined by von Neumann stability analysis. By means of the new method, "level-by-level artificial viscosity method," MHD simulations of Rayleigh-Taylor instability (RTI) are carried out with the AMR method. The validity of the level-by-level artificial viscosity method is confirmed by the comparison of the linear growth rates of RTI between the AMR simulations and the simple simulations with uniform grid and uniform artificial viscosity whose resolution is the same as that in the highest level of the AMR simulation. Moreover, in the nonlinear phase of RTI, the secondary instability is clearly observed where the hierarchical data structure of AMR calculation is visualized as high resolution region floats up like terraced fields. In the applications of the method to general fluid simulations, the growth of small structures can be sufficiently reproduced, while the divergence of numerical solutions can be suppressed.

  18. Dynamically adaptive mesh refinement technique for image reconstruction in optical tomography.

    PubMed

    Soloviev, Vadim Y; Krasnosselskaia, Lada V

    2006-04-20

    A novel adaptive mesh technique is introduced for problems of image reconstruction in luminescence optical tomography. A dynamical adaptation of the three-dimensional scheme based on the finite-volume formulation reduces computational time and balances the ill-posed nature of the inverse problem. The arbitrary shape of the bounding surface is handled by an additional refinement of computational cells on the boundary. Dynamical shrinking of the search volume is introduced to improve computational performance and accuracy while locating the luminescence target. Light propagation in the medium is modeled by the telegraph equation, and the image-reconstruction algorithm is derived from the Fredholm integral equation of the first kind. Stability and computational efficiency of the introduced method are demonstrated for image reconstruction of one and two spherical luminescent objects embedded within a breastlike tissue phantom. Experimental measurements are simulated by the solution of the forward problem on a grid of 5x5 light guides attached to the surface of the phantom.

  19. Practical improvements of multi-grid iteration for adaptive mesh refinement method

    NASA Astrophysics Data System (ADS)

    Miyashita, Hisashi; Yamada, Yoshiyuki

    2005-03-01

    Adaptive mesh refinement(AMR) is a powerful tool to efficiently solve multi-scaled problems. However, the vanilla AMR method has a well-known critical demerit, i.e., it cannot be applied to non-local problems. Although multi-grid iteration (MGI) can be regarded as a good remedy for a non-local problem such as the Poisson equation, we observed fundamental difficulties in applying the MGI technique in AMR to realistic problems under complicated mesh layouts because it does not converge or it requires too many iterations even if it does converge. To cope with the problem, when updating the next approximation in the MGI process, we calculate the precise total corrections that are relatively accurate to the current residual by introducing a new iteration for such a total correction. This procedure greatly accelerates the MGI convergence speed especially under complicated mesh layouts.

  20. Large Eddy simulation of compressible flows with a low-numerical dissipation patch-based adaptive mesh refinement method

    NASA Astrophysics Data System (ADS)

    Pantano, Carlos

    2005-11-01

    We describe a hybrid finite difference method for large-eddy simulation (LES) of compressible flows with a low-numerical dissipation scheme and structured adaptive mesh refinement (SAMR). Numerical experiments and validation calculations are presented including a turbulent jet and the strongly shock-driven mixing of a Richtmyer-Meshkov instability. The approach is a conservative flux-based SAMR formulation and as such, it utilizes refinement to computational advantage. The numerical method for the resolved scale terms encompasses the cases of scheme alternation and internal mesh interfaces resulting from SAMR. An explicit centered scheme that is consistent with a skew-symmetric finite difference formulation is used in turbulent flow regions while a weighted essentially non-oscillatory (WENO) scheme is employed to capture shocks. The subgrid stresses and transports are calculated by means of the streched-vortex model, Misra & Pullin (1997)

  1. Higher-order conservative interpolation between control-volume meshes: Application to advection and multiphase flow problems with dynamic mesh adaptivity

    NASA Astrophysics Data System (ADS)

    Adam, A.; Pavlidis, D.; Percival, J. R.; Salinas, P.; Xie, Z.; Fang, F.; Pain, C. C.; Muggeridge, A. H.; Jackson, M. D.

    2016-09-01

    A general, higher-order, conservative and bounded interpolation for the dynamic and adaptive meshing of control-volume fields dual to continuous and discontinuous finite element representations is presented. Existing techniques such as node-wise interpolation are not conservative and do not readily generalise to discontinuous fields, whilst conservative methods such as Grandy interpolation are often too diffusive. The new method uses control-volume Galerkin projection to interpolate between control-volume fields. Bounded solutions are ensured by using a post-interpolation diffusive correction. Example applications of the method to interface capturing during advection and also to the modelling of multiphase porous media flow are presented to demonstrate the generality and robustness of the approach.

  2. Defect structure of a nematic liquid crystal around a spherical particle: adaptive mesh refinement approach.

    PubMed

    Fukuda, Jun-ichi; Yoneya, Makoto; Yokoyama, Hiroshi

    2002-04-01

    We investigate numerically the structure of topological defects close to a spherical particle immersed in a uniformly aligned nematic liquid crystal. To this end we have implemented an adaptive mesh refinement scheme in an axi-symmetric three-dimensional system, which makes it feasible to take into account properly the large length scale difference between the particle and the topological defects. The adaptive mesh refinement scheme proves to be quite efficient and useful in the investigation of not only the macroscopic properties such as the defect position but also the fine structure of defects. It can be shown that a hyperbolic hedgehog that accompanies a particle with strong homeotropic anchoring takes the structure of a ring.

  3. High-Performance Reactive Fluid Flow Simulations Using Adaptive Mesh Refinement on Thousands of Processors

    NASA Astrophysics Data System (ADS)

    Calder, A. C.; Curtis, B. C.; Dursi, L. J.; Fryxell, B.; Henry, G.; MacNeice, P.; Olson, K.; Ricker, P.; Rosner, R.; Timmes, F. X.; Tufo, H. M.; Truran, J. W.; Zingale, M.

    We present simulations and performance results of nuclear burning fronts in supernovae on the largest domain and at the finest spatial resolution studied to date. These simulations were performed on the Intel ASCI-Red machine at Sandia National Laboratories using FLASH, a code developed at the Center for Astrophysical Thermonuclear Flashes at the University of Chicago. FLASH is a modular, adaptive mesh, parallel simulation code capable of handling compressible, reactive fluid flows in astrophysical environments. FLASH is written primarily in Fortran 90, uses the Message-Passing Interface library for inter-processor communication and portability, and employs the PARAMESH package to manage a block-structured adaptive mesh that places blocks only where the resolution is required and tracks rapidly changing flow features, such as detonation fronts, with ease. We describe the key algorithms and their implementation as well as the optimizations required to achieve sustained performance of 238 GLOPS on 6420 processors of ASCI-Red in 64-bit arithmetic.

  4. Implementation of Implicit Adaptive Mesh Refinement in an Unstructured Finite-Volume Flow Solver

    NASA Technical Reports Server (NTRS)

    Schwing, Alan M.; Nompelis, Ioannis; Candler, Graham V.

    2013-01-01

    This paper explores the implementation of adaptive mesh refinement in an unstructured, finite-volume solver. Unsteady and steady problems are considered. The effect on the recovery of high-order numerics is explored and the results are favorable. Important to this work is the ability to provide a path for efficient, implicit time advancement. A method using a simple refinement sensor based on undivided differences is discussed and applied to a practical problem: a shock-shock interaction on a hypersonic, inviscid double-wedge. Cases are compared to uniform grids without the use of adapted meshes in order to assess error and computational expense. Discussion of difficulties, advances, and future work prepare this method for additional research. The potential for this method in more complicated flows is described.

  5. Adaptive mesh refinement for time-domain electromagnetics using vector finite elements :a feasibility study.

    SciTech Connect

    Turner, C. David; Kotulski, Joseph Daniel; Pasik, Michael Francis

    2005-12-01

    This report investigates the feasibility of applying Adaptive Mesh Refinement (AMR) techniques to a vector finite element formulation for the wave equation in three dimensions. Possible error estimators are considered first. Next, approaches for refining tetrahedral elements are reviewed. AMR capabilities within the Nevada framework are then evaluated. We summarize our conclusions on the feasibility of AMR for time-domain vector finite elements and identify a path forward.

  6. A 3-D adaptive mesh refinement algorithm for multimaterial gas dynamics

    SciTech Connect

    Puckett, E.G. ); Saltzman, J.S. )

    1991-08-12

    Adaptive Mesh Refinement (AMR) in conjunction with high order upwind finite difference methods has been used effectively on a variety of problems. In this paper we discuss an implementation of an AMR finite difference method that solves the equations of gas dynamics with two material species in three dimensions. An equation for the evolution of volume fractions augments the gas dynamics system. The material interface is preserved and tracked from the volume fractions using a piecewise linear reconstruction technique. 14 refs., 4 figs.

  7. Similarity modeling on an expanded mesh applied to rotating turbulence

    NASA Astrophysics Data System (ADS)

    Domaradzki, J. Andrzej; Horiuti, Kiyosi

    2001-11-01

    Because of the reduction in the turbulent kinetic energy decay rates rotating turbulence presents a significant challenge for turbulence models developed for nonrotating cases. We show that the modeling difficulties are removed if the generalized similarity methods are implemented on an expanded mesh.

  8. 4D cone-beam CT reconstruction using multi-organ meshes for sliding motion modeling.

    PubMed

    Zhong, Zichun; Gu, Xuejun; Mao, Weihua; Wang, Jing

    2016-02-01

    A simultaneous motion estimation and image reconstruction (SMEIR) strategy was proposed for 4D cone-beam CT (4D-CBCT) reconstruction and showed excellent results in both phantom and lung cancer patient studies. In the original SMEIR algorithm, the deformation vector field (DVF) was defined on voxel grid and estimated by enforcing a global smoothness regularization term on the motion fields. The objective of this work is to improve the computation efficiency and motion estimation accuracy of SMEIR for 4D-CBCT through developing a multi-organ meshing model. Feature-based adaptive meshes were generated to reduce the number of unknowns in the DVF estimation and accurately capture the organ shapes and motion. Additionally, the discontinuity in the motion fields between different organs during respiration was explicitly considered in the multi-organ mesh model. This will help with the accurate visualization and motion estimation of the tumor on the organ boundaries in 4D-CBCT. To further improve the computational efficiency, a GPU-based parallel implementation was designed. The performance of the proposed algorithm was evaluated on a synthetic sliding motion phantom, a 4D NCAT phantom, and four lung cancer patients. The proposed multi-organ mesh based strategy outperformed the conventional Feldkamp-Davis-Kress, iterative total variation minimization, original SMEIR and single meshing method based on both qualitative and quantitative evaluations.

  9. 4D cone-beam CT reconstruction using multi-organ meshes for sliding motion modeling

    NASA Astrophysics Data System (ADS)

    Zhong, Zichun; Gu, Xuejun; Mao, Weihua; Wang, Jing

    2016-02-01

    A simultaneous motion estimation and image reconstruction (SMEIR) strategy was proposed for 4D cone-beam CT (4D-CBCT) reconstruction and showed excellent results in both phantom and lung cancer patient studies. In the original SMEIR algorithm, the deformation vector field (DVF) was defined on voxel grid and estimated by enforcing a global smoothness regularization term on the motion fields. The objective of this work is to improve the computation efficiency and motion estimation accuracy of SMEIR for 4D-CBCT through developing a multi-organ meshing model. Feature-based adaptive meshes were generated to reduce the number of unknowns in the DVF estimation and accurately capture the organ shapes and motion. Additionally, the discontinuity in the motion fields between different organs during respiration was explicitly considered in the multi-organ mesh model. This will help with the accurate visualization and motion estimation of the tumor on the organ boundaries in 4D-CBCT. To further improve the computational efficiency, a GPU-based parallel implementation was designed. The performance of the proposed algorithm was evaluated on a synthetic sliding motion phantom, a 4D NCAT phantom, and four lung cancer patients. The proposed multi-organ mesh based strategy outperformed the conventional Feldkamp-Davis-Kress, iterative total variation minimization, original SMEIR and single meshing method based on both qualitative and quantitative evaluations.

  10. Three-Dimensional Parallel Adaptive Mesh Refinement Simulations of Shock-Driven Turbulent Mixing in Plane and Converging Geometries

    SciTech Connect

    Lombardini, Manuel; Deiterding, Ralf

    2010-01-01

    This paper presents the use of a dynamically adaptive mesh refinement strategy for the simulations of shock-driven turbulent mixing. Large-eddy simulations are necessary due the high Reynolds number turbulent regime. In this approach, the large scales are simulated directly and small scales at which the viscous dissipation occurs are modeled. A low-numerical centered finite-difference scheme is used in turbulent flow regions while a shock-capturing method is employed to capture shocks. Three-dimensional parallel simulations of the Richtmyer-Meshkov instability performed in plane and converging geometries are described.

  11. Numerical simulation of current sheet formation in a quasiseparatrix layer using adaptive mesh refinement

    SciTech Connect

    Effenberger, Frederic; Thust, Kay; Grauer, Rainer; Dreher, Juergen; Arnold, Lukas

    2011-03-15

    The formation of a thin current sheet in a magnetic quasiseparatrix layer (QSL) is investigated by means of numerical simulation using a simplified ideal, low-{beta}, MHD model. The initial configuration and driving boundary conditions are relevant to phenomena observed in the solar corona and were studied earlier by Aulanier et al. [Astron. Astrophys. 444, 961 (2005)]. In extension to that work, we use the technique of adaptive mesh refinement (AMR) to significantly enhance the local spatial resolution of the current sheet during its formation, which enables us to follow the evolution into a later stage. Our simulations are in good agreement with the results of Aulanier et al. up to the calculated time in that work. In a later phase, we observe a basically unarrested collapse of the sheet to length scales that are more than one order of magnitude smaller than those reported earlier. The current density attains correspondingly larger maximum values within the sheet. During this thinning process, which is finally limited by lack of resolution even in the AMR studies, the current sheet moves upward, following a global expansion of the magnetic structure during the quasistatic evolution. The sheet is locally one-dimensional and the plasma flow in its vicinity, when transformed into a comoving frame, qualitatively resembles a stagnation point flow. In conclusion, our simulations support the idea that extremely high current densities are generated in the vicinities of QSLs as a response to external perturbations, with no sign of saturation.

  12. GALAXY CLUSTER RADIO RELICS IN ADAPTIVE MESH REFINEMENT COSMOLOGICAL SIMULATIONS: RELIC PROPERTIES AND SCALING RELATIONSHIPS

    SciTech Connect

    Skillman, Samuel W.; Hallman, Eric J.; Burns, Jack O.; Smith, Britton D.; O'Shea, Brian W.; Turk, Matthew J.

    2011-07-10

    Cosmological shocks are a critical part of large-scale structure formation, and are responsible for heating the intracluster medium in galaxy clusters. In addition, they are capable of accelerating non-thermal electrons and protons. In this work, we focus on the acceleration of electrons at shock fronts, which is thought to be responsible for radio relics-extended radio features in the vicinity of merging galaxy clusters. By combining high-resolution adaptive mesh refinement/N-body cosmological simulations with an accurate shock-finding algorithm and a model for electron acceleration, we calculate the expected synchrotron emission resulting from cosmological structure formation. We produce synthetic radio maps of a large sample of galaxy clusters and present luminosity functions and scaling relationships. With upcoming long-wavelength radio telescopes, we expect to see an abundance of radio emission associated with merger shocks in the intracluster medium. By producing observationally motivated statistics, we provide predictions that can be compared with observations to further improve our understanding of magnetic fields and electron shock acceleration.

  13. A POD reduced order unstructured mesh ocean modelling method for moderate Reynolds number flows

    NASA Astrophysics Data System (ADS)

    Fang, F.; Pain, C. C.; Navon, I. M.; Gorman, G. J.; Piggott, M. D.; Allison, P. A.; Farrell, P. E.; Goddard, A. J. H.

    Herein a new approach to enhance the accuracy of a novel Proper Orthogonal Decomposition (POD) model applied to moderate Reynolds number flows (of the type typically encountered in ocean models) is presented. This approach develops the POD model of Fang et al. [Fang, F., Pain, C.C., Navon, I.M., Piggott, M.D., Gorman, G.J., Allison, P., Goddard, A.J.H., 2008. Reduced-order modelling of an adaptive mesh ocean model. International Journal for Numerical Methods in Fluids. doi:10.1002/fld.1841] used in conjunction with the Imperial College Ocean Model (ICOM), an adaptive, non-hydrostatic finite element model. Both the velocity and vorticity results of the POD reduced order model (ROM) exhibit an overall good agreement with those obtained from the full model. The accuracy of the POD-Galerkin model with the use of adaptive meshes is first evaluated using the Munk gyre flow test case with Reynolds numbers ranging between 400 and 2000. POD models using the L2 norm become oscillatory when the Reynolds number exceeds Re=400. This is because the low-order truncation of the POD basis inhibits generally all the transfers between the large and the small (unresolved) scales of the fluid flow. Accuracy is improved by using the H1 POD projector in preference to the L2 POD projector. The POD bases are constructed by incorporating gradients as well as function values in the H1 Sobolev norm. The accuracy of numerical results is further enhanced by increasing the number of snapshots and POD bases. Error estimation was used to assess the effect of truncation (involved in the POD-Galerkin approach) when adaptive meshes are used in conjunction with POD/ROM. The RMSE of velocity results between the full model and POD-Galerkin model is reduced by as much as 50% by using the H1 norm and increasing the number of snapshots and POD bases.

  14. Patched based methods for adaptive mesh refinement solutions of partial differential equations

    SciTech Connect

    Saltzman, J.

    1997-09-02

    This manuscript contains the lecture notes for a course taught from July 7th through July 11th at the 1997 Numerical Analysis Summer School sponsored by C.E.A., I.N.R.I.A., and E.D.F. The subject area was chosen to support the general theme of that year`s school which is ``Multiscale Methods and Wavelets in Numerical Simulation.`` The first topic covered in these notes is a description of the problem domain. This coverage is limited to classical PDEs with a heavier emphasis on hyperbolic systems and constrained hyperbolic systems. The next topic is difference schemes. These schemes are the foundation for the adaptive methods. After the background material is covered, attention is focused on a simple patched based adaptive algorithm and its associated data structures for square grids and hyperbolic conservation laws. Embellishments include curvilinear meshes, embedded boundary and overset meshes. Next, several strategies for parallel implementations are examined. The remainder of the notes contains descriptions of elliptic solutions on the mesh hierarchy, elliptically constrained flow solution methods and elliptically constrained flow solution methods with diffusion.

  15. Error estimation and adaptive mesh refinement for parallel analysis of shell structures

    NASA Technical Reports Server (NTRS)

    Keating, Scott C.; Felippa, Carlos A.; Park, K. C.

    1994-01-01

    The formulation and application of element-level, element-independent error indicators is investigated. This research culminates in the development of an error indicator formulation which is derived based on the projection of element deformation onto the intrinsic element displacement modes. The qualifier 'element-level' means that no information from adjacent elements is used for error estimation. This property is ideally suited for obtaining error values and driving adaptive mesh refinements on parallel computers where access to neighboring elements residing on different processors may incur significant overhead. In addition such estimators are insensitive to the presence of physical interfaces and junctures. An error indicator qualifies as 'element-independent' when only visible quantities such as element stiffness and nodal displacements are used to quantify error. Error evaluation at the element level and element independence for the error indicator are highly desired properties for computing error in production-level finite element codes. Four element-level error indicators have been constructed. Two of the indicators are based on variational formulation of the element stiffness and are element-dependent. Their derivations are retained for developmental purposes. The second two indicators mimic and exceed the first two in performance but require no special formulation of the element stiffness mesh refinement which we demonstrate for two dimensional plane stress problems. The parallelizing of substructures and adaptive mesh refinement is discussed and the final error indicator using two-dimensional plane-stress and three-dimensional shell problems is demonstrated.

  16. Error estimation and adaptive mesh refinement for parallel analysis of shell structures

    NASA Astrophysics Data System (ADS)

    Keating, Scott C.; Felippa, Carlos A.; Park, K. C.

    1994-11-01

    The formulation and application of element-level, element-independent error indicators is investigated. This research culminates in the development of an error indicator formulation which is derived based on the projection of element deformation onto the intrinsic element displacement modes. The qualifier 'element-level' means that no information from adjacent elements is used for error estimation. This property is ideally suited for obtaining error values and driving adaptive mesh refinements on parallel computers where access to neighboring elements residing on different processors may incur significant overhead. In addition such estimators are insensitive to the presence of physical interfaces and junctures. An error indicator qualifies as 'element-independent' when only visible quantities such as element stiffness and nodal displacements are used to quantify error. Error evaluation at the element level and element independence for the error indicator are highly desired properties for computing error in production-level finite element codes. Four element-level error indicators have been constructed. Two of the indicators are based on variational formulation of the element stiffness and are element-dependent. Their derivations are retained for developmental purposes. The second two indicators mimic and exceed the first two in performance but require no special formulation of the element stiffness mesh refinement which we demonstrate for two dimensional plane stress problems. The parallelizing of substructures and adaptive mesh refinement is discussed and the final error indicator using two-dimensional plane-stress and three-dimensional shell problems is demonstrated.

  17. Biomechanical analyses of prosthetic mesh repair in a hiatal hernia model.

    PubMed

    Alizai, Patrick Hamid; Schmid, Sofie; Otto, Jens; Klink, Christian Daniel; Roeth, Anjali; Nolting, Jochen; Neumann, Ulf Peter; Klinge, Uwe

    2014-10-01

    Recurrence rate of hiatal hernia can be reduced with prosthetic mesh repair; however, type and shape of the mesh are still a matter of controversy. The purpose of this study was to investigate the biomechanical properties of four conventional meshes: pure polypropylene mesh (PP-P), polypropylene/poliglecaprone mesh (PP-U), polyvinylidenefluoride/polypropylene mesh (PVDF-I), and pure polyvinylidenefluoride mesh (PVDF-S). Meshes were tested either in warp direction (parallel to production direction) or perpendicular to the warp direction. A Zwick testing machine was used to measure elasticity and effective porosity of the textile probes. Stretching of the meshes in warp direction required forces that were up to 85-fold higher than the same elongation in perpendicular direction. Stretch stress led to loss of effective porosity in most meshes, except for PVDF-S. Biomechanical impact of the mesh was additionally evaluated in a hiatal hernia model. The different meshes were used either as rectangular patches or as circular meshes. Circular meshes led to a significant reinforcement of the hiatus, largely unaffected by the orientation of the warp fibers. In contrast, rectangular meshes provided a significant reinforcement only when warp fibers ran perpendicular to the crura. Anisotropic elasticity of prosthetic meshes should therefore be considered in hiatal closure with rectangular patches.

  18. Adjoint-based error estimation and mesh adaptation for the correction procedure via reconstruction method

    NASA Astrophysics Data System (ADS)

    Shi, Lei; Wang, Z. J.

    2015-08-01

    Adjoint-based mesh adaptive methods are capable of distributing computational resources to areas which are important for predicting an engineering output. In this paper, we develop an adjoint-based h-adaptation approach based on the high-order correction procedure via reconstruction formulation (CPR) to minimize the output or functional error. A dual-consistent CPR formulation of hyperbolic conservation laws is developed and its dual consistency is analyzed. Super-convergent functional and error estimate for the output with the CPR method are obtained. Factors affecting the dual consistency, such as the solution point distribution, correction functions, boundary conditions and the discretization approach for the non-linear flux divergence term, are studied. The presented method is then used to perform simulations for the 2D Euler and Navier-Stokes equations with mesh adaptation driven by the adjoint-based error estimate. Several numerical examples demonstrate the ability of the presented method to dramatically reduce the computational cost comparing with uniform grid refinement.

  19. A new adaptive mesh refinement data structure with an application to detonation

    NASA Astrophysics Data System (ADS)

    Ji, Hua; Lien, Fue-Sang; Yee, Eugene

    2010-11-01

    A new Cell-based Structured Adaptive Mesh Refinement (CSAMR) data structure is developed. In our CSAMR data structure, Cartesian-like indices are used to identify each cell. With these stored indices, the information on the parent, children and neighbors of a given cell can be accessed simply and efficiently. Owing to the usage of these indices, the computer memory required for storage of the proposed AMR data structure is only {5}/{8} word per cell, in contrast to the conventional oct-tree [P. MacNeice, K.M. Olson, C. Mobary, R. deFainchtein, C. Packer, PARAMESH: a parallel adaptive mesh refinement community toolkit, Comput. Phys. Commun. 330 (2000) 126] and the fully threaded tree (FTT) [A.M. Khokhlov, Fully threaded tree algorithms for adaptive mesh fluid dynamics simulations, J. Comput. Phys. 143 (1998) 519] data structures which require, respectively, 19 and 2{3}/{8} words per cell for storage of the connectivity information. Because the connectivity information (e.g., parent, children and neighbors) of a cell in our proposed AMR data structure can be accessed using only the cell indices, a tree structure which was required in previous approaches for the organization of the AMR data is no longer needed for this new data structure. Instead, a much simpler hash table structure is used to maintain the AMR data, with the entry keys in the hash table obtained directly from the explicitly stored cell indices. The proposed AMR data structure simplifies the implementation and parallelization of an AMR code. Two three-dimensional test cases are used to illustrate and evaluate the computational performance of the new CSAMR data structure.

  20. Adaptive-mesh-based algorithm for fluorescence molecular tomography using an analytical solution.

    PubMed

    Wang, Daifa; Song, Xiaolei; Bai, Jing

    2007-07-23

    Fluorescence molecular tomography (FMT) has become an important method for in-vivo imaging of small animals. It has been widely used for tumor genesis, cancer detection, metastasis, drug discovery, and gene therapy. In this study, an algorithm for FMT is proposed to obtain accurate and fast reconstruction by combining an adaptive mesh refinement technique and an analytical solution of diffusion equation. Numerical studies have been performed on a parallel plate FMT system with matching fluid. The reconstructions obtained show that the algorithm is efficient in computation time, and they also maintain image quality.

  1. Transient thermal-structural analysis using adaptive unstructured remeshing and mesh movement

    NASA Technical Reports Server (NTRS)

    Dechaumphai, Pramote; Morgan, Kenneth

    1990-01-01

    An adaptive unstructured remeshing technique is applied to transient thermal-structural analysis. The effectiveness of the technique, together with the finite element method and an error estimation technique, is evaluated by two applications which have exact solutions: (1) the steady-state thermal analysis of a plate subjected to a highly localized surface heating, and (2) the transient thermal-structural analysis of a simulated convectively cooled leading edge subjected to a translating heat source. These applications demonstrate that the remeshing technique significantly reduces the problem size as well as the analysis solution error as compared to the results produced using standard structured meshes.

  2. Compact integration factor methods for complex domains and adaptive mesh refinement.

    PubMed

    Liu, Xinfeng; Nie, Qing

    2010-08-10

    Implicit integration factor (IIF) method, a class of efficient semi-implicit temporal scheme, was introduced recently for stiff reaction-diffusion equations. To reduce cost of IIF, compact implicit integration factor (cIIF) method was later developed for efficient storage and calculation of exponential matrices associated with the diffusion operators in two and three spatial dimensions for Cartesian coordinates with regular meshes. Unlike IIF, cIIF cannot be directly extended to other curvilinear coordinates, such as polar and spherical coordinate, due to the compact representation for the diffusion terms in cIIF. In this paper, we present a method to generalize cIIF for other curvilinear coordinates through examples of polar and spherical coordinates. The new cIIF method in polar and spherical coordinates has similar computational efficiency and stability properties as the cIIF in Cartesian coordinate. In addition, we present a method for integrating cIIF with adaptive mesh refinement (AMR) to take advantage of the excellent stability condition for cIIF. Because the second order cIIF is unconditionally stable, it allows large time steps for AMR, unlike a typical explicit temporal scheme whose time step is severely restricted by the smallest mesh size in the entire spatial domain. Finally, we apply those methods to simulating a cell signaling system described by a system of stiff reaction-diffusion equations in both two and three spatial dimensions using AMR, curvilinear and Cartesian coordinates. Excellent performance of the new methods is observed.

  3. Compact integration factor methods for complex domains and adaptive mesh refinement

    PubMed Central

    Liu, Xinfeng; Nie, Qing

    2010-01-01

    Implicit integration factor (IIF) method, a class of efficient semi-implicit temporal scheme, was introduced recently for stiff reaction-diffusion equations. To reduce cost of IIF, compact implicit integration factor (cIIF) method was later developed for efficient storage and calculation of exponential matrices associated with the diffusion operators in two and three spatial dimensions for Cartesian coordinates with regular meshes. Unlike IIF, cIIF cannot be directly extended to other curvilinear coordinates, such as polar and spherical coordinate, due to the compact representation for the diffusion terms in cIIF. In this paper, we present a method to generalize cIIF for other curvilinear coordinates through examples of polar and spherical coordinates. The new cIIF method in polar and spherical coordinates has similar computational efficiency and stability properties as the cIIF in Cartesian coordinate. In addition, we present a method for integrating cIIF with adaptive mesh refinement (AMR) to take advantage of the excellent stability condition for cIIF. Because the second order cIIF is unconditionally stable, it allows large time steps for AMR, unlike a typical explicit temporal scheme whose time step is severely restricted by the smallest mesh size in the entire spatial domain. Finally, we apply those methods to simulating a cell signaling system described by a system of stiff reaction-diffusion equations in both two and three spatial dimensions using AMR, curvilinear and Cartesian coordinates. Excellent performance of the new methods is observed. PMID:20543883

  4. A mesh adaptivity scheme on the Landau-de Gennes functional minimization case in 3D, and its driving efficiency

    NASA Astrophysics Data System (ADS)

    Bajc, Iztok; Hecht, Frédéric; Žumer, Slobodan

    2016-09-01

    This paper presents a 3D mesh adaptivity strategy on unstructured tetrahedral meshes by a posteriori error estimates based on metrics derived from the Hessian of a solution. The study is made on the case of a nonlinear finite element minimization scheme for the Landau-de Gennes free energy functional of nematic liquid crystals. Newton's iteration for tensor fields is employed with steepest descent method possibly stepping in. Aspects relating the driving of mesh adaptivity within the nonlinear scheme are considered. The algorithmic performance is found to depend on at least two factors: when to trigger each single mesh adaptation, and the precision of the correlated remeshing. Each factor is represented by a parameter, with its values possibly varying for every new mesh adaptation. We empirically show that the time of the overall algorithm convergence can vary considerably when different sequences of parameters are used, thus posing a question about optimality. The extensive testings and debugging done within this work on the simulation of systems of nematic colloids substantially contributed to the upgrade of an open source finite element-oriented programming language to its 3D meshing possibilities, as also to an outer 3D remeshing module.

  5. GAMMA-RAY BURST DYNAMICS AND AFTERGLOW RADIATION FROM ADAPTIVE MESH REFINEMENT, SPECIAL RELATIVISTIC HYDRODYNAMIC SIMULATIONS

    SciTech Connect

    De Colle, Fabio; Ramirez-Ruiz, Enrico; Granot, Jonathan; Lopez-Camara, Diego

    2012-02-20

    We report on the development of Mezcal-SRHD, a new adaptive mesh refinement, special relativistic hydrodynamics (SRHD) code, developed with the aim of studying the highly relativistic flows in gamma-ray burst sources. The SRHD equations are solved using finite-volume conservative solvers, with second-order interpolation in space and time. The correct implementation of the algorithms is verified by one-dimensional (1D) and multi-dimensional tests. The code is then applied to study the propagation of 1D spherical impulsive blast waves expanding in a stratified medium with {rho}{proportional_to}r{sup -k}, bridging between the relativistic and Newtonian phases (which are described by the Blandford-McKee and Sedov-Taylor self-similar solutions, respectively), as well as to a two-dimensional (2D) cylindrically symmetric impulsive jet propagating in a constant density medium. It is shown that the deceleration to nonrelativistic speeds in one dimension occurs on scales significantly larger than the Sedov length. This transition is further delayed with respect to the Sedov length as the degree of stratification of the ambient medium is increased. This result, together with the scaling of position, Lorentz factor, and the shock velocity as a function of time and shock radius, is explained here using a simple analytical model based on energy conservation. The method used for calculating the afterglow radiation by post-processing the results of the simulations is described in detail. The light curves computed using the results of 1D numerical simulations during the relativistic stage correctly reproduce those calculated assuming the self-similar Blandford-McKee solution for the evolution of the flow. The jet dynamics from our 2D simulations and the resulting afterglow light curves, including the jet break, are in good agreement with those presented in previous works. Finally, we show how the details of the dynamics critically depend on properly resolving the structure of the

  6. Gamma-Ray Burst Dynamics and Afterglow Radiation from Adaptive Mesh Refinement, Special Relativistic Hydrodynamic Simulations

    NASA Astrophysics Data System (ADS)

    De Colle, Fabio; Granot, Jonathan; López-Cámara, Diego; Ramirez-Ruiz, Enrico

    2012-02-01

    We report on the development of Mezcal-SRHD, a new adaptive mesh refinement, special relativistic hydrodynamics (SRHD) code, developed with the aim of studying the highly relativistic flows in gamma-ray burst sources. The SRHD equations are solved using finite-volume conservative solvers, with second-order interpolation in space and time. The correct implementation of the algorithms is verified by one-dimensional (1D) and multi-dimensional tests. The code is then applied to study the propagation of 1D spherical impulsive blast waves expanding in a stratified medium with ρvpropr -k , bridging between the relativistic and Newtonian phases (which are described by the Blandford-McKee and Sedov-Taylor self-similar solutions, respectively), as well as to a two-dimensional (2D) cylindrically symmetric impulsive jet propagating in a constant density medium. It is shown that the deceleration to nonrelativistic speeds in one dimension occurs on scales significantly larger than the Sedov length. This transition is further delayed with respect to the Sedov length as the degree of stratification of the ambient medium is increased. This result, together with the scaling of position, Lorentz factor, and the shock velocity as a function of time and shock radius, is explained here using a simple analytical model based on energy conservation. The method used for calculating the afterglow radiation by post-processing the results of the simulations is described in detail. The light curves computed using the results of 1D numerical simulations during the relativistic stage correctly reproduce those calculated assuming the self-similar Blandford-McKee solution for the evolution of the flow. The jet dynamics from our 2D simulations and the resulting afterglow light curves, including the jet break, are in good agreement with those presented in previous works. Finally, we show how the details of the dynamics critically depend on properly resolving the structure of the relativistic flow.

  7. Efficient Modelling and Prediction of Meshing Noise from Chain Drives

    NASA Astrophysics Data System (ADS)

    ZHENG, H.; WANG, Y. Y.; LIU, G. R.; LAM, K. Y.; QUEK, K. P.; ITO, T.; NOGUCHI, Y.

    2001-08-01

    This paper presents a practical approach for predicting the meshing noise due to the impact of chain rollers against the sprocket of chain drives. An acoustical model relating dynamic response of rollers and its induced sound pressure is developed based on the fact that the acoustic field is mainly created by oscillating rigid cylindrical rollers. Finite element techniques and numerical software codes are employed to model and simulate the acceleration response of each chain roller which is necessary for noise level prediction of a chain drive under varying operation conditions and different sprocket configurations. The predicted acoustic pressure levels of meshing noise are compared with the available experimental measurements. It is shown that the predictions are in reasonable agreement with the experiments and the approach enables designers to obtain required information on the noise level of a selected chain drive in a time- and cost-efficient manner.

  8. Ku band electric models for large deployable mesh reflector antenna

    NASA Astrophysics Data System (ADS)

    Sato, S.; Iso, A.; Orikasa, T.; Sugimoto, T.

    1990-12-01

    Two scaled electric models of mesh reflectors have been constructed to evaluate the electrical performance of a 30 m aperture diameter large deployable antenna. Radiation characteristics have been measured, particularly the cross-polarization level in the case of circular polarization. The similarities between the measured and calculated results are very close. The cross-polarization level is low, and it is very likely that frequency reuse using dual polarization is possible.

  9. Using adaptive sampling and triangular meshes for the processing and inversion of potential field data

    NASA Astrophysics Data System (ADS)

    Foks, Nathan Leon

    The interpretation of geophysical data plays an important role in the analysis of potential field data in resource exploration industries. Two categories of interpretation techniques are discussed in this thesis; boundary detection and geophysical inversion. Fault or boundary detection is a method to interpret the locations of subsurface boundaries from measured data, while inversion is a computationally intensive method that provides 3D information about subsurface structure. My research focuses on these two aspects of interpretation techniques. First, I develop a method to aid in the interpretation of faults and boundaries from magnetic data. These processes are traditionally carried out using raster grid and image processing techniques. Instead, I use unstructured meshes of triangular facets that can extract inferred boundaries using mesh edges. Next, to address the computational issues of geophysical inversion, I develop an approach to reduce the number of data in a data set. The approach selects the data points according to a user specified proxy for its signal content. The approach is performed in the data domain and requires no modification to existing inversion codes. This technique adds to the existing suite of compressive inversion algorithms. Finally, I develop an algorithm to invert gravity data for an interfacing surface using an unstructured mesh of triangular facets. A pertinent property of unstructured meshes is their flexibility at representing oblique, or arbitrarily oriented structures. This flexibility makes unstructured meshes an ideal candidate for geometry based interface inversions. The approaches I have developed provide a suite of algorithms geared towards large-scale interpretation of potential field data, by using an unstructured representation of both the data and model parameters.

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

    SciTech Connect

    Ragusa, Jean C.

    2015-01-01

    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.

  11. Computations of two- and three-dimensional flows using an adaptive mesh

    NASA Astrophysics Data System (ADS)

    Nakahashi, K.

    1985-11-01

    Two- and three-dimensional, steady and unsteady viscous flow fields are numerically simulated by solving the Navier-Stokes equations. A solution-adaptive-grid method is used to redistribute the grid points so as to improve the resolution of shock waves and shear layers without increasing the number of grid points. Flow fields considered include two-dimensional transonic flows about airfoils, two- and three-dimensional supersonic flow past an aerodynamic afterbody with a propulsive jet, supersonic flow over a blunt fin mounted on a wall, and supersonic flow over a bump. The computed results demonstrate a significant improvement in accuracy and quality of the solutions owing to the solution-adaptive mesh.

  12. A DAFT DL_POLY distributed memory adaptation of the Smoothed Particle Mesh Ewald method

    NASA Astrophysics Data System (ADS)

    Bush, I. J.; Todorov, I. T.; Smith, W.

    2006-09-01

    The Smoothed Particle Mesh Ewald method [U. Essmann, L. Perera, M.L. Berkowtz, T. Darden, H. Lee, L.G. Pedersen, J. Chem. Phys. 103 (1995) 8577] for calculating long ranged forces in molecular simulation has been adapted for the parallel molecular dynamics code DL_POLY_3 [I.T. Todorov, W. Smith, Philos. Trans. Roy. Soc. London 362 (2004) 1835], making use of a novel 3D Fast Fourier Transform (DAFT) [I.J. Bush, The Daresbury Advanced Fourier transform, Daresbury Laboratory, 1999] that perfectly matches the Domain Decomposition (DD) parallelisation strategy [W. Smith, Comput. Phys. Comm. 62 (1991) 229; M.R.S. Pinches, D. Tildesley, W. Smith, Mol. Sim. 6 (1991) 51; D. Rapaport, Comput. Phys. Comm. 62 (1991) 217] of the DL_POLY_3 code. In this article we describe software adaptations undertaken to import this functionality and provide a review of its performance.

  13. GAMER: A GRAPHIC PROCESSING UNIT ACCELERATED ADAPTIVE-MESH-REFINEMENT CODE FOR ASTROPHYSICS

    SciTech Connect

    Schive, H.-Y.; Tsai, Y.-C.; Chiueh Tzihong

    2010-02-01

    We present the newly developed code, GPU-accelerated Adaptive-MEsh-Refinement code (GAMER), which adopts a novel approach in improving the performance of adaptive-mesh-refinement (AMR) astrophysical simulations by a large factor with the use of the graphic processing unit (GPU). The AMR implementation is based on a hierarchy of grid patches with an oct-tree data structure. We adopt a three-dimensional relaxing total variation diminishing scheme for the hydrodynamic solver and a multi-level relaxation scheme for the Poisson solver. Both solvers have been implemented in GPU, by which hundreds of patches can be advanced in parallel. The computational overhead associated with the data transfer between the CPU and GPU is carefully reduced by utilizing the capability of asynchronous memory copies in GPU, and the computing time of the ghost-zone values for each patch is diminished by overlapping it with the GPU computations. We demonstrate the accuracy of the code by performing several standard test problems in astrophysics. GAMER is a parallel code that can be run in a multi-GPU cluster system. We measure the performance of the code by performing purely baryonic cosmological simulations in different hardware implementations, in which detailed timing analyses provide comparison between the computations with and without GPU(s) acceleration. Maximum speed-up factors of 12.19 and 10.47 are demonstrated using one GPU with 4096{sup 3} effective resolution and 16 GPUs with 8192{sup 3} effective resolution, respectively.

  14. A universal algorithm for an improved finite element mesh generation Mesh quality assessment in comparison to former automated mesh-generators and an analytic model.

    PubMed

    Kaminsky, Jan; Rodt, Thomas; Gharabaghi, Alireza; Forster, Jan; Brand, Gerd; Samii, Madjid

    2005-06-01

    The FE-modeling of complex anatomical structures is not solved satisfyingly so far. Voxel-based as opposed to contour-based algorithms allow an automated mesh generation based on the image data. Nonetheless their geometric precision is limited. We developed an automated mesh-generator that combines the advantages of voxel-based generation with improved representation of the geometry by displacement of nodes on the object-surface. Models of an artificial 3D-pipe-section and a skullbase were generated with different mesh-densities using the newly developed geometric, unsmoothed and smoothed voxel generators. Compared to the analytic calculation of the 3D-pipe-section model the normalized RMS error of the surface stress was 0.173-0.647 for the unsmoothed voxel models, 0.111-0.616 for the smoothed voxel models with small volume error and 0.126-0.273 for the geometric models. The highest element-energy error as a criterion for the mesh quality was 2.61x10(-2) N mm, 2.46x10(-2) N mm and 1.81x10(-2) N mm for unsmoothed, smoothed and geometric voxel models, respectively. The geometric model of the 3D-skullbase resulted in the lowest element-energy error and volume error. This algorithm also allowed the best representation of anatomical details. The presented geometric mesh-generator is universally applicable and allows an automated and accurate modeling by combining the advantages of the voxel-technique and of improved surface-modeling.

  15. Multi-dimensional upwind fluctuation splitting scheme with mesh adaption for hypersonic viscous flow

    NASA Astrophysics Data System (ADS)

    Wood, William Alfred, III

    production is shown relative to DMFDSFV. Remarkably the fluctuation splitting scheme shows grid converged skin friction coefficients with only five points in the boundary layer for this case. A viscous Mach 17.6 (perfect gas) cylinder case demonstrates solution monotonicity and heat transfer capability with the fluctuation splitting scheme. While fluctuation splitting is recommended over DMFDSFV, the difference in performance between the schemes is not so great as to obsolete DMFDSFV. The second half of the dissertation develops a local, compact, anisotropic unstructured mesh adaption scheme in conjunction with the multi-dimensional upwind solver, exhibiting a characteristic alignment behavior for scalar problems. This alignment behavior stands in contrast to the curvature clustering nature of the local, anisotropic unstructured adaption strategy based upon a posteriori error estimation that is used for comparison. The characteristic alignment is most pronounced for linear advection, with reduced improvement seen for the more complex non-linear advection and advection-diffusion cases. The adaption strategy is extended to the two-dimensional and axisymmetric Navier-Stokes equations of motion through the concept of fluctuation minimization. The system test case for the adaption strategy is a sting mounted capsule at Mach-10 wind tunnel conditions, considered in both two-dimensional and axisymmetric configurations. For this complex flowfield the adaption results are disappointing since feature alignment does not emerge from the local operations. Aggressive adaption is shown to result in a loss of robustness for the solver, particularly in the bow shock/stagnation point interaction region. Reducing the adaption strength maintains solution robustness but fails to produce significant improvement in the surface heat transfer predictions.

  16. Minimising the error in eigenvalue calculations involving the Boltzmann transport equation using goal-based adaptivity on unstructured meshes

    NASA Astrophysics Data System (ADS)

    Goffin, Mark A.; Baker, Christopher M. J.; Buchan, Andrew G.; Pain, Christopher C.; Eaton, Matthew D.; Smith, Paul N.

    2013-06-01

    This article presents a method for goal-based anisotropic adaptive methods for the finite element method applied to the Boltzmann transport equation. The neutron multiplication factor, k, is used as the goal of the adaptive procedure. The anisotropic adaptive algorithm requires error measures for k with directional dependence. General error estimators are derived for any given functional of the flux and applied to k to acquire the driving force for the adaptive procedure. The error estimators require the solution of an appropriately formed dual equation. Forward and dual error indicators are calculated by weighting the Hessian of each solution with the dual and forward residual respectively. The Hessian is used as an approximation of the interpolation error in the solution which gives rise to the directional dependence. The two indicators are combined to form a single error metric that is used to adapt the finite element mesh. The residual is approximated using a novel technique arising from the sub-grid scale finite element discretisation. Two adaptive routes are demonstrated: (i) a single mesh is used to solve all energy groups, and (ii) a different mesh is used to solve each energy group. The second method aims to capture the benefit from representing the flux from each energy group on a specifically optimised mesh. The k goal-based adaptive method was applied to three examples which illustrate the superior accuracy in criticality problems that can be obtained.

  17. Minimising the error in eigenvalue calculations involving the Boltzmann transport equation using goal-based adaptivity on unstructured meshes

    SciTech Connect

    Goffin, Mark A.; Baker, Christopher M.J.; Buchan, Andrew G.; Pain, Christopher C.; Eaton, Matthew D.; Smith, Paul N.

    2013-06-01

    This article presents a method for goal-based anisotropic adaptive methods for the finite element method applied to the Boltzmann transport equation. The neutron multiplication factor, k{sub eff}, is used as the goal of the adaptive procedure. The anisotropic adaptive algorithm requires error measures for k{sub eff} with directional dependence. General error estimators are derived for any given functional of the flux and applied to k{sub eff} to acquire the driving force for the adaptive procedure. The error estimators require the solution of an appropriately formed dual equation. Forward and dual error indicators are calculated by weighting the Hessian of each solution with the dual and forward residual respectively. The Hessian is used as an approximation of the interpolation error in the solution which gives rise to the directional dependence. The two indicators are combined to form a single error metric that is used to adapt the finite element mesh. The residual is approximated using a novel technique arising from the sub-grid scale finite element discretisation. Two adaptive routes are demonstrated: (i) a single mesh is used to solve all energy groups, and (ii) a different mesh is used to solve each energy group. The second method aims to capture the benefit from representing the flux from each energy group on a specifically optimised mesh. The k{sub eff} goal-based adaptive method was applied to three examples which illustrate the superior accuracy in criticality problems that can be obtained.

  18. Adaptive Urban Dispersion Integrated Model

    SciTech Connect

    Wissink, A; Chand, K; Kosovic, B; Chan, S; Berger, M; Chow, F K

    2005-11-03

    Numerical simulations represent a unique predictive tool for understanding the three-dimensional flow fields and associated concentration distributions from contaminant releases in complex urban settings (Britter and Hanna 2003). Utilization of the most accurate urban models, based on fully three-dimensional computational fluid dynamics (CFD) that solve the Navier-Stokes equations with incorporated turbulence models, presents many challenges. We address two in this work; first, a fast but accurate way to incorporate the complex urban terrain, buildings, and other structures to enforce proper boundary conditions in the flow solution; second, ways to achieve a level of computational efficiency that allows the models to be run in an automated fashion such that they may be used for emergency response and event reconstruction applications. We have developed a new integrated urban dispersion modeling capability based on FEM3MP (Gresho and Chan 1998, Chan and Stevens 2000), a CFD model from Lawrence Livermore National Lab. The integrated capability incorporates fast embedded boundary mesh generation for geometrically complex problems and full three-dimensional Cartesian adaptive mesh refinement (AMR). Parallel AMR and embedded boundary gridding support are provided through the SAMRAI library (Wissink et al. 2001, Hornung and Kohn 2002). Embedded boundary mesh generation has been demonstrated to be an automatic, fast, and efficient approach for problem setup. It has been used for a variety of geometrically complex applications, including urban applications (Pullen et al. 2005). The key technology we introduce in this work is the application of AMR, which allows the application of high-resolution modeling to certain important features, such as individual buildings and high-resolution terrain (including important vegetative and land-use features). It also allows the urban scale model to be readily interfaced with coarser resolution meso or regional scale models. This talk

  19. Adaptive Mesh Refinement and Adaptive Time Integration for Electrical Wave Propagation on the Purkinje System.

    PubMed

    Ying, Wenjun; Henriquez, Craig S

    2015-01-01

    A both space and time adaptive algorithm is presented for simulating electrical wave propagation in the Purkinje system of the heart. The equations governing the distribution of electric potential over the system are solved in time with the method of lines. At each timestep, by an operator splitting technique, the space-dependent but linear diffusion part and the nonlinear but space-independent reactions part in the partial differential equations are integrated separately with implicit schemes, which have better stability and allow larger timesteps than explicit ones. The linear diffusion equation on each edge of the system is spatially discretized with the continuous piecewise linear finite element method. The adaptive algorithm can automatically recognize when and where the electrical wave starts to leave or enter the computational domain due to external current/voltage stimulation, self-excitation, or local change of membrane properties. Numerical examples demonstrating efficiency and accuracy of the adaptive algorithm are presented.

  20. Adaptive Mesh Refinement and Adaptive Time Integration for Electrical Wave Propagation on the Purkinje System

    PubMed Central

    Ying, Wenjun; Henriquez, Craig S.

    2015-01-01

    A both space and time adaptive algorithm is presented for simulating electrical wave propagation in the Purkinje system of the heart. The equations governing the distribution of electric potential over the system are solved in time with the method of lines. At each timestep, by an operator splitting technique, the space-dependent but linear diffusion part and the nonlinear but space-independent reactions part in the partial differential equations are integrated separately with implicit schemes, which have better stability and allow larger timesteps than explicit ones. The linear diffusion equation on each edge of the system is spatially discretized with the continuous piecewise linear finite element method. The adaptive algorithm can automatically recognize when and where the electrical wave starts to leave or enter the computational domain due to external current/voltage stimulation, self-excitation, or local change of membrane properties. Numerical examples demonstrating efficiency and accuracy of the adaptive algorithm are presented. PMID:26581455

  1. Effects of mesh style and grid convergence on particle deposition in bifurcating airway models with comparisons to experimental data.

    PubMed

    Longest, P Worth; Vinchurkar, Samir

    2007-04-01

    A number of research studies have employed a wide variety of mesh styles and levels of grid convergence to assess velocity fields and particle deposition patterns in models of branching biological systems. Generating structured meshes based on hexahedral elements requires significant time and effort; however, these meshes are often associated with high quality solutions. Unstructured meshes that employ tetrahedral elements can be constructed much faster but may increase levels of numerical diffusion, especially in tubular flow systems with a primary flow direction. The objective of this study is to better establish the effects of mesh generation techniques and grid convergence on velocity fields and particle deposition patterns in bifurcating respiratory models. In order to achieve this objective, four widely used mesh styles including structured hexahedral, unstructured tetrahedral, flow adaptive tetrahedral, and hybrid grids have been considered for two respiratory airway configurations. Initial particle conditions tested are based on the inlet velocity profile or the local inlet mass flow rate. Accuracy of the simulations has been assessed by comparisons to experimental in vitro data available in the literature for the steady-state velocity field in a single bifurcation model as well as the local particle deposition fraction in a double bifurcation model. Quantitative grid convergence was assessed based on a grid convergence index (GCI), which accounts for the degree of grid refinement. The hexahedral mesh was observed to have GCI values that were an order of magnitude below the unstructured tetrahedral mesh values for all resolutions considered. Moreover, the hexahedral mesh style provided GCI values of approximately 1% and reduced run times by a factor of 3. Based on comparisons to empirical data, it was shown that inlet particle seedings should be consistent with the local inlet mass flow rate. Furthermore, the mesh style was found to have an observable

  2. Effects of mesh style and grid convergence on particle deposition in bifurcating airway models with comparisons to experimental data.

    PubMed

    Longest, P Worth; Vinchurkar, Samir

    2007-04-01

    A number of research studies have employed a wide variety of mesh styles and levels of grid convergence to assess velocity fields and particle deposition patterns in models of branching biological systems. Generating structured meshes based on hexahedral elements requires significant time and effort; however, these meshes are often associated with high quality solutions. Unstructured meshes that employ tetrahedral elements can be constructed much faster but may increase levels of numerical diffusion, especially in tubular flow systems with a primary flow direction. The objective of this study is to better establish the effects of mesh generation techniques and grid convergence on velocity fields and particle deposition patterns in bifurcating respiratory models. In order to achieve this objective, four widely used mesh styles including structured hexahedral, unstructured tetrahedral, flow adaptive tetrahedral, and hybrid grids have been considered for two respiratory airway configurations. Initial particle conditions tested are based on the inlet velocity profile or the local inlet mass flow rate. Accuracy of the simulations has been assessed by comparisons to experimental in vitro data available in the literature for the steady-state velocity field in a single bifurcation model as well as the local particle deposition fraction in a double bifurcation model. Quantitative grid convergence was assessed based on a grid convergence index (GCI), which accounts for the degree of grid refinement. The hexahedral mesh was observed to have GCI values that were an order of magnitude below the unstructured tetrahedral mesh values for all resolutions considered. Moreover, the hexahedral mesh style provided GCI values of approximately 1% and reduced run times by a factor of 3. Based on comparisons to empirical data, it was shown that inlet particle seedings should be consistent with the local inlet mass flow rate. Furthermore, the mesh style was found to have an observable

  3. Relativistic magnetohydrodynamics in dynamical spacetimes: A new adaptive mesh refinement implementation

    SciTech Connect

    Etienne, Zachariah B.; Liu, Yuk Tung; Shapiro, Stuart L.

    2010-10-15

    We have written and tested a new general relativistic magnetohydrodynamics code, capable of evolving magnetohydrodynamics (MHD) fluids in dynamical spacetimes with adaptive-mesh refinement (AMR). Our code solves the Einstein-Maxwell-MHD system of coupled equations in full 3+1 dimensions, evolving the metric via the Baumgarte-Shapiro Shibata-Nakamura formalism and the MHD and magnetic induction equations via a conservative, high-resolution shock-capturing scheme. The induction equations are recast as an evolution equation for the magnetic vector potential, which exists on a grid that is staggered with respect to the hydrodynamic and metric variables. The divergenceless constraint {nabla}{center_dot}B=0 is enforced by the curl of the vector potential. Our MHD scheme is fully compatible with AMR, so that fluids at AMR refinement boundaries maintain {nabla}{center_dot}B=0. In simulations with uniform grid spacing, our MHD scheme is numerically equivalent to a commonly used, staggered-mesh constrained-transport scheme. We present code validation test results, both in Minkowski and curved spacetimes. They include magnetized shocks, nonlinear Alfven waves, cylindrical explosions, cylindrical rotating disks, magnetized Bondi tests, and the collapse of a magnetized rotating star. Some of the more stringent tests involve black holes. We find good agreement between analytic and numerical solutions in these tests, and achieve convergence at the expected order.

  4. Finite-difference lattice Boltzmann method with a block-structured adaptive-mesh-refinement technique.

    PubMed

    Fakhari, Abbas; Lee, Taehun

    2014-03-01

    An adaptive-mesh-refinement (AMR) algorithm for the finite-difference lattice Boltzmann method (FDLBM) is presented in this study. The idea behind the proposed AMR is to remove the need for a tree-type data structure. Instead, pointer attributes are used to determine the neighbors of a certain block via appropriate adjustment of its children identifications. As a result, the memory and time required for tree traversal are completely eliminated, leaving us with an efficient algorithm that is easier to implement and use on parallel machines. To allow different mesh sizes at separate parts of the computational domain, the Eulerian formulation of the streaming process is invoked. As a result, there is no need for rescaling the distribution functions or using a temporal interpolation at the fine-coarse grid boundaries. The accuracy and efficiency of the proposed FDLBM AMR are extensively assessed by investigating a variety of vorticity-dominated flow fields, including Taylor-Green vortex flow, lid-driven cavity flow, thin shear layer flow, and the flow past a square cylinder.

  5. Unstructured mesh algorithms for aerodynamic calculations

    NASA Technical Reports Server (NTRS)

    Mavriplis, D. J.

    1992-01-01

    The use of unstructured mesh techniques for solving complex aerodynamic flows is discussed. The principle advantages of unstructured mesh strategies, as they relate to complex geometries, adaptive meshing capabilities, and parallel processing are emphasized. The various aspects required for the efficient and accurate solution of aerodynamic flows are addressed. These include mesh generation, mesh adaptivity, solution algorithms, convergence acceleration, and turbulence modeling. Computations of viscous turbulent two-dimensional flows and inviscid three-dimensional flows about complex configurations are demonstrated. Remaining obstacles and directions for future research are also outlined.

  6. The application of ICOM, a non-hydrostatic, fully unstructured mesh model in large scale ocean domains

    NASA Astrophysics Data System (ADS)

    Kramer, Stephan C.; Piggott, Matthew D.; Cotter, Colin J.; Pain, Chris C.; Nelson, Rhodri B.

    2010-05-01

    There are many apparent advantages of the application of unstructured meshes in ocean modelling: a much better representation of the coastal boundaries, the ability to focus resolution in areas of interest, or areas of intensified flow, such as boundary currents, etc. In particular with adaptive mesh technology, where the mesh is adapted during the simulation as the flow evolves, one is able to resolve much smaller features in the often turbulent ocean flow, than would be possible with fixed, structured mesh models. The Imperial College Ocean Model[1], is a non-hydrostatic ocean model that employs fully unstructured adaptive meshes, that allow focussing of resolution not only in the horizontal but also in the vertical. This enables the modelling of physical processes, such as open ocean deep convection, density driven flows on a steep bottom topography, etc. that are very important for the global ocean circulation. The Imperial College Ocean Model has been applied succesfully in the modelling of many of these processes. On the other hand hydrostatic, layered ocean models have a significant advantage in large areas of the oceans where the hydrostatic assumption is valid. The fact that with fully unstructured meshes it is no longer straightforward to separate horizontal, baroptropic modes and vertical, baroclinic dynamics, has consequences for both numerical accuracy and the efficiency of the linear solvers. It has therefore been a challenge for ICOM to remain competitive in these areas with layered mesh models. These problems have been overcome by, amongst others, the development of a new mesh adaptation technique that maintains a columnar structure of the mesh in such areas. The application of multigrid techniques has improved the effiency of the non-hydrostatic pressure solve[2] in such a way that convergence is now independent of aspect ratio, which makes the pressure solve competitive with that of a hydrostatic model. In this contribution an overview will be

  7. Adaptive Mesh Refinement Cosmological Simulations of Cosmic Rays in Galaxy Clusters

    NASA Astrophysics Data System (ADS)

    Skillman, Samuel William

    2013-12-01

    Galaxy clusters are unique astrophysical laboratories that contain many thermal and non-thermal phenomena. In particular, they are hosts to cosmic shocks, which propagate through the intracluster medium as a by-product of structure formation. It is believed that at these shock fronts, magnetic field inhomogeneities in a compressing flow may lead to the acceleration of cosmic ray electrons and ions. These relativistic particles decay and radiate through a variety of mechanisms, and have observational signatures in radio, hard X-ray, and Gamma-ray wavelengths. We begin this dissertation by developing a method to find shocks in cosmological adaptive mesh refinement simulations of structure formation. After describing the evolution of shock properties through cosmic time, we make estimates for the amount of kinetic energy processed and the total number of cosmic ray protons that could be accelerated at these shocks. We then use this method of shock finding and a model for the acceleration of and radio synchrotron emission from cosmic ray electrons to estimate the radio emission properties in large scale structures. By examining the time-evolution of the radio emission with respect to the X-ray emission during a galaxy cluster merger, we find that the relative timing of the enhancements in each are important consequences of the shock dynamics. By calculating the radio emission expected from a given mass galaxy cluster, we make estimates for future large-area radio surveys. Next, we use a state-of-the-art magnetohydrodynamic simulation to follow the electron acceleration in a massive merging galaxy cluster. We use the magnetic field information to calculate not only the total radio emission, but also create radio polarization maps that are compared to recent observations. We find that we can naturally reproduce Mpc-scale radio emission that resemble many of the known double radio relic systems. Finally, motivated by our previous studies, we develop and introduce a

  8. Galaxy Mergers with Adaptive Mesh Refinement: Star Formation and Hot Gas Outflow

    SciTech Connect

    Kim, Ji-hoon; Wise, John H.; Abel, Tom; /KIPAC, Menlo Park /Stanford U., Phys. Dept.

    2011-06-22

    In hierarchical structure formation, merging of galaxies is frequent and known to dramatically affect their properties. To comprehend these interactions high-resolution simulations are indispensable because of the nonlinear coupling between pc and Mpc scales. To this end, we present the first adaptive mesh refinement (AMR) simulation of two merging, low mass, initially gas-rich galaxies (1.8 x 10{sup 10} M{sub {circle_dot}} each), including star formation and feedback. With galaxies resolved by {approx} 2 x 10{sup 7} total computational elements, we achieve unprecedented resolution of the multiphase interstellar medium, finding a widespread starburst in the merging galaxies via shock-induced star formation. The high dynamic range of AMR also allows us to follow the interplay between the galaxies and their embedding medium depicting how galactic outflows and a hot metal-rich halo form. These results demonstrate that AMR provides a powerful tool in understanding interacting galaxies.

  9. Numerical Relativistic Magnetohydrodynamics with ADER Discontinuous Galerkin methods on adaptively refined meshes.

    NASA Astrophysics Data System (ADS)

    Zanotti, O.; Dumbser, M.; Fambri, F.

    2016-05-01

    We describe a new method for the solution of the ideal MHD equations in special relativity which adopts the following strategy: (i) the main scheme is based on Discontinuous Galerkin (DG) methods, allowing for an arbitrary accuracy of order N+1, where N is the degree of the basis polynomials; (ii) in order to cope with oscillations at discontinuities, an ”a-posteriori” sub-cell limiter is activated, which scatters the DG polynomials of the previous time-step onto a set of 2N+1 sub-cells, over which the solution is recomputed by means of a robust finite volume scheme; (iii) a local spacetime Discontinuous-Galerkin predictor is applied both on the main grid of the DG scheme and on the sub-grid of the finite volume scheme; (iv) adaptive mesh refinement (AMR) with local time-stepping is used. We validate the new scheme and comment on its potential applications in high energy astrophysics.

  10. Dynamic Implicit 3D Adaptive Mesh Refinement for Non-Equilibrium Radiation Diffusion

    SciTech Connect

    Philip, Bobby; Wang, Zhen; Berrill, Mark A; Rodriguez Rodriguez, Manuel; Pernice, Michael

    2014-01-01

    The time dependent non-equilibrium radiation diffusion equations are important for solving the transport of energy through radiation in optically thick regimes and find applications in several fields including astrophysics and inertial confinement fusion. The associated initial boundary value problems that are encountered exhibit a wide range of scales in space and time and are extremely challenging to solve. To efficiently and accurately simulate these systems we describe our research on combining techniques that will also find use more broadly for long term time integration of nonlinear multiphysics systems: implicit time integration for efficient long term time integration of stiff multiphysics systems, local control theory based step size control to minimize the required global number of time steps while controlling accuracy, dynamic 3D adaptive mesh refinement (AMR) to minimize memory and computational costs, Jacobian Free Newton Krylov methods on AMR grids for efficient nonlinear solution, and optimal multilevel preconditioner components that provide level independent linear solver convergence.

  11. Goal functional evaluations for phase-field fracture using PU-based DWR mesh adaptivity

    NASA Astrophysics Data System (ADS)

    Wick, Thomas

    2016-06-01

    In this study, a posteriori error estimation and goal-oriented mesh adaptivity are developed for phase-field fracture propagation. Goal functionals are computed with the dual-weighted residual (DWR) method, which is realized by a recently introduced novel localization technique based on a partition-of-unity (PU). This technique is straightforward to apply since the weak residual is used. The influence of neighboring cells is gathered by the PU. Consequently, neither strong residuals nor jumps over element edges are required. Therefore, this approach facilitates the application of the DWR method to coupled (nonlinear) multiphysics problems such as fracture propagation. These developments then allow for a systematic investigation of the discretization error for certain quantities of interest. Specifically, our focus on the relationship between the phase-field regularization and the spatial discretization parameter in terms of goal functional evaluations is novel.

  12. Three-dimensional modeling and highly refined mesh generation of the aorta artery and its tunics

    NASA Astrophysics Data System (ADS)

    Cazotto, J. A.; Neves, L. A.; Machado, J. M.; Momente, J. C.; Shiyou, Y.; Godoy, M. F.; Zafalon, G. F. D.; Pinto, A. R.; Valêncio, C. R.

    2013-02-01

    This paper describes strategies and techniques to perform modeling and automatic mesh generation of the aorta artery and its tunics (adventitia, media and intima walls), using open source codes. The models were constructed in the Blender package and Python scripts were used to export the data necessary for the mesh generation in TetGen. The strategies proposed are able to provide meshes of complicated and irregular volumes, with a large number of mesh elements involved (12,000,000 tetrahedrons approximately). These meshes can be used to perform computational simulations by Finite Element Method (FEM).

  13. Single-pass GPU-raycasting for structured adaptive mesh refinement data

    NASA Astrophysics Data System (ADS)

    Kaehler, Ralf; Abel, Tom

    2013-01-01

    Structured Adaptive Mesh Refinement (SAMR) is a popular numerical technique to study processes with high spatial and temporal dynamic range. It reduces computational requirements by adapting the lattice on which the underlying differential equations are solved to most efficiently represent the solution. Particularly in astrophysics and cosmology such simulations now can capture spatial scales ten orders of magnitude apart and more. The irregular locations and extensions of the refined regions in the SAMR scheme and the fact that different resolution levels partially overlap, poses a challenge for GPU-based direct volume rendering methods. kD-trees have proven to be advantageous to subdivide the data domain into non-overlapping blocks of equally sized cells, optimal for the texture units of current graphics hardware, but previous GPU-supported raycasting approaches for SAMR data using this data structure required a separate rendering pass for each node, preventing the application of many advanced lighting schemes that require simultaneous access to more than one block of cells. In this paper we present the first single-pass GPU-raycasting algorithm for SAMR data that is based on a kD-tree. The tree is efficiently encoded by a set of 3D-textures, which allows to adaptively sample complete rays entirely on the GPU without any CPU interaction. We discuss two different data storage strategies to access the grid data on the GPU and apply them to several datasets to prove the benefits of the proposed method.

  14. THE PLUTO CODE FOR ADAPTIVE MESH COMPUTATIONS IN ASTROPHYSICAL FLUID DYNAMICS

    SciTech Connect

    Mignone, A.; Tzeferacos, P.; Zanni, C.; Bodo, G.; Van Straalen, B.; Colella, P.

    2012-01-01

    We present a description of the adaptive mesh refinement (AMR) implementation of the PLUTO code for solving the equations of classical and special relativistic magnetohydrodynamics (MHD and RMHD). The current release exploits, in addition to the static grid version of the code, the distributed infrastructure of the CHOMBO library for multidimensional parallel computations over block-structured, adaptively refined grids. We employ a conservative finite-volume approach where primary flow quantities are discretized at the cell center in a dimensionally unsplit fashion using the Corner Transport Upwind method. Time stepping relies on a characteristic tracing step where piecewise parabolic method, weighted essentially non-oscillatory, or slope-limited linear interpolation schemes can be handily adopted. A characteristic decomposition-free version of the scheme is also illustrated. The solenoidal condition of the magnetic field is enforced by augmenting the equations with a generalized Lagrange multiplier providing propagation and damping of divergence errors through a mixed hyperbolic/parabolic explicit cleaning step. Among the novel features, we describe an extension of the scheme to include non-ideal dissipative processes, such as viscosity, resistivity, and anisotropic thermal conduction without operator splitting. Finally, we illustrate an efficient treatment of point-local, potentially stiff source terms over hierarchical nested grids by taking advantage of the adaptivity in time. Several multidimensional benchmarks and applications to problems of astrophysical relevance assess the potentiality of the AMR version of PLUTO in resolving flow features separated by large spatial and temporal disparities.

  15. Mesh refinement for uncertainty quantification through model reduction

    SciTech Connect

    Li, Jing Stinis, Panos

    2015-01-01

    We present a novel way of deciding when and where to refine a mesh in probability space in order to facilitate uncertainty quantification in the presence of discontinuities in random space. A discontinuity in random space makes the application of generalized polynomial chaos expansion techniques prohibitively expensive. The reason is that for discontinuous problems, the expansion converges very slowly. An alternative to using higher terms in the expansion is to divide the random space in smaller elements where a lower degree polynomial is adequate to describe the randomness. In general, the partition of the random space is a dynamic process since some areas of the random space, particularly around the discontinuity, need more refinement than others as time evolves. In the current work we propose a way to decide when and where to refine the random space mesh based on the use of a reduced model. The idea is that a good reduced model can monitor accurately, within a random space element, the cascade of activity to higher degree terms in the chaos expansion. In turn, this facilitates the efficient allocation of computational sources to the areas of random space where they are more needed. For the Kraichnan–Orszag system, the prototypical system to study discontinuities in random space, we present theoretical results which show why the proposed method is sound and numerical results which corroborate the theory.

  16. Performance Characteristics of an Adaptive Mesh RefinementCalculation on Scalar and Vector Platforms

    SciTech Connect

    Welcome, Michael; Rendleman, Charles; Oliker, Leonid; Biswas, Rupak

    2006-01-31

    Adaptive mesh refinement (AMR) is a powerful technique thatreduces the resources necessary to solve otherwise in-tractable problemsin computational science. The AMR strategy solves the problem on arelatively coarse grid, and dynamically refines it in regions requiringhigher resolution. However, AMR codes tend to be far more complicatedthan their uniform grid counterparts due to the software infrastructurenecessary to dynamically manage the hierarchical grid framework. Despitethis complexity, it is generally believed that future multi-scaleapplications will increasingly rely on adaptive methods to study problemsat unprecedented scale and resolution. Recently, a new generation ofparallel-vector architectures have become available that promise toachieve extremely high sustained performance for a wide range ofapplications, and are the foundation of many leadership-class computingsystems worldwide. It is therefore imperative to understand the tradeoffsbetween conventional scalar and parallel-vector platforms for solvingAMR-based calculations. In this paper, we examine the HyperCLaw AMRframework to compare and contrast performance on the Cray X1E, IBM Power3and Power5, and SGI Altix. To the best of our knowledge, this is thefirst work that investigates and characterizes the performance of an AMRcalculation on modern parallel-vector systems.

  17. Total enthalpy-based lattice Boltzmann method with adaptive mesh refinement for solid-liquid phase change

    NASA Astrophysics Data System (ADS)

    Huang, Rongzong; Wu, Huiying

    2016-06-01

    A total enthalpy-based lattice Boltzmann (LB) method with adaptive mesh refinement (AMR) is developed in this paper to efficiently simulate solid-liquid phase change problem where variables vary significantly near the phase interface and thus finer grid is required. For the total enthalpy-based LB method, the velocity field is solved by an incompressible LB model with multiple-relaxation-time (MRT) collision scheme, and the temperature field is solved by a total enthalpy-based MRT LB model with the phase interface effects considered and the deviation term eliminated. With a kinetic assumption that the density distribution function for solid phase is at equilibrium state, a volumetric LB scheme is proposed to accurately realize the nonslip velocity condition on the diffusive phase interface and in the solid phase. As compared with the previous schemes, this scheme can avoid nonphysical flow in the solid phase. As for the AMR approach, it is developed based on multiblock grids. An indicator function is introduced to control the adaptive generation of multiblock grids, which can guarantee the existence of overlap area between adjacent blocks for information exchange. Since MRT collision schemes are used, the information exchange is directly carried out in the moment space. Numerical tests are firstly performed to validate the strict satisfaction of the nonslip velocity condition, and then melting problems in a square cavity with different Prandtl numbers and Rayleigh numbers are simulated, which demonstrate that the present method can handle solid-liquid phase change problem with high efficiency and accuracy.

  18. A chimera grid scheme. [multiple overset body-conforming mesh system for finite difference adaptation to complex aircraft configurations

    NASA Technical Reports Server (NTRS)

    Steger, J. L.; Dougherty, F. C.; Benek, J. A.

    1983-01-01

    A mesh system composed of multiple overset body-conforming grids is described for adapting finite-difference procedures to complex aircraft configurations. In this so-called 'chimera mesh,' a major grid is generated about a main component of the configuration and overset minor grids are used to resolve all other features. Methods for connecting overset multiple grids and modifications of flow-simulation algorithms are discussed. Computational tests in two dimensions indicate that the use of multiple overset grids can simplify the task of grid generation without an adverse effect on flow-field algorithms and computer code complexity.

  19. Similarity modeling on an expanded mesh applied to rotating turbulence

    NASA Astrophysics Data System (ADS)

    Domaradzki, J. A.; Horiuti, K.

    2001-11-01

    Because of a reduction in the turbulent kinetic energy decay rates and a steeper than the Kolmogoroff k-5/3 fall off of spectra rotating turbulence presents a significant challenge for turbulence models developed for non-rotating cases. For instance, the classical Smagorinsky model over predicts the kinetic energy decay rates and the standard form of the dynamic model violates the transformation properties between rotating and non-rotating frame of reference. In the context of the rotational transformation properties various similarity models are more attractive because they automatically satisfy the transformation constraints but they also suffer from under prediction of the SGS dissipation in actual large eddy simulations. We show that the correct predictions for the SGS dissipation in defiltered (or generalized similarity) models can be obtained by using expanded meshes and a periodic re-initialization of small scales in the spirit of the estimation model and truncated Navier-Stokes dynamics. The LES results obtained using such a modeling procedure are in an excellent agreement with the exact DNS results for rotating, isotropic turbulence.

  20. Adaptive response modelling

    NASA Astrophysics Data System (ADS)

    Campa, Alessandro; Esposito, Giuseppe; Belli, Mauro

    Cellular response to radiation is often modified by a previous delivery of a small "priming" dose: a smaller amount of damage, defined by the end point being investigated, is observed, and for this reason the effect is called adaptive response. An improved understanding of this effect is essential (as much as for the case of the bystander effect) for a reliable radiation risk assessment when low dose irradiations are involved. Experiments on adaptive response have shown that there are a number of factors that strongly influence the occurrence (and the level) of the adaptation. In particular, priming doses and dose rates have to fall in defined ranges; the same is true for the time interval between the delivery of the small priming dose and the irradiation with the main, larger, dose (called in this case challenging dose). Different hypotheses can be formulated on the main mechanism(s) determining the adaptive response: an increased efficiency of DNA repair, an increased level of antioxidant enzymes, an alteration of cell cycle progression, a chromatin conformation change. An experimental clearcut evidence going definitely in the direction of one of these explanations is not yet available. Modelling can be done at different levels. Simple models, relating the amount of damage, through elementary differential equations, to the dose and dose rate experienced by the cell, are relatively easy to handle, and they can be modified to account for the priming irradiation. However, this can hardly be of decisive help in the explanation of the mechanisms, since each parameter of these models often incorporates in an effective way several cellular processes related to the response to radiation. In this presentation we show our attempts to describe adaptive response with models that explicitly contain, as a dynamical variable, the inducible adaptive agent. At a price of a more difficult treatment, this approach is probably more prone to give support to the experimental studies

  1. Relativistic Flows Using Spatial And Temporal Adaptive Structured Mesh Refinement. I. Hydrodynamics

    SciTech Connect

    Wang, Peng; Abel, Tom; Zhang, Weiqun; /KIPAC, Menlo Park

    2007-04-02

    Astrophysical relativistic flow problems require high resolution three-dimensional numerical simulations. In this paper, we describe a new parallel three-dimensional code for simulations of special relativistic hydrodynamics (SRHD) using both spatially and temporally structured adaptive mesh refinement (AMR). We used method of lines to discrete SRHD equations spatially and used a total variation diminishing (TVD) Runge-Kutta scheme for time integration. For spatial reconstruction, we have implemented piecewise linear method (PLM), piecewise parabolic method (PPM), third order convex essentially non-oscillatory (CENO) and third and fifth order weighted essentially non-oscillatory (WENO) schemes. Flux is computed using either direct flux reconstruction or approximate Riemann solvers including HLL, modified Marquina flux, local Lax-Friedrichs flux formulas and HLLC. The AMR part of the code is built on top of the cosmological Eulerian AMR code enzo, which uses the Berger-Colella AMR algorithm and is parallel with dynamical load balancing using the widely available Message Passing Interface library. We discuss the coupling of the AMR framework with the relativistic solvers and show its performance on eleven test problems.

  2. MASS AND MAGNETIC DISTRIBUTIONS IN SELF-GRAVITATING SUPER-ALFVENIC TURBULENCE WITH ADAPTIVE MESH REFINEMENT

    SciTech Connect

    Collins, David C.; Norman, Michael L.; Padoan, Paolo; Xu Hao

    2011-04-10

    In this work, we present the mass and magnetic distributions found in a recent adaptive mesh refinement magnetohydrodynamic simulation of supersonic, super-Alfvenic, self-gravitating turbulence. Power-law tails are found in both mass density and magnetic field probability density functions, with P({rho}) {proportional_to} {rho}{sup -1.6} and P(B) {proportional_to} B{sup -2.7}. A power-law relationship is also found between magnetic field strength and density, with B {proportional_to} {rho}{sup 0.5}, throughout the collapsing gas. The mass distribution of gravitationally bound cores is shown to be in excellent agreement with recent observation of prestellar cores. The mass-to-flux distribution of cores is also found to be in excellent agreement with recent Zeeman splitting measurements. We also compare the relationship between velocity dispersion and density to the same cores, and find an increasing relationship between the two, with {sigma} {proportional_to} n{sup 0.25}, also in agreement with the observations. We then estimate the potential effects of ambipolar diffusion in our cores and find that due to the weakness of the magnetic field in our simulation, the inclusion of ambipolar diffusion in our simulation will not cause significant alterations of the flow dynamics.

  3. HIGH-RESOLUTION SIMULATIONS OF CONVECTION PRECEDING IGNITION IN TYPE Ia SUPERNOVAE USING ADAPTIVE MESH REFINEMENT

    SciTech Connect

    Nonaka, A.; Aspden, A. J.; Almgren, A. S.; Bell, J. B.; Zingale, M.; Woosley, S. E.

    2012-01-20

    We extend our previous three-dimensional, full-star simulations of the final hours of convection preceding ignition in Type Ia supernovae to higher resolution using the adaptive mesh refinement capability of our low Mach number code, MAESTRO. We report the statistics of the ignition of the first flame at an effective 4.34 km resolution and general flow field properties at an effective 2.17 km resolution. We find that off-center ignition is likely, with radius of 50 km most favored and a likely range of 40-75 km. This is consistent with our previous coarser (8.68 km resolution) simulations, implying that we have achieved sufficient resolution in our determination of likely ignition radii. The dynamics of the last few hot spots preceding ignition suggest that a multiple ignition scenario is not likely. With improved resolution, we can more clearly see the general flow pattern in the convective region, characterized by a strong outward plume with a lower speed recirculation. We show that the convective core is turbulent with a Kolmogorov spectrum and has a lower turbulent intensity and larger integral length scale than previously thought (on the order of 16 km s{sup -1} and 200 km, respectively), and we discuss the potential consequences for the first flames.

  4. Dynamic implicit 3D adaptive mesh refinement for non-equilibrium radiation diffusion

    SciTech Connect

    B. Philip; Z. Wang; M.A. Berrill; M. Birke; M. Pernice

    2014-04-01

    The time dependent non-equilibrium radiation diffusion equations are important for solving the transport of energy through radiation in optically thick regimes and find applications in several fields including astrophysics and inertial confinement fusion. The associated initial boundary value problems that are encountered often exhibit a wide range of scales in space and time and are extremely challenging to solve. To efficiently and accurately simulate these systems we describe our research on combining techniques that will also find use more broadly for long term time integration of nonlinear multi-physics systems: implicit time integration for efficient long term time integration of stiff multi-physics systems, local control theory based step size control to minimize the required global number of time steps while controlling accuracy, dynamic 3D adaptive mesh refinement (AMR) to minimize memory and computational costs, Jacobian Free Newton–Krylov methods on AMR grids for efficient nonlinear solution, and optimal multilevel preconditioner components that provide level independent solver convergence.

  5. GPU accelerated cell-based adaptive mesh refinement on unstructured quadrilateral grid

    NASA Astrophysics Data System (ADS)

    Luo, Xisheng; Wang, Luying; Ran, Wei; Qin, Fenghua

    2016-10-01

    A GPU accelerated inviscid flow solver is developed on an unstructured quadrilateral grid in the present work. For the first time, the cell-based adaptive mesh refinement (AMR) is fully implemented on GPU for the unstructured quadrilateral grid, which greatly reduces the frequency of data exchange between GPU and CPU. Specifically, the AMR is processed with atomic operations to parallelize list operations, and null memory recycling is realized to improve the efficiency of memory utilization. It is found that results obtained by GPUs agree very well with the exact or experimental results in literature. An acceleration ratio of 4 is obtained between the parallel code running on the old GPU GT9800 and the serial code running on E3-1230 V2. With the optimization of configuring a larger L1 cache and adopting Shared Memory based atomic operations on the newer GPU C2050, an acceleration ratio of 20 is achieved. The parallelized cell-based AMR processes have achieved 2x speedup on GT9800 and 18x on Tesla C2050, which demonstrates that parallel running of the cell-based AMR method on GPU is feasible and efficient. Our results also indicate that the new development of GPU architecture benefits the fluid dynamics computing significantly.

  6. Advances in Rotor Performance and Turbulent Wake Simulation Using DES and Adaptive Mesh Refinement

    NASA Technical Reports Server (NTRS)

    Chaderjian, Neal M.

    2012-01-01

    Time-dependent Navier-Stokes simulations have been carried out for a rigid V22 rotor in hover, and a flexible UH-60A rotor in forward flight. Emphasis is placed on understanding and characterizing the effects of high-order spatial differencing, grid resolution, and Spalart-Allmaras (SA) detached eddy simulation (DES) in predicting the rotor figure of merit (FM) and resolving the turbulent rotor wake. The FM was accurately predicted within experimental error using SA-DES. Moreover, a new adaptive mesh refinement (AMR) procedure revealed a complex and more realistic turbulent rotor wake, including the formation of turbulent structures resembling vortical worms. Time-dependent flow visualization played a crucial role in understanding the physical mechanisms involved in these complex viscous flows. The predicted vortex core growth with wake age was in good agreement with experiment. High-resolution wakes for the UH-60A in forward flight exhibited complex turbulent interactions and turbulent worms, similar to the V22. The normal force and pitching moment coefficients were in good agreement with flight-test data.

  7. MeshKit

    SciTech Connect

    2010-10-05

    MeshKit is an open-source library of mesh generation functionality. MeshKit has general mesh manipulation and generation functions such as Copoy, Move, Rotate and Extrude mesh. In addition, new quad mesh and embedded boundary Cartesian mesh algorithm (EB Mesh) are included. Interfaces to several public domain meshing algorithms (TetGen, netgen, triangle, Gmsh, camal) are also offered. This library interacts with mesh data mostly through iMesh including accessing the mesh in parallel. It also can interact with iGeom interface to provide geometry functionality such as importing solid model based geometries. iGeom and IMesh are implemented in the CGM and MOAB packages, respectively. For some non-existing function in iMesh such as tree-construction and ray-tracing, MeshKit also interacts with MOAB functions directly.

  8. MeshKit

    2010-10-05

    MeshKit is an open-source library of mesh generation functionality. MeshKit has general mesh manipulation and generation functions such as Copoy, Move, Rotate and Extrude mesh. In addition, new quad mesh and embedded boundary Cartesian mesh algorithm (EB Mesh) are included. Interfaces to several public domain meshing algorithms (TetGen, netgen, triangle, Gmsh, camal) are also offered. This library interacts with mesh data mostly through iMesh including accessing the mesh in parallel. It also can interact withmore » iGeom interface to provide geometry functionality such as importing solid model based geometries. iGeom and IMesh are implemented in the CGM and MOAB packages, respectively. For some non-existing function in iMesh such as tree-construction and ray-tracing, MeshKit also interacts with MOAB functions directly.« less

  9. Parallel adaptive mesh refinement method based on WENO finite difference scheme for the simulation of multi-dimensional detonation

    NASA Astrophysics Data System (ADS)

    Wang, Cheng; Dong, XinZhuang; Shu, Chi-Wang

    2015-10-01

    For numerical simulation of detonation, computational cost using uniform meshes is large due to the vast separation in both time and space scales. Adaptive mesh refinement (AMR) is advantageous for problems with vastly different scales. This paper aims to propose an AMR method with high order accuracy for numerical investigation of multi-dimensional detonation. A well-designed AMR method based on finite difference weighted essentially non-oscillatory (WENO) scheme, named as AMR&WENO is proposed. A new cell-based data structure is used to organize the adaptive meshes. The new data structure makes it possible for cells to communicate with each other quickly and easily. In order to develop an AMR method with high order accuracy, high order prolongations in both space and time are utilized in the data prolongation procedure. Based on the message passing interface (MPI) platform, we have developed a workload balancing parallel AMR&WENO code using the Hilbert space-filling curve algorithm. Our numerical experiments with detonation simulations indicate that the AMR&WENO is accurate and has a high resolution. Moreover, we evaluate and compare the performance of the uniform mesh WENO scheme and the parallel AMR&WENO method. The comparison results provide us further insight into the high performance of the parallel AMR&WENO method.

  10. An adaptive computation mesh for the solution of singular perturbation problems

    NASA Technical Reports Server (NTRS)

    Brackbill, J. U.; Saltzman, J.

    1980-01-01

    In singular perturbation problems, control of zone size variation can affect the effort required to obtain accurate, numerical solutions of finite difference equations. The mesh is generated by the solution of potential equations. Numerical results for a singular perturbation problem in two dimensions are presented. The mesh was used in calculations of resistive magnetohydrodynamic flow in two dimensions.

  11. Temporal-adaptive Euler/Navier-Stokes algorithm for unsteady aerodynamic analysis of airfoils using unstructured dynamic meshes

    NASA Technical Reports Server (NTRS)

    Kleb, William L.; Batina, John T.; Williams, Marc H.

    1990-01-01

    A temporal adaptive algorithm for the time-integration of the two-dimensional Euler or Navier-Stokes equations is presented. The flow solver involves an upwind flux-split spatial discretization for the convective terms and central differencing for the shear-stress and heat flux terms on an unstructured mesh of triangles. The temporal adaptive algorithm is a time-accurate integration procedure which allows flows with high spatial and temporal gradients to be computed efficiently by advancing each grid cell near its maximum allowable time step. Results indicate that an appreciable computational savings can be achieved for both inviscid and viscous unsteady airfoil problems using unstructured meshes without degrading spatial or temporal accuracy.

  12. Thickness distribution of a cooling pyroclastic flow deposit: Optimization using InSAR, FEMs, and an adaptive mesh algorithm

    NASA Astrophysics Data System (ADS)

    Masterlark, T.; Lu, Z.; Rykhus, R.

    2003-12-01

    We construct finite element models (FEMs) of a pyroclastic flow deposit (PFD) emplaced during the 1986 eruption of Augustine volcano, Alaska. Interferometric synthetic aperture radar (InSAR) imagery documents the consistent contraction of the PFD during 1992-2000. Three-dimensional problem domains of the FEMs include an elastic substrate overlain by a thermoelastic material representing the PFD. The geometry of the substrate is determined from a digital elevation model (DEM) and bathymetry data. The thickness of the PFD is initially determined from the difference between post- and pre-eruptive DEMs. Systematic prediction errors suggest the PFD thickness distribution, estimated from the DEM difference, is inaccurate. We combine InSAR images, FEMs, and an adaptive mesh algorithm to re-estimate the geometry of the PFD and optimize the thickness distribution for the PFD. Prediction errors from the FEM that includes an optimized PFD geometry are reduced by 20% with respect to those from an FEM that includes a PFD geometry derived from the DEM difference.

  13. Adaptive Finite Element Methods for Continuum Damage Modeling

    NASA Technical Reports Server (NTRS)

    Min, J. B.; Tworzydlo, W. W.; Xiques, K. E.

    1995-01-01

    The paper presents an application of adaptive finite element methods to the modeling of low-cycle continuum damage and life prediction of high-temperature components. The major objective is to provide automated and accurate modeling of damaged zones through adaptive mesh refinement and adaptive time-stepping methods. The damage modeling methodology is implemented in an usual way by embedding damage evolution in the transient nonlinear solution of elasto-viscoplastic deformation problems. This nonlinear boundary-value problem is discretized by adaptive finite element methods. The automated h-adaptive mesh refinements are driven by error indicators, based on selected principal variables in the problem (stresses, non-elastic strains, damage, etc.). In the time domain, adaptive time-stepping is used, combined with a predictor-corrector time marching algorithm. The time selection is controlled by required time accuracy. In order to take into account strong temperature dependency of material parameters, the nonlinear structural solution a coupled with thermal analyses (one-way coupling). Several test examples illustrate the importance and benefits of adaptive mesh refinements in accurate prediction of damage levels and failure time.

  14. Parallel Computation of Three-Dimensional Flows using Overlapping Grids with Adaptive Mesh Refinement

    SciTech Connect

    Henshaw, W; Schwendeman, D

    2007-11-15

    This paper describes an approach for the numerical solution of time-dependent partial differential equations in complex three-dimensional domains. The domains are represented by overlapping structured grids, and block-structured adaptive mesh refinement (AMR) is employed to locally increase the grid resolution. In addition, the numerical method is implemented on parallel distributed-memory computers using a domain-decomposition approach. The implementation is flexible so that each base grid within the overlapping grid structure and its associated refinement grids can be independently partitioned over a chosen set of processors. A modified bin-packing algorithm is used to specify the partition for each grid so that the computational work is evenly distributed amongst the processors. All components of the AMR algorithm such as error estimation, regridding, and interpolation are performed in parallel. The parallel time-stepping algorithm is illustrated for initial-boundary-value problems involving a linear advection-diffusion equation and the (nonlinear) reactive Euler equations. Numerical results are presented for both equations to demonstrate the accuracy and correctness of the parallel approach. Exact solutions of the advection-diffusion equation are constructed, and these are used to check the corresponding numerical solutions for a variety of tests involving different overlapping grids, different numbers of refinement levels and refinement ratios, and different numbers of processors. The problem of planar shock diffraction by a sphere is considered as an illustration of the numerical approach for the Euler equations, and a problem involving the initiation of a detonation from a hot spot in a T-shaped pipe is considered to demonstrate the numerical approach for the reactive case. For both problems, the solutions are shown to be well resolved on the finest grid. The parallel performance of the approach is examined in detail for the shock diffraction problem.

  15. A Nonlinear Dynamic Model and Free Vibration Analysis of Deployable Mesh Reflectors

    NASA Technical Reports Server (NTRS)

    Shi, H.; Yang, B.; Thomson, M.; Fang, H.

    2011-01-01

    This paper presents a dynamic model of deployable mesh reflectors, in which geometric and material nonlinearities of such a space structure are fully described. Then, by linearization around an equilibrium configuration of the reflector structure, a linearized model is obtained. With this linearized model, the natural frequencies and mode shapes of a reflector can be computed. The nonlinear dynamic model of deployable mesh reflectors is verified by using commercial finite element software in numerical simulation. As shall be seen, the proposed nonlinear model is useful for shape (surface) control of deployable mesh reflectors under thermal loads.

  16. Single fiber model of particle retention in an acoustically driven porous mesh.

    PubMed

    Grossner, Michael T; Penrod, Alan E; Belovich, Joanne M; Feke, Donald L

    2003-03-01

    A method for the capture of small particles (tens of microns in diameter) from a continuously flowing suspension has recently been reported. This technique relies on a standing acoustic wave resonating in a rectangular chamber filled with a high-porosity mesh. Particles are retained in this chamber via a complex interaction between the acoustic field and the porous mesh. Although the mesh has a pore size two orders of magnitude larger than the particle diameter, collection efficiencies of 90% have been measured. A mathematical model has been developed to understand the experimentally observed phenomena and to be able to predict filtration performance. By examining a small region (a single fiber) of the porous mesh, the model has duplicated several experimental events such as the focusing of particles near an element of the mesh and the levitation of particles within pores. The single-fiber analysis forms the basis of modeling the overall performance of the particle filtration system. PMID:12565069

  17. The formation of entropy cores in non-radiative galaxy cluster simulations: smoothed particle hydrodynamics versus adaptive mesh refinement

    NASA Astrophysics Data System (ADS)

    Power, C.; Read, J. I.; Hobbs, A.

    2014-06-01

    We simulate cosmological galaxy cluster formation using three different approaches to solving the equations of non-radiative hydrodynamics - classic smoothed particle hydrodynamics (SPH), novel SPH with a higher order dissipation switch (SPHS), and an adaptive mesh refinement (AMR) method. Comparing spherically averaged entropy profiles, we find that SPHS and AMR approaches result in a well-defined entropy core that converges rapidly with increasing mass and force resolution. In contrast, the central entropy profile in the SPH approach is sensitive to the cluster's assembly history and shows poor numerical convergence. We trace this disagreement to the known artificial surface tension in SPH that appears at phase boundaries. Varying systematically numerical dissipation in SPHS, we study the contributions of numerical and physical dissipation to the entropy core and argue that numerical dissipation is required to ensure single-valued fluid quantities in converging flows. However, provided it occurs only at the resolution limit and does not propagate errors to larger scales, its effect is benign - there is no requirement to build `sub-grid' models of unresolved turbulence for galaxy cluster simulations. We conclude that entropy cores in non-radiative galaxy cluster simulations are physical, resulting from entropy generation in shocked gas during cluster assembly.

  18. Electrical properties of frog skeletal muscle fibers interpreted with a mesh model of the tubular system.

    PubMed Central

    Mathias, R T; Eisenberg, R S; Valdiosera, R

    1977-01-01

    This paper presents the construction, derivation, and test of a mesh model for the electrical properties of the transverse tubular system (T-system) in skeletal muscle. We model the irregular system of tubules as a random network of miniature transmission lines, using differential equations to describe the potential between the nodes and difference equations to describe the potential at the nodes. The solution to the equations can be accurately represented in several approximate forms with simple physical and graphical interpretations. All the parameters of the solution are specified by impedance and morphometric measurements. The effect of wide circumferential spacing between T-system openings is analyzed and the resulting restricted mesh model is shown to be approximated by a mesh with an access resistance. The continuous limit of the mesh model is shown to have the same form as the disk model of the T-system, but with a different expression for the tortuosity factor. The physical meaning of the tortuosity factor is examined, and a short derivation of the disk model is presented that gives results identical to the continuous limit of the mesh model. Both the mesh and restricted mesh models are compared with experimental data on the impedance of muscle fibers of the frog sartorius. The derived value for the resistivity of the lumen of the tubules is not too different from that of the bathing solution, the difference probably arising from the sensitivity of this value to errors in the morphometric measurements. Images FIGURE 4 PMID:831857

  19. Lyapunov exponents and adaptive mesh refinement for high-speed flows using a discontinuous Galerkin scheme

    NASA Astrophysics Data System (ADS)

    Moura, R. C.; Silva, A. F. C.; Bigarella, E. D. V.; Fazenda, A. L.; Ortega, M. A.

    2016-08-01

    This paper proposes two important improvements to shock-capturing strategies using a discontinuous Galerkin scheme, namely, accurate shock identification via finite-time Lyapunov exponent (FTLE) operators and efficient shock treatment through a point-implicit discretization of a PDE-based artificial viscosity technique. The advocated approach is based on the FTLE operator, originally developed in the context of dynamical systems theory to identify certain types of coherent structures in a flow. We propose the application of FTLEs in the detection of shock waves and demonstrate the operator's ability to identify strong and weak shocks equally well. The detection algorithm is coupled with a mesh refinement procedure and applied to transonic and supersonic flows. While the proposed strategy can be used potentially with any numerical method, a high-order discontinuous Galerkin solver is used in this study. In this context, two artificial viscosity approaches are employed to regularize the solution near shocks: an element-wise constant viscosity technique and a PDE-based smooth viscosity model. As the latter approach is more sophisticated and preferable for complex problems, a point-implicit discretization in time is proposed to reduce the extra stiffness introduced by the PDE-based technique, making it more competitive in terms of computational cost.

  20. A low numerical dissipation patch-based adaptive mesh refinement method for large-eddy simulation of compressible flows

    NASA Astrophysics Data System (ADS)

    Pantano, C.; Deiterding, R.; Hill, D. J.; Pullin, D. I.

    2007-01-01

    We present a methodology for the large-eddy simulation of compressible flows with a low-numerical dissipation scheme and structured adaptive mesh refinement (SAMR). A description of a conservative, flux-based hybrid numerical method that uses both centered finite-difference and a weighted essentially non-oscillatory (WENO) scheme is given, encompassing the cases of scheme alternation and internal mesh interfaces resulting from SAMR. In this method, the centered scheme is used in turbulent flow regions while WENO is employed to capture shocks. One-, two- and three-dimensional numerical experiments and example simulations are presented including homogeneous shock-free turbulence, a turbulent jet and the strongly shock-driven mixing of a Richtmyer-Meshkov instability.

  1. Computations of Unsteady Viscous Compressible Flows Using Adaptive Mesh Refinement in Curvilinear Body-fitted Grid Systems

    NASA Technical Reports Server (NTRS)

    Steinthorsson, E.; Modiano, David; Colella, Phillip

    1994-01-01

    A methodology for accurate and efficient simulation of unsteady, compressible flows is presented. The cornerstones of the methodology are a special discretization of the Navier-Stokes equations on structured body-fitted grid systems and an efficient solution-adaptive mesh refinement technique for structured grids. The discretization employs an explicit multidimensional upwind scheme for the inviscid fluxes and an implicit treatment of the viscous terms. The mesh refinement technique is based on the AMR algorithm of Berger and Colella. In this approach, cells on each level of refinement are organized into a small number of topologically rectangular blocks, each containing several thousand cells. The small number of blocks leads to small overhead in managing data, while their size and regular topology means that a high degree of optimization can be achieved on computers with vector processors.

  2. On solving the 3-D phase field equations by employing a parallel-adaptive mesh refinement (Para-AMR) algorithm

    NASA Astrophysics Data System (ADS)

    Guo, Z.; Xiong, S. M.

    2015-05-01

    An algorithm comprising adaptive mesh refinement (AMR) and parallel (Para-) computing capabilities was developed to efficiently solve the coupled phase field equations in 3-D. The AMR was achieved based on a gradient criterion and the point clustering algorithm introduced by Berger (1991). To reduce the time for mesh generation, a dynamic regridding approach was developed based on the magnitude of the maximum phase advancing velocity. Local data at each computing process was then constructed and parallel computation was realized based on the hierarchical grid structure created during the AMR. Numerical tests and simulations on single and multi-dendrite growth were performed and results show that the proposed algorithm could shorten the computing time for 3-D phase field simulation for about two orders of magnitude and enable one to gain much more insight in understanding the underlying physics during dendrite growth in solidification.

  3. Approaches to the automatic generation and control of finite element meshes

    NASA Technical Reports Server (NTRS)

    Shephard, Mark S.

    1987-01-01

    The algorithmic approaches being taken to the development of finite element mesh generators capable of automatically discretizing general domains without the need for user intervention are discussed. It is demonstrated that because of the modeling demands placed on a automatic mesh generator, all the approaches taken to date produce unstructured meshes. Consideration is also given to both a priori and a posteriori mesh control devices for automatic mesh generators as well as their integration with geometric modeling and adaptive analysis procedures.

  4. Development of improved analytical models for mesh reflector surfaces

    NASA Technical Reports Server (NTRS)

    Brand, J. C.; Kauffman, J. F.

    1983-01-01

    Several methods for computing the reflection coefficients from mesh surfaces are discussed. Some methods mentioned have severe limitations, and the spectral approach appears to be the most attractive alternative. In spite of some inherent problems, the solutions obtained with this method will offer not only the reflection coefficients but also the currents carried on the mesh. This would allow separation of the power lost to resistive terms from that due to transmission loss. Overall, good results and rapid convergence should be obtained from this method when proper care is applied.

  5. Spherical geodesic mesh generation

    SciTech Connect

    Fung, Jimmy; Kenamond, Mark Andrew; Burton, Donald E.; Shashkov, Mikhail Jurievich

    2015-02-27

    In ALE simulations with moving meshes, mesh topology has a direct influence on feature representation and code robustness. In three-dimensional simulations, modeling spherical volumes and features is particularly challenging for a hydrodynamics code. Calculations on traditional spherical meshes (such as spin meshes) often lead to errors and symmetry breaking. Although the underlying differencing scheme may be modified to rectify this, the differencing scheme may not be accessible. This work documents the use of spherical geodesic meshes to mitigate solution-mesh coupling. These meshes are generated notionally by connecting geodesic surface meshes to produce triangular-prismatic volume meshes. This mesh topology is fundamentally different from traditional mesh topologies and displays superior qualities such as topological symmetry. This work describes the geodesic mesh topology as well as motivating demonstrations with the FLAG hydrocode.

  6. FEMHD: An adaptive finite element method for MHD and edge modelling

    SciTech Connect

    Strauss, H.R.

    1995-07-01

    This paper describes the code FEMHD, an adaptive finite element MHD code, which is applied in a number of different manners to model MHD behavior and edge plasma phenomena on a diverted tokamak. The code uses an unstructured triangular mesh in 2D and wedge shaped mesh elements in 3D. The code has been adapted to look at neutral and charged particle dynamics in the plasma scrape off region, and into a full MHD-particle code.

  7. A novel method for pair-matching using three-dimensional digital models of bone: mesh-to-mesh value comparison.

    PubMed

    Karell, Mara A; Langstaff, Helen K; Halazonetis, Demetrios J; Minghetti, Caterina; Frelat, Mélanie; Kranioti, Elena F

    2016-09-01

    The commingling of human remains often hinders forensic/physical anthropologists during the identification process, as there are limited methods to accurately sort these remains. This study investigates a new method for pair-matching, a common individualization technique, which uses digital three-dimensional models of bone: mesh-to-mesh value comparison (MVC). The MVC method digitally compares the entire three-dimensional geometry of two bones at once to produce a single value to indicate their similarity. Two different versions of this method, one manual and the other automated, were created and then tested for how well they accurately pair-matched humeri. Each version was assessed using sensitivity and specificity. The manual mesh-to-mesh value comparison method was 100 % sensitive and 100 % specific. The automated mesh-to-mesh value comparison method was 95 % sensitive and 60 % specific. Our results indicate that the mesh-to-mesh value comparison method overall is a powerful new tool for accurately pair-matching commingled skeletal elements, although the automated version still needs improvement. PMID:26966098

  8. Anisotropic mesh adaptation for solution of finite element problems using hierarchical edge-based error estimates

    SciTech Connect

    Lipnikov, Konstantin; Agouzal, Abdellatif; Vassilevski, Yuri

    2009-01-01

    We present a new technology for generating meshes minimizing the interpolation and discretization errors or their gradients. The key element of this methodology is construction of a space metric from edge-based error estimates. For a mesh with N{sub h} triangles, the error is proportional to N{sub h}{sup -1} and the gradient of error is proportional to N{sub h}{sup -1/2} which are optimal asymptotics. The methodology is verified with numerical experiments.

  9. An Engineering Solution for Using Coarse Meshes in the Simulation of Delamination with Cohesive Zone Models

    NASA Technical Reports Server (NTRS)

    Turon, Albert; Davila, Carlos G.; Camanho, Pedro P.; Costa, Josep

    2005-01-01

    This paper presents a methodology to determine the parameters used in the simulation of delamination in composite materials using decohesion finite elements. A closed-form expression is developed to define the stiffness of the cohesive layer. A novel procedure that allows the use of coarser meshes of decohesion elements in large-scale computations is proposed. The procedure ensures that the energy dissipated by the fracture process is correctly computed. It is shown that coarse-meshed models defined using the approach proposed here yield the same results as the models with finer meshes normally used in the simulation of fracture processes.

  10. Mesh adaptation on the sphere using optimal transport and the numerical solution of a Monge-Ampère type equation

    NASA Astrophysics Data System (ADS)

    Weller, Hilary; Browne, Philip; Budd, Chris; Cullen, Mike

    2016-03-01

    An equation of Monge-Ampère type has, for the first time, been solved numerically on the surface of the sphere in order to generate optimally transported (OT) meshes, equidistributed with respect to a monitor function. Optimal transport generates meshes that keep the same connectivity as the original mesh, making them suitable for r-adaptive simulations, in which the equations of motion can be solved in a moving frame of reference in order to avoid mapping the solution between old and new meshes and to avoid load balancing problems on parallel computers. The semi-implicit solution of the Monge-Ampère type equation involves a new linearisation of the Hessian term, and exponential maps are used to map from old to new meshes on the sphere. The determinant of the Hessian is evaluated as the change in volume between old and new mesh cells, rather than using numerical approximations to the gradients. OT meshes are generated to compare with centroidal Voronoi tessellations on the sphere and are found to have advantages and disadvantages; OT equidistribution is more accurate, the number of iterations to convergence is independent of the mesh size, face skewness is reduced and the connectivity does not change. However anisotropy is higher and the OT meshes are non-orthogonal. It is shown that optimal transport on the sphere leads to meshes that do not tangle. However, tangling can be introduced by numerical errors in calculating the gradient of the mesh potential. Methods for alleviating this problem are explored. Finally, OT meshes are generated using observed precipitation as a monitor function, in order to demonstrate the potential power of the technique.

  11. Mesh optimization of vessel surface model for computer-aided simulation of percutaneous coronary intervention.

    PubMed

    Yang, Fan; Hou, Zeng-Guang; Mi, Shao-Hua; Bian, Gui-Bin; Xie, Xiao-Liang

    2014-01-01

    Percutaneous coronary intervention is the gold standard to coronary diseases in the past decades due to much less trauma and quick recovery. However, due to the traits of minimal invasiveness, clinicians have to defeat the difficulties in eye-hand coordination during the procedure, which also makes it a non-trivial task in the catheterization lab. The computer-aided surgical simulation is designed to provide a reliable tool for the early stage of the training of the procedure. In this simulation system, the surface model of the vessels contribute the major part in the virtual anatomic environment. On the other hand, heavy interactions between the virtual surgical tools and the model surface occur during the training. In order to achieve acceptable performances, the patient-specific vessel surface model needs further process to adapt to this situation. We proposed in this paper an approach to optimize the meshes that consist the surface model with its application in consideration. The connectivity of the surface model is firstly checked. Next a smooth processing is applied without modifying the geometry of the largest-connected surface. Then the quantities of the polygons consisting the model surface are eliminated both dramatically and appropriately. The resultant surface model is applied in the validation test interacting with the virtual guidewire.

  12. Three dimensional hydrodynamic calculations with adaptive mesh refinement of the evolution of Rayleigh Taylor and Richtmyer Meshkov instabilities in converging geometry: Multi-mode perturbations

    SciTech Connect

    Klein, R.I. |; Bell, J.; Pember, R.; Kelleher, T.

    1993-04-01

    The authors present results for high resolution hydrodynamic calculations of the growth and development of instabilities in shock driven imploding spherical geometries in both 2D and 3D. They solve the Eulerian equations of hydrodynamics with a high order Godunov approach using local adaptive mesh refinement to study the temporal and spatial development of the turbulent mixing layer resulting from both Richtmyer Meshkov and Rayleigh Taylor instabilities. The use of a high resolution Eulerian discretization with adaptive mesh refinement permits them to study the detailed three-dimensional growth of multi-mode perturbations far into the non-linear regime for converging geometries. They discuss convergence properties of the simulations by calculating global properties of the flow. They discuss the time evolution of the turbulent mixing layer and compare its development to a simple theory for a turbulent mix model in spherical geometry based on Plesset`s equation. Their 3D calculations show that the constant found in the planar incompressible experiments of Read and Young`s may not be universal for converging compressible flow. They show the 3D time trace of transitional onset to a mixing state using the temporal evolution of volume rendered imaging. Their preliminary results suggest that the turbulent mixing layer loses memory of its initial perturbations for classical Richtmyer Meshkov and Rayleigh Taylor instabilities in spherically imploding shells. They discuss the time evolution of mixed volume fraction and the role of vorticity in converging 3D flows in enhancing the growth of a turbulent mixing layer.

  13. Application of adaptive mesh refinement to particle-in-cell simulations of plasmas and beams

    SciTech Connect

    Vay, J.-L.; Colella, P.; Kwan, J.W.; McCorquodale, P.; Serafini, D.B.; Friedman, A.; Grote, D.P.; Westenskow, G.; Adam, J.-C.; Heron, A.; Haber, I.

    2003-11-04

    Plasma simulations are often rendered challenging by the disparity of scales in time and in space which must be resolved. When these disparities are in distinctive zones of the simulation domain, a method which has proven to be effective in other areas (e.g. fluid dynamics simulations) is the mesh refinement technique. We briefly discuss the challenges posed by coupling this technique with plasma Particle-In-Cell simulations, and present examples of application in Heavy Ion Fusion and related fields which illustrate the effectiveness of the approach. We also report on the status of a collaboration under way at Lawrence Berkeley National Laboratory between the Applied Numerical Algorithms Group (ANAG) and the Heavy Ion Fusion group to upgrade ANAG's mesh refinement library Chombo to include the tools needed by Particle-In-Cell simulation codes.

  14. Evaluation of mesh morphing and mapping techniques in patient specific modelling of the human pelvis.

    PubMed

    Salo, Zoryana; Beek, Maarten; Whyne, Cari Marisa

    2012-08-01

    Robust generation of pelvic finite element models is necessary to understand variation in mechanical behaviour resulting from differences in gender, aging, disease and injury. The objective of this study was to apply and evaluate mesh morphing and mapping techniques to facilitate the creation and structural analysis of specimen-specific finite element (FE) models of the pelvis. A specimen-specific pelvic FE model (source mesh) was generated following a traditional user-intensive meshing scheme. The source mesh was morphed onto a computed tomography scan generated target surface of a second pelvis using a landmarked-based approach, in which exterior source nodes were shifted to target surface vertices, while constrained along a normal. A second copy of the morphed model was further refined through mesh mapping, in which surface nodes of the initial morphed model were selected in patches and remapped onto the surfaces of the target model. Computed tomography intensity-based material properties were assigned to each model. The source, target, morphed and mapped models were analyzed under axial compression using linear static FE analysis, and their strain distributions were evaluated. Morphing and mapping techniques were effectively applied to generate good quality and geometrically complex specimen-specific pelvic FE models. Mapping significantly improved strain concurrence with the target pelvis FE model.

  15. Evaluation of mesh morphing and mapping techniques in patient specific modeling of the human pelvis.

    PubMed

    Salo, Zoryana; Beek, Maarten; Whyne, Cari Marisa

    2013-01-01

    Robust generation of pelvic finite element models is necessary to understand the variation in mechanical behaviour resulting from differences in gender, aging, disease and injury. The objective of this study was to apply and evaluate mesh morphing and mapping techniques to facilitate the creation and structural analysis of specimen-specific finite element (FE) models of the pelvis. A specimen-specific pelvic FE model (source mesh) was generated following a traditional user-intensive meshing scheme. The source mesh was morphed onto a computed tomography scan generated target surface of a second pelvis using a landmarked-based approach, in which exterior source nodes were shifted to target surface vertices, while constrained along a normal. A second copy of the morphed model was further refined through mesh mapping, in which surface nodes of the initial morphed model were selected in patches and remapped onto the surfaces of the target model. Computed tomography intensity based material properties were assigned to each model. The source, target, morphed and mapped models were analyzed under axial compression using linear static FE analysis and their strain distributions evaluated. Morphing and mapping techniques were effectively applied to generate good quality geometrically complex specimen-specific pelvic FE models. Mapping significantly improved strain concurrence with the target pelvis FE model.

  16. SIMULATING MAGNETOHYDRODYNAMICAL FLOW WITH CONSTRAINED TRANSPORT AND ADAPTIVE MESH REFINEMENT: ALGORITHMS AND TESTS OF THE AstroBEAR CODE

    SciTech Connect

    Cunningham, Andrew J.; Frank, Adam; Varniere, Peggy; Mitran, Sorin; Jones, Thomas W.

    2009-06-15

    A description is given of the algorithms implemented in the AstroBEAR adaptive mesh-refinement code for ideal magnetohydrodynamics. The code provides several high-resolution shock-capturing schemes which are constructed to maintain conserved quantities of the flow in a finite-volume sense. Divergence-free magnetic field topologies are maintained to machine precision by collating the components of the magnetic field on a cell-interface staggered grid and utilizing the constrained transport approach for integrating the induction equations. The maintenance of magnetic field topologies on adaptive grids is achieved using prolongation and restriction operators which preserve the divergence and curl of the magnetic field across collocated grids of different resolutions. The robustness and correctness of the code is demonstrated by comparing the numerical solution of various tests with analytical solutions or previously published numerical solutions obtained by other codes.

  17. Nematic liquid crystal around a spherical particle: Investigation of the defect structure and its stability using adaptive mesh refinement.

    PubMed

    Fukuda, Jun-Ichi; Yoneya, Makoto; Yokoyama, Hiroshi

    2004-01-01

    We investigate the orientation profile and the structure of topological defects of a nematic liquid crystal around a spherical particle using an adaptive mesh refinement scheme developed by us previously. The previous work [J. Fukuda et al., Phys. Rev. E 65, 041709 (2002)] was devoted to the investigation of the fine structure of a hyperbolic hedgehog defect that the particle accompanies and in this paper we present the equilibrium profile of the Saturn ring configuration. The radius of the Saturn ring r(d) in units of the particle radius R(0) increases weakly with the increase of Epsilon, the ratio of the nematic coherence length to R(0). Next we discuss the energetic stability of a hedgehog and a Saturn ring. The use of adaptive mesh refinement scheme together with a tensor orientational order parameter Q (alpha, beta) allows us to calculate the elastic energy of a nematic liquid crystal without any assumption of the structure and the energy of the defect core as in the previous similar studies. The reduced free energy of a nematic liquid crystal, F= F/L1RO, with L(1) being the elastic constant, is almost independent of Epsilon in the hedgehog configuration, while it shows a logarithmic dependence in the Saturn ring configuration. This result clearly indicates that the energetic stability of a hedgehog to a Saturn ring for a large particle is definitely attributed to the large defect energy of the Saturn ring with a large radius.

  18. An adaptive-mesh finite-difference solution method for the Navier-Stokes equations

    NASA Astrophysics Data System (ADS)

    Luchini, Paolo

    1987-02-01

    An adjustable variable-spacing grid is presented which permits the addition or deletion of single points during iterative solutions of the Navier-Stokes equations by finite difference methods. The grid is designed for application to two-dimensional steady-flow problems which can be described by partial differential equations whose second derivatives are constrained to the Laplacian operator. An explicit Navier-Stokes equations solution technique defined for use with the grid incorporates a hybrid form of the convective terms. Three methods are developed for automatic modifications of the mesh during calculations.

  19. Experiments in monthly mean simulation of the atmosphere with a coarse-mesh general circulation model

    NASA Technical Reports Server (NTRS)

    Lutz, R. J.; Spar, J.

    1978-01-01

    The Hansen atmospheric model was used to compute five monthly forecasts (October 1976 through February 1977). The comparison is based on an energetics analysis, meridional and vertical profiles, error statistics, and prognostic and observed mean maps. The monthly mean model simulations suffer from several defects. There is, in general, no skill in the simulation of the monthly mean sea-level pressure field, and only marginal skill is indicated for the 850 mb temperatures and 500 mb heights. The coarse-mesh model appears to generate a less satisfactory monthly mean simulation than the finer mesh GISS model.

  20. The adaptive FEM elastic model for medical image registration.

    PubMed

    Zhang, Jingya; Wang, Jiajun; Wang, Xiuying; Feng, Dagan

    2014-01-01

    This paper proposes an adaptive mesh refinement strategy for the finite element method (FEM) based elastic registration model. The signature matrix for mesh refinement takes into account the regional intensity variance and the local deformation displacement. The regional intensity variance reflects detailed information for improving registration accuracy and the deformation displacement fine-tunes the mesh refinement for a more efficient algorithm. The gradient flows of two different similarity metrics, the sum of the squared difference and the spatially encoded mutual information for the mono-modal and multi-modal registrations, are used to derive external forces to drive the model to the equilibrium state. We compared our approach to three other models: (1) the conventional multi-resolution FEM registration algorithm; (2) the FEM elastic method that uses variation information for mesh refinement; and (3) the robust block matching based registration. Comparisons among different methods in a dataset with 20 CT image pairs upon artificial deformation demonstrate that our registration method achieved significant improvement in accuracies. Experimental results in another dataset of 40 real medical image pairs for both mono-modal and multi-modal registrations also show that our model outperforms the other three models in its accuracy.

  1. Laparoscopic Mesh Fixation Using Laser-Assisted Tissue Soldering in a Porcine Model

    PubMed Central

    Soltz, Barbara A.; Stadler, Istvan; Soltz, Robert

    2009-01-01

    Background and Objective: Animal studies using open surgical models indicate that collagen solder is capable of fixation of surgical meshes without interfering with tissue integration, increasing adhesions, or increasing inflammation intraperitoneally. This study describes development of instrumentation and techniques for laparoscopic herniorrhaphy using laser-assisted soldering technology. Study Design and Methods: Anesthetized 20 kg to 25 kg female Yorkshire pigs underwent laparoscopy with a 3-trocar technique. Parietex TET, Parietex TEC, and Prolene mesh segments (5 × 5 cm) were embedded in 55% collagen solder. Segments were inserted by using a specially designed introducer and affixed to the peritoneum by using prototype laser devices (1.45 µ, 4.5 W continuous wave, 5-mm spot, 55° C set temperature) and a custom laparoscopic handpiece (IPOM). Parietex PCO mesh was inserted and affixed using the Endo-hernia stapler (Control). Animals were recovered and underwent second-look laparoscopy at 6 weeks. Mesh sites were harvested after animals were euthanized. Results: The mesh-solder constructs were easily inserted and affixed in an IPOM approach. Prolene mesh tended to curl at its edges as the solder was melted. Postoperative healing was similar to that in Control segments in all cases. Discussion and Conclusion: Collagen-based tissue soldering permits normal wound healing and may mitigate or reduce the use of staples or other foreign bodies for laparoscopic mesh fixation, prevent tissue ischemia and possibly nerve entrapment, which result in severe postoperative pain and morbidity. Laser-assisted mesh fixation is a promising alternative for laparoscopic herniorrhaphy. Further development of this strategy is warranted. PMID:19793465

  2. Effects of Chitosan Coatings on Polypropylene Mesh for Implantation in a Rat Abdominal Wall Model

    PubMed Central

    Udpa, Natasha; Iyer, Shama R.; Rajoria, Rohit; Breyer, Kate E.; Valentine, Helen; Singh, Bhupinder; McDonough, Sean P.; Brown, Bryan N.; Bonassar, Lawrence J.

    2013-01-01

    Hernia repair and pelvic floor reconstruction are usually accompanied with the implantation of a surgical mesh, which frequently results in a foreign body response with associated complications. An ideal surgical mesh that allows force generation of muscle tissues without significant granulation tissue and/or fibrosis is of significant clinical interest. The objective of the present study was to evaluate the in vitro and in vivo responses of a chitosan coating on polypropylene mesh (Ch-PPM) in comparison with commercially available meshes. We found that application of a 0.5% (w/v) Ch-PPM elicited preferential attachment of myoblasts over fibroblast attachment in vitro. Therefore, we test the hypothesis that 0.5% Ch-PPM will encourage skeletal muscle tissue ingrowth and decrease fibrosis formation in vivo. We implanted 0.5% Ch-PPM, collagen-coated polypropylene mesh (Pelvitex™; C.R. Bard), and polypropylene (Avaulta Solo®; C.R. Bard) alone using a rat abdominal defect model. Force generation capacity and inflammatory response of each mesh were evaluated 2, 4, and 12 weeks postimplantation. We found that chitosan coating is associated with the restoration of functional skeletal muscle with histomorphologic characteristics that resemble native muscle and an early macrophage phenotypic response that has previously been shown to lead to more functional outcomes. PMID:23859182

  3. Histologic and biomechanical evaluation of a novel macroporous polytetrafluoroethylene knit mesh compared to lightweight and heavyweight polypropylene mesh in a porcine model of ventral incisional hernia repair

    PubMed Central

    Melman, L.; Jenkins, E. D.; Hamilton, N. A.; Bender, L. C.; Brodt, M. D.; Deeken, C. R.; Greco, S. C.; Frisella, M. M.

    2013-01-01

    Purpose To evaluate the biocompatibility of heavyweight polypropylene (HWPP), lightweight polypropylene (LWPP), and monofilament knit polytetrafluoroethylene (mkPTFE) mesh by comparing biomechanics and histologic response at 1, 3, and 5 months in a porcine model of incisional hernia repair. Methods Bilateral full-thickness abdominal wall defects measuring 4 cm in length were created in 27 Yucatan minipigs. Twenty-one days after hernia creation, animals underwent bilateral preperitoneal ventral hernia repair with 8 × 10 cm pieces of mesh. Repairs were randomized to Bard®Mesh (HWPP, Bard/Davol, http://www.davol.com), ULTRAPRO® (LWPP, Ethicon, http://www.ethicon.com), and GORE®INFINIT Mesh (mkPTFE, Gore & Associates, http://www.gore.com). Nine animals were sacrificed at each timepoint (1, 3, and 5 months). At harvest, a 3 × 4 cm sample of mesh and incorporated tissue was taken from the center of the implant site and subjected to uniaxial tensile testing at a rate of 0.42 mm/s. The maximum force (N) and tensile strength (N/cm) were measured with a tensiometer, and stiffness (N/mm) was calculated from the slope of the force-versus-displacement curve. Adjacent sections of tissue were stained with hematoxylin and eosin (H&E) and analyzed for inflammation, fibrosis, and tissue ingrowth. Data are reported as mean ± SEM. Statistical significance (P < 0.05) was determined using a two-way ANOVA and Bonferroni post-test. Results No significant difference in maximum force was detected between meshes at any of the time points (P > 0.05 for all comparisons). However, for each mesh type, the maximum strength at 5 months was significantly lower than that at 1 month (P < 0.05). No significant difference in stiffness was detected between the mesh types or between timepoints (P > 0.05 for all comparisons). No significant differences with regard to inflammation, fibrosis, or tissue ingrowth were detected between mesh types at any time point (P > 0.09 for all comparisons). However

  4. Collagen-coated vs noncoated low-weight polypropylene meshes in a sheep model for vaginal surgery. A pilot study.

    PubMed

    de Tayrac, Renaud; Alves, Antoine; Thérin, Michel

    2007-05-01

    The aims of this study were dual. First, to evaluate the feasibility of a sheep model as an animal model for vaginal surgery with meshes. Second, to compare host response to two low-weight polypropylene (PP) meshes, a noncoated (Soft Prolene, Gynecare, Ethicon) and a coated mesh with an absorbable hydrophilic film (Ugytex, Sofradim). Thirty-six 20 x 20 mm polypropylene meshes (18 coated and 18 noncoated) were surgically implanted by the vaginal route in 12 adult ewes. Meshes were implanted in the anterior (n=12) and the posterior vaginal compartments (n=24). Animals were killed 1 (n=6) and 12 (n=6) weeks after surgery. Postimplantation evaluation included macroscopical examination, histological and immunohistochemical analysis and histomorphometrical measures of the distance between the meshes and the vaginal epithelium. The experimental procedure was feasible in all cases. Vaginal erosions were observed twice as frequently with the noncoated-PP meshes (6/18, 33.3%) as with the coated-PP meshes (3/18, 16.7%), even if that difference was not significant (p=0.4). However, no differences were observed between the two meshes in terms of shrinkage, tissue ingrowth, inflammatory response, and position of the mesh in the vaginal wall. The mechanism involved in the reduction of vaginal erosion could be due to the lesser adhesion of the coated mesh on the vaginal wound during the early postoperative period. PMID:16941070

  5. An Immersed Boundary - Adaptive Mesh Refinement solver (IB-AMR) for high fidelity fully resolved wind turbine simulations

    NASA Astrophysics Data System (ADS)

    Angelidis, Dionysios; Sotiropoulos, Fotis

    2015-11-01

    The geometrical details of wind turbines determine the structure of the turbulence in the near and far wake and should be taken in account when performing high fidelity calculations. Multi-resolution simulations coupled with an immersed boundary method constitutes a powerful framework for high-fidelity calculations past wind farms located over complex terrains. We develop a 3D Immersed-Boundary Adaptive Mesh Refinement flow solver (IB-AMR) which enables turbine-resolving LES of wind turbines. The idea of using a hybrid staggered/non-staggered grid layout adopted in the Curvilinear Immersed Boundary Method (CURVIB) has been successfully incorporated on unstructured meshes and the fractional step method has been employed. The overall performance and robustness of the second order accurate, parallel, unstructured solver is evaluated by comparing the numerical simulations against conforming grid calculations and experimental measurements of laminar and turbulent flows over complex geometries. We also present turbine-resolving multi-scale LES considering all the details affecting the induced flow field; including the geometry of the tower, the nacelle and especially the rotor blades of a wind tunnel scale turbine. This material is based upon work supported by the Department of Energy under Award Number DE-EE0005482 and the Sandia National Laboratories.

  6. Three-dimensional gravity modeling and focusing inversion using rectangular meshes.

    SciTech Connect

    Commer, M.

    2011-03-01

    Rectangular grid cells are commonly used for the geophysical modeling of gravity anomalies, owing to their flexibility in constructing complex models. The straightforward handling of cubic cells in gravity inversion algorithms allows for a flexible imposition of model regularization constraints, which are generally essential in the inversion of static potential field data. The first part of this paper provides a review of commonly used expressions for calculating the gravity of a right polygonal prism, both for gravity and gradiometry, where the formulas of Plouff and Forsberg are adapted. The formulas can be cast into general forms practical for implementation. In the second part, a weighting scheme for resolution enhancement at depth is presented. Modelling the earth using highly digitized meshes, depth weighting schemes are typically applied to the model objective functional, subject to minimizing the data misfit. The scheme proposed here involves a non-linear conjugate gradient inversion scheme with a weighting function applied to the non-linear conjugate gradient scheme's gradient vector of the objective functional. The low depth resolution due to the quick decay of the gravity kernel functions is counteracted by suppressing the search directions in the parameter space that would lead to near-surface concentrations of gravity anomalies. Further, a density parameter transformation function enabling the imposition of lower and upper bounding constraints is employed. Using synthetic data from models of varying complexity and a field data set, it is demonstrated that, given an adequate depth weighting function, the gravity inversion in the transform space can recover geologically meaningful models requiring a minimum of prior information and user interaction.

  7. THREE-DIMENSIONAL ADAPTIVE MESH REFINEMENT SIMULATIONS OF LONG-DURATION GAMMA-RAY BURST JETS INSIDE MASSIVE PROGENITOR STARS

    SciTech Connect

    Lopez-Camara, D.; Lazzati, Davide; Morsony, Brian J.; Begelman, Mitchell C.

    2013-04-10

    We present the results of special relativistic, adaptive mesh refinement, 3D simulations of gamma-ray burst jets expanding inside a realistic stellar progenitor. Our simulations confirm that relativistic jets can propagate and break out of the progenitor star while remaining relativistic. This result is independent of the resolution, even though the amount of turbulence and variability observed in the simulations is greater at higher resolutions. We find that the propagation of the jet head inside the progenitor star is slightly faster in 3D simulations compared to 2D ones at the same resolution. This behavior seems to be due to the fact that the jet head in 3D simulations can wobble around the jet axis, finding the spot of least resistance to proceed. Most of the average jet properties, such as density, pressure, and Lorentz factor, are only marginally affected by the dimensionality of the simulations and therefore results from 2D simulations can be considered reliable.

  8. Thickness distribution of a cooling pyroclastic flow deposit on Augustine Volcano, Alaska: Optimization using InSAR, FEMs, and an adaptive mesh algorithm

    USGS Publications Warehouse

    Masterlark, Timothy; Lu, Zhiming; Rykhus, Russ

    2006-01-01

    Interferometric synthetic aperture radar (InSAR) imagery documents the consistent subsidence, during the interval 1992-1999, of a pyroclastic flow deposit (PFD) emplaced during the 1986 eruption of Augustine Volcano, Alaska. We construct finite element models (FEMs) that simulate thermoelastic contraction of the PFD to account for the observed subsidence. Three-dimensional problem domains of the FEMs include a thermoelastic PFD embedded in an elastic substrate. The thickness of the PFD is initially determined from the difference between post- and pre-eruption digital elevation models (DEMs). The initial excess temperature of the PFD at the time of deposition, 640 ??C, is estimated from FEM predictions and an InSAR image via standard least-squares inverse methods. Although the FEM predicts the major features of the observed transient deformation, systematic prediction errors (RMSE=2.2 cm) are most likely associated with errors in the a priori PFD thickness distribution estimated from the DEM differences. We combine an InSAR image, FEMs, and an adaptive mesh algorithm to iteratively optimize the geometry of the PFD with respect to a minimized misfit between the predicted thermoelastic deformation and observed deformation. Prediction errors from an FEM, which includes an optimized PFD geometry and the initial excess PFD temperature estimated from the least-squares analysis, are sub-millimeter (RMSE=0.3 mm). The average thickness (9.3 m), maximum thickness (126 m), and volume (2.1 ?? 107 m3) of the PFD, estimated using the adaptive mesh algorithm, are about twice as large as the respective estimations for the a priori PFD geometry. Sensitivity analyses suggest unrealistic PFD thickness distributions are required for initial excess PFD temperatures outside of the range 500-800 ??C. ?? 2005 Elsevier B.V. All rights reserved.

  9. Thickness distribution of a cooling pyroclastic flow deposit on Augustine Volcano, Alaska: Optimization using InSAR, FEMs, and an adaptive mesh algorithm

    NASA Astrophysics Data System (ADS)

    Masterlark, Timothy; Lu, Zhong; Rykhus, Russell

    2006-02-01

    Interferometric synthetic aperture radar (InSAR) imagery documents the consistent subsidence, during the interval 1992-1999, of a pyroclastic flow deposit (PFD) emplaced during the 1986 eruption of Augustine Volcano, Alaska. We construct finite element models (FEMs) that simulate thermoelastic contraction of the PFD to account for the observed subsidence. Three-dimensional problem domains of the FEMs include a thermoelastic PFD embedded in an elastic substrate. The thickness of the PFD is initially determined from the difference between post- and pre-eruption digital elevation models (DEMs). The initial excess temperature of the PFD at the time of deposition, 640 °C, is estimated from FEM predictions and an InSAR image via standard least-squares inverse methods. Although the FEM predicts the major features of the observed transient deformation, systematic prediction errors (RMSE = 2.2 cm) are most likely associated with errors in the a priori PFD thickness distribution estimated from the DEM differences. We combine an InSAR image, FEMs, and an adaptive mesh algorithm to iteratively optimize the geometry of the PFD with respect to a minimized misfit between the predicted thermoelastic deformation and observed deformation. Prediction errors from an FEM, which includes an optimized PFD geometry and the initial excess PFD temperature estimated from the least-squares analysis, are sub-millimeter (RMSE = 0.3 mm). The average thickness (9.3 m), maximum thickness (126 m), and volume (2.1 × 10 7 m 3) of the PFD, estimated using the adaptive mesh algorithm, are about twice as large as the respective estimations for the a priori PFD geometry. Sensitivity analyses suggest unrealistic PFD thickness distributions are required for initial excess PFD temperatures outside of the range 500-800 °C.

  10. A more efficient anisotropic mesh adaptation for the computation of Lagrangian coherent structures

    NASA Astrophysics Data System (ADS)

    Fortin, A.; Briffard, T.; Garon, A.

    2015-03-01

    The computation of Lagrangian coherent structures is more and more used in fluid mechanics to determine subtle fluid flow structures. We present in this paper a new adaptive method for the efficient computation of Finite Time Lyapunov Exponent (FTLE) from which the coherent Lagrangian structures can be obtained. This new adaptive method considerably reduces the computational burden without any loss of accuracy on the FTLE field.

  11. A statistical model for the length distribution of meshes in a polymer network

    NASA Astrophysics Data System (ADS)

    Lang, M.; Michalke, W.; Kreitmeier, S.

    2001-05-01

    A statistical model is introduced which allows estimation of the length distribution of meshes in a unimodal polymer network. The length distribution is responsible for the type and number of entanglements in a network and can thus provide information about the deformation behavior of polymers. The model can also predict the influence of certain simulation parameters such as the degree of cross linkage, the chain length, or the density of the melt from which the network is built. Both a reaction- and a diffusion-controlled cross-linking process can be mapped. We found that a shorter chain length implies a smaller number of chains per mesh. An increase of the degree of cross linkage as well as a lowering of the density of the melt also leads to a smaller average length of the meshes.

  12. Tradeoff and scale models of large deployable mesh reflectors for mobile communications satellite

    NASA Astrophysics Data System (ADS)

    Sugimoto, Toshio; Iso, Akio; Sato, Shin-Ichi; Orikasa, Teruaki

    1991-10-01

    The key technologies of a large deployable mesh reflector, and the tradeoff of mechanical performances are described. A scaled mesh reflector (1/10 model) is constructed for design of a 30 m diameter deployable reflector. Mechanical performances are measured. A mass conversion method is proposed for finding the most effective technology of large deployable reflectors. The tradeoffs of large deployable mesh reflectors are analytically investigated. It is shown that the hexagonal prism reflector is the best regarding surface accuracy. The hybrid truss type reflector proposed is the best regarding rigidity. This reflector has a compound module of a triangular prism and a hexagonal prism. Two scale models were constructed, and the test results are shown.

  13. Modelling hypervelocity impact fracture of ceramic panels using a mesh-free method

    NASA Astrophysics Data System (ADS)

    Das, R.; Mikhail, J.; Cleary, P. W.

    2010-06-01

    This paper studies the application of Smoothed Particle Hydrodynamics (SPH) for modelling hyper-velocity impact fracture and fragmentation in ceramic panels. Numerical modelling of complex fracture processes is important to understand the fundamental failure mechanisms in a variety of systems. Finite Element Method (FEM) is the mesh-based method conventionally applied to numerical simulation of fracture and fragmentation. However, the mesh generation and manipulation do not often provide the desired accuracy of the solutions, especially in problems with extreme deformations and discontinuities. To overcome this, here we use a mesh-free method called Smoothed Particle Hydrodynamic (SPH) to investigate the three-dimensional fracture of ceramic panels. The effect of impact speed on the fracture pattern and energy transfer is analysed. The SPH simulations are found to be robust in understanding the fracture mechanisms and in providing crucial design parameters.

  14. Adaptive Numerical Algorithms in Space Weather Modeling

    NASA Technical Reports Server (NTRS)

    Toth, Gabor; vanderHolst, Bart; Sokolov, Igor V.; DeZeeuw, Darren; Gombosi, Tamas I.; Fang, Fang; Manchester, Ward B.; Meng, Xing; Nakib, Dalal; Powell, Kenneth G.; Stout, Quentin F.; Glocer, Alex; Ma, Ying-Juan; Opher, Merav

    2010-01-01

    Space weather describes the various processes in the Sun-Earth system that present danger to human health and technology. The goal of space weather forecasting is to provide an opportunity to mitigate these negative effects. Physics-based space weather modeling is characterized by disparate temporal and spatial scales as well as by different physics in different domains. A multi-physics system can be modeled by a software framework comprising of several components. Each component corresponds to a physics domain, and each component is represented by one or more numerical models. The publicly available Space Weather Modeling Framework (SWMF) can execute and couple together several components distributed over a parallel machine in a flexible and efficient manner. The framework also allows resolving disparate spatial and temporal scales with independent spatial and temporal discretizations in the various models. Several of the computationally most expensive domains of the framework are modeled by the Block-Adaptive Tree Solar wind Roe Upwind Scheme (BATS-R-US) code that can solve various forms of the magnetohydrodynamics (MHD) equations, including Hall, semi-relativistic, multi-species and multi-fluid MHD, anisotropic pressure, radiative transport and heat conduction. Modeling disparate scales within BATS-R-US is achieved by a block-adaptive mesh both in Cartesian and generalized coordinates. Most recently we have created a new core for BATS-R-US: the Block-Adaptive Tree Library (BATL) that provides a general toolkit for creating, load balancing and message passing in a 1, 2 or 3 dimensional block-adaptive grid. We describe the algorithms of BATL and demonstrate its efficiency and scaling properties for various problems. BATS-R-US uses several time-integration schemes to address multiple time-scales: explicit time stepping with fixed or local time steps, partially steady-state evolution, point-implicit, semi-implicit, explicit/implicit, and fully implicit numerical

  15. Adaptive numerical algorithms in space weather modeling

    NASA Astrophysics Data System (ADS)

    Tóth, Gábor; van der Holst, Bart; Sokolov, Igor V.; De Zeeuw, Darren L.; Gombosi, Tamas I.; Fang, Fang; Manchester, Ward B.; Meng, Xing; Najib, Dalal; Powell, Kenneth G.; Stout, Quentin F.; Glocer, Alex; Ma, Ying-Juan; Opher, Merav

    2012-02-01

    Space weather describes the various processes in the Sun-Earth system that present danger to human health and technology. The goal of space weather forecasting is to provide an opportunity to mitigate these negative effects. Physics-based space weather modeling is characterized by disparate temporal and spatial scales as well as by different relevant physics in different domains. A multi-physics system can be modeled by a software framework comprising several components. Each component corresponds to a physics domain, and each component is represented by one or more numerical models. The publicly available Space Weather Modeling Framework (SWMF) can execute and couple together several components distributed over a parallel machine in a flexible and efficient manner. The framework also allows resolving disparate spatial and temporal scales with independent spatial and temporal discretizations in the various models. Several of the computationally most expensive domains of the framework are modeled by the Block-Adaptive Tree Solarwind Roe-type Upwind Scheme (BATS-R-US) code that can solve various forms of the magnetohydrodynamic (MHD) equations, including Hall, semi-relativistic, multi-species and multi-fluid MHD, anisotropic pressure, radiative transport and heat conduction. Modeling disparate scales within BATS-R-US is achieved by a block-adaptive mesh both in Cartesian and generalized coordinates. Most recently we have created a new core for BATS-R-US: the Block-Adaptive Tree Library (BATL) that provides a general toolkit for creating, load balancing and message passing in a 1, 2 or 3 dimensional block-adaptive grid. We describe the algorithms of BATL and demonstrate its efficiency and scaling properties for various problems. BATS-R-US uses several time-integration schemes to address multiple time-scales: explicit time stepping with fixed or local time steps, partially steady-state evolution, point-implicit, semi-implicit, explicit/implicit, and fully implicit

  16. Acquire High Quality Meshes of Scale Models for AN Automatic Modelling Process

    NASA Astrophysics Data System (ADS)

    Giraud, F.; Jacquot, K.; Chevrier, C.; Halin, G.

    2013-07-01

    Urban scale models depicting whole towns such as the hundred-scale model collection known as plans-reliefs are a valuable source of information of cities and their surroundings. These physical representations of French strongholds from the 17th through the 19th century suffer from many problems that are, among other things, wear and tear or the lack of visibility and accessibility. A virtual collection would allow remote accessibility for visitors as well as history researchers. Moreover, it may also be linked to other digital collections and therefore, promote the collection to make people come to the museums to see the physical scale models. We also work on other physical town scale models like Epinal for which the scale is a bit higher. In a first part, we define a protocol for acquiring 3D meshes of town scale models from both photogrammetric and scanning methods. Then we compare the results of both methods The photogrammetric protocol has been elaborated by choosing the most accurate software, 123DCatch, which asks for about 60 pictures, and defining the settings needed to obtain exploitable photographs. In the same way, we defined the devices and settings needed for the laser scan acquisition method. In a second part, we segment the 3D meshes in planes by using Geomagic, which has been chosen between several programs, for its accurate resulting geometry.

  17. Mesh Optimization for Monte Carlo-Based Optical Tomography

    PubMed Central

    Edmans, Andrew; Intes, Xavier

    2015-01-01

    Mesh-based Monte Carlo techniques for optical imaging allow for accurate modeling of light propagation in complex biological tissues. Recently, they have been developed within an efficient computational framework to be used as a forward model in optical tomography. However, commonly employed adaptive mesh discretization techniques have not yet been implemented for Monte Carlo based tomography. Herein, we propose a methodology to optimize the mesh discretization and analytically rescale the associated Jacobian based on the characteristics of the forward model. We demonstrate that this method maintains the accuracy of the forward model even in the case of temporal data sets while allowing for significant coarsening or refinement of the mesh. PMID:26566523

  18. Manual for automatic generation of finite element models of spiral bevel gears in mesh

    NASA Technical Reports Server (NTRS)

    Bibel, G. D.; Reddy, S.; Kumar, A.

    1994-01-01

    The goal of this research is to develop computer programs that generate finite element models suitable for doing 3D contact analysis of faced milled spiral bevel gears in mesh. A pinion tooth and a gear tooth are created and put in mesh. There are two programs: Points.f and Pat.f to perform the analysis. Points.f is based on the equation of meshing for spiral bevel gears. It uses machine tool settings to solve for an N x M mesh of points on the four surfaces, pinion concave and convex, and gear concave and convex. Points.f creates the file POINTS.OUT, an ASCI file containing N x M points for each surface. (N is the number of node points along the length of the tooth, and M is nodes along the height.) Pat.f reads POINTS.OUT and creates the file tl.out. Tl.out is a series of PATRAN input commands. In addition to the mesh density on the tooth face, additional user specified variables are the number of finite elements through the thickness, and the number of finite elements along the tooth full fillet. A full fillet is assumed to exist for both the pinion and gear.

  19. Feasibility of electrical impedance tomography in haemorrhagic stroke treatment using adaptive mesh

    NASA Astrophysics Data System (ADS)

    Nasehi Tehrani, J.; Anderson, C.; Jin, C.; van Schaik, A.; Holder, D.; McEwan, A.

    2010-04-01

    EIT has been proposed for acute stroke differentiation, specifically to determine the type of stroke, either ischaemia (clot) or haemorrhage (bleed) to allow the rapid use of clot-busting drugs in the former (Romsauerova et al 2006) . This addresses an important medical need, although there is little treatment offered in the case of haemorrhage. Also the demands on EIT are high with usually no availability to take a 'before' measurement, ruling out time difference imaging. Recently a new treatment option for haemorrhage has been proposed and is being studied in international randomised controlled trial: the early reduction of elevated blood pressure to attenuate the haematoma. This has been shown via CT to reduce bleeds by up to 1mL by Anderson et al 2008. The use of EIT as a continuous measure is desirable here to monitor the effect of blood pressure reduction. A 1mL increase of haemorrhagic lesion located near scalp on the right side of head caused a boundary voltage change of less than 0.05% at 50 kHz. This could be visually observed in a time difference 3D reconstruction with no change in electrode positions, mesh, background conductivity or drift when baseline noise was less than 0.005% but not when noise was increased to 0.01%. This useful result informs us that the EIT system must have noise of less than 0.005% at 50 kHz including instrumentation, physiological and other biases.

  20. Medical case-based retrieval: integrating query MeSH terms for query-adaptive multi-modal fusion

    NASA Astrophysics Data System (ADS)

    Seco de Herrera, Alba G.; Foncubierta-Rodríguez, Antonio; Müller, Henning

    2015-03-01

    Advances in medical knowledge give clinicians more objective information for a diagnosis. Therefore, there is an increasing need for bibliographic search engines that can provide services helping to facilitate faster information search. The ImageCLEFmed benchmark proposes a medical case-based retrieval task. This task aims at retrieving articles from the biomedical literature that are relevant for differential diagnosis of query cases including a textual description and several images. In the context of this campaign many approaches have been investigated showing that the fusion of visual and text information can improve the precision of the retrieval. However, fusion does not always lead to better results. In this paper, a new query-adaptive fusion criterion to decide when to use multi-modal (text and visual) or only text approaches is presented. The proposed method integrates text information contained in MeSH (Medical Subject Headings) terms extracted and visual features of the images to find synonym relations between them. Given a text query, the query-adaptive fusion criterion decides when it is suitable to also use visual information for the retrieval. Results show that this approach can decide if a text or multi{modal approach should be used with 77.15% of accuracy.

  1. Generation of multi-million element meshes for solid model-based geometries: The Dicer algorithm

    SciTech Connect

    Melander, D.J.; Benzley, S.E.; Tautges, T.J.

    1997-06-01

    The Dicer algorithm generates a fine mesh by refining each element in a coarse all-hexahedral mesh generated by any existing all-hexahedral mesh generation algorithm. The fine mesh is geometry-conforming. Using existing all-hexahedral meshing algorithms to define the initial coarse mesh simplifies the overall meshing process and allows dicing to take advantage of improvements in other meshing algorithms immediately. The Dicer algorithm will be used to generate large meshes in support of the ASCI program. The authors also plan to use dicing as the basis for parallel mesh generation. Dicing strikes a careful balance between the interactive mesh generation and multi-million element mesh generation processes for complex 3D geometries, providing an efficient means for producing meshes of varying refinement once the coarse mesh is obtained.

  2. 3D active shape models of human brain structures: application to patient-specific mesh generation

    NASA Astrophysics Data System (ADS)

    Ravikumar, Nishant; Castro-Mateos, Isaac; Pozo, Jose M.; Frangi, Alejandro F.; Taylor, Zeike A.

    2015-03-01

    The use of biomechanics-based numerical simulations has attracted growing interest in recent years for computer-aided diagnosis and treatment planning. With this in mind, a method for automatic mesh generation of brain structures of interest, using statistical models of shape (SSM) and appearance (SAM), for personalised computational modelling is presented. SSMs are constructed as point distribution models (PDMs) while SAMs are trained using intensity profiles sampled from a training set of T1-weighted magnetic resonance images. The brain structures of interest are, the cortical surface (cerebrum, cerebellum & brainstem), lateral ventricles and falx-cerebri membrane. Two methods for establishing correspondences across the training set of shapes are investigated and compared (based on SSM quality): the Coherent Point Drift (CPD) point-set registration method and B-spline mesh-to-mesh registration method. The MNI-305 (Montreal Neurological Institute) average brain atlas is used to generate the template mesh, which is deformed and registered to each training case, to establish correspondence over the training set of shapes. 18 healthy patients' T1-weightedMRimages form the training set used to generate the SSM and SAM. Both model-training and model-fitting are performed over multiple brain structures simultaneously. Compactness and generalisation errors of the BSpline-SSM and CPD-SSM are evaluated and used to quantitatively compare the SSMs. Leave-one-out cross validation is used to evaluate SSM quality in terms of these measures. The mesh-based SSM is found to generalise better and is more compact, relative to the CPD-based SSM. Quality of the best-fit model instance from the trained SSMs, to test cases are evaluated using the Hausdorff distance (HD) and mean absolute surface distance (MASD) metrics.

  3. woptic: Optical conductivity with Wannier functions and adaptive k-mesh refinement

    NASA Astrophysics Data System (ADS)

    Assmann, E.; Wissgott, P.; Kuneš, J.; Toschi, A.; Blaha, P.; Held, K.

    2016-05-01

    We present an algorithm for the adaptive tetrahedral integration over the Brillouin zone of crystalline materials, and apply it to compute the optical conductivity, dc conductivity, and thermopower. For these quantities, whose contributions are often localized in small portions of the Brillouin zone, adaptive integration is especially relevant. Our implementation, the woptic package, is tied into the WIEN2WANNIER framework and allows including a local many-body self energy, e.g. from dynamical mean-field theory (DMFT). Wannier functions and dipole matrix elements are computed with the DFT package WIEN2k and Wannier90. For illustration, we show DFT results for fcc-Al and DMFT results for the correlated metal SrVO3.

  4. A parallel second-order adaptive mesh algorithm for incompressible flow in porous media.

    PubMed

    Pau, George S H; Almgren, Ann S; Bell, John B; Lijewski, Michael J

    2009-11-28

    In this paper, we present a second-order accurate adaptive algorithm for solving multi-phase, incompressible flow in porous media. We assume a multi-phase form of Darcy's law with relative permeabilities given as a function of the phase saturation. The remaining equations express conservation of mass for the fluid constituents. In this setting, the total velocity, defined to be the sum of the phase velocities, is divergence free. The basic integration method is based on a total-velocity splitting approach in which we solve a second-order elliptic pressure equation to obtain a total velocity. This total velocity is then used to recast component conservation equations as nonlinear hyperbolic equations. Our approach to adaptive refinement uses a nested hierarchy of logically rectangular grids with simultaneous refinement of the grids in both space and time. The integration algorithm on the grid hierarchy is a recursive procedure in which coarse grids are advanced in time, fine grids are advanced multiple steps to reach the same time as the coarse grids and the data at different levels are then synchronized. The single-grid algorithm is described briefly, but the emphasis here is on the time-stepping procedure for the adaptive hierarchy. Numerical examples are presented to demonstrate the algorithm's accuracy and convergence properties and to illustrate the behaviour of the method.

  5. A Parallel Second-Order Adaptive Mesh Algorithm for Incompressible Flow in Porous Media

    SciTech Connect

    Pau, George Shu Heng; Almgren, Ann S.; Bell, John B.; Lijewski, Michael J.

    2008-04-01

    In this paper we present a second-order accurate adaptive algorithm for solving multiphase, incompressible flows in porous media. We assume a multiphase form of Darcy's law with relative permeabilities given as a function of the phase saturation. The remaining equations express conservation of mass for the fluid constituents. In this setting the total velocity, defined to be the sum of the phase velocities, is divergence-free. The basic integration method is based on a total-velocity splitting approach in which we solve a second-order elliptic pressure equation to obtain a total velocity. This total velocity is then used to recast component conservation equations as nonlinear hyperbolic equations. Our approach to adaptive refinement uses a nested hierarchy of logically rectangular grids with simultaneous refinement of the grids in both space and time. The integration algorithm on the grid hierarchy is a recursive procedure in which coarse grids are advanced in time, fine grids areadvanced multiple steps to reach the same time as the coarse grids and the data atdifferent levels are then synchronized. The single grid algorithm is described briefly,but the emphasis here is on the time-stepping procedure for the adaptive hierarchy. Numerical examples are presented to demonstrate the algorithm's accuracy and convergence properties and to illustrate the behavior of the method.

  6. Characteristics of scale models of large deployable mesh reflector antennas and study on space verification test plan

    NASA Astrophysics Data System (ADS)

    Ebisui, Takashi; Iso, Akio; Orikasa, Teruaki; Sugimoto, Toshio; Okamoto, Teruki; Ueno, Miyoshi

    A large deployable antenna is essential for effective mobile communication satellites. This paper describes the characteristics of various scale models of the large deployable mesh reflector antennas and a study on space verification test plan using the scale models. Two electrical scale models of the mesh reflectors have been constructed to evaluate the electrical performance of a mesh reflector antenna. One of the models is the Hexa-Link Truss structure, and the other model is the TETRUS structure. Diameter of these models are 3 m. The experimental measurements and calculations of these electrical and mechanical models are also described.

  7. Adaptive h -refinement for reduced-order models: ADAPTIVE h -refinement for reduced-order models

    DOE PAGES

    Carlberg, Kevin T.

    2014-11-05

    Our work presents a method to adaptively refine reduced-order models a posteriori without requiring additional full-order-model solves. The technique is analogous to mesh-adaptive h-refinement: it enriches the reduced-basis space online by ‘splitting’ a given basis vector into several vectors with disjoint support. The splitting scheme is defined by a tree structure constructed offline via recursive k-means clustering of the state variables using snapshot data. This method identifies the vectors to split online using a dual-weighted-residual approach that aims to reduce error in an output quantity of interest. The resulting method generates a hierarchy of subspaces online without requiring large-scale operationsmore » or full-order-model solves. Furthermore, it enables the reduced-order model to satisfy any prescribed error tolerance regardless of its original fidelity, as a completely refined reduced-order model is mathematically equivalent to the original full-order model. Experiments on a parameterized inviscid Burgers equation highlight the ability of the method to capture phenomena (e.g., moving shocks) not contained in the span of the original reduced basis.« less

  8. Modeling, Modal Properties, and Mesh Stiffness Variation Instabilities of Planetary Gears

    NASA Technical Reports Server (NTRS)

    Parker, Robert G.; Lin, Jian; Krantz, Timothy L. (Technical Monitor)

    2001-01-01

    Planetary gear noise and vibration are primary concerns in their applications in helicopters, automobiles, aircraft engines, heavy machinery and marine vehicles. Dynamic analysis is essential to the noise and vibration reduction. This work analytically investigates some critical issues and advances the understanding of planetary gear dynamics. A lumped-parameter model is built for the dynamic analysis of general planetary gears. The unique properties of the natural frequency spectra and vibration modes are rigorously characterized. These special structures apply for general planetary gears with cyclic symmetry and, in practically important case, systems with diametrically opposed planets. The special vibration properties are useful for subsequent research. Taking advantage of the derived modal properties, the natural frequency and vibration mode sensitivities to design parameters are investigated. The key parameters include mesh stiffnesses, support/bearing stiffnesses, component masses, moments of inertia, and operating speed. The eigen-sensitivities are expressed in simple, closed-form formulae associated with modal strain and kinetic energies. As disorders (e.g., mesh stiffness variation. manufacturing and assembling errors) disturb the cyclic symmetry of planetary gears, their effects on the free vibration properties are quantitatively examined. Well-defined veering rules are derived to identify dramatic changes of natural frequencies and vibration modes under parameter variations. The knowledge of free vibration properties, eigen-sensitivities, and veering rules provide important information to effectively tune the natural frequencies and optimize structural design to minimize noise and vibration. Parametric instabilities excited by mesh stiffness variations are analytically studied for multi-mesh gear systems. The discrepancies of previous studies on parametric instability of two-stage gear chains are clarified using perturbation and numerical methods. The

  9. Model of aircraft noise adaptation

    NASA Technical Reports Server (NTRS)

    Dempsey, T. K.; Coates, G. D.; Cawthorn, J. M.

    1977-01-01

    Development of an aircraft noise adaptation model, which would account for much of the variability in the responses of subjects participating in human response to noise experiments, was studied. A description of the model development is presented. The principal concept of the model, was the determination of an aircraft adaptation level which represents an annoyance calibration for each individual. Results showed a direct correlation between noise level of the stimuli and annoyance reactions. Attitude-personality variables were found to account for varying annoyance judgements.

  10. Hybrid Adaptive Flight Control with Model Inversion Adaptation

    NASA Technical Reports Server (NTRS)

    Nguyen, Nhan

    2011-01-01

    This study investigates a hybrid adaptive flight control method as a design possibility for a flight control system that can enable an effective adaptation strategy to deal with off-nominal flight conditions. The hybrid adaptive control blends both direct and indirect adaptive control in a model inversion flight control architecture. The blending of both direct and indirect adaptive control provides a much more flexible and effective adaptive flight control architecture than that with either direct or indirect adaptive control alone. The indirect adaptive control is used to update the model inversion controller by an on-line parameter estimation of uncertain plant dynamics based on two methods. The first parameter estimation method is an indirect adaptive law based on the Lyapunov theory, and the second method is a recursive least-squares indirect adaptive law. The model inversion controller is therefore made to adapt to changes in the plant dynamics due to uncertainty. As a result, the modeling error is reduced that directly leads to a decrease in the tracking error. In conjunction with the indirect adaptive control that updates the model inversion controller, a direct adaptive control is implemented as an augmented command to further reduce any residual tracking error that is not entirely eliminated by the indirect adaptive control.

  11. ADAPTIVE EYE MODEL - Poster Paper

    NASA Astrophysics Data System (ADS)

    Galetskiy, Sergey O.; Kudryashov, Alexey V.

    2008-01-01

    We propose experimental adaptive eye model based on flexible 18-electrode bimorph mirror reproducing human eye aberrations up to 4th radial order of Zernike polynomials at frequency of 10Hz. The accuracy of aberrations reproduction in most cases is better than λ/10 RMS. The model is introduced to aberrometer for human eye aberrations compensation to improve visual acuity test.

  12. Valiant load-balanced robust routing under hose model for WDM mesh networks

    NASA Astrophysics Data System (ADS)

    Zhang, Xiaoning; Li, Lemin; Wang, Sheng

    2006-09-01

    In this paper, we propose Valiant Load-Balanced robust routing scheme for WDM mesh networks under the model of polyhedral uncertainty (i.e., hose model), and the proposed routing scheme is implemented with traffic grooming approach. Our Objective is to maximize the hose model throughput. A mathematic formulation of Valiant Load-Balanced robust routing is presented and three fast heuristic algorithms are also proposed. When implementing Valiant Load-Balanced robust routing scheme to WDM mesh networks, a novel traffic-grooming algorithm called MHF (minimizing hop first) is proposed. We compare the three heuristic algorithms with the VPN tree under the hose model. Finally we demonstrate in the simulation results that MHF with Valiant Load-Balanced robust routing scheme outperforms the traditional traffic-grooming algorithm in terms of the throughput for the uniform/non-uniform traffic matrix under the hose model.

  13. Rate sensitive continuum damage models and mesh dependence in finite element analyses.

    PubMed

    Ljustina, Goran; Fagerström, Martin; Larsson, Ragnar

    2014-01-01

    The experiences from orthogonal machining simulations show that the Johnson-Cook (JC) dynamic failure model exhibits significant element size dependence. Such mesh dependence is a direct consequence of the utilization of local damage models. The current contribution is an investigation of the extent of the possible pathological mesh dependence. A comparison of the resulting JC model behavior combined with two types of damage evolution is considered. The first damage model is the JC dynamic failure model, where the development of the "damage" does not affect the response until the critical state is reached. The second one is a continuum damage model, where the damage variable is affecting the material response continuously during the deformation. Both the plasticity and the damage models are rate dependent, and the damage evolutions for both models are defined as a postprocessing of the effective stress response. The investigation is conducted for a series of 2D shear tests utilizing different FE representations of the plane strain plate with pearlite material properties. The results show for both damage models, using realistic pearlite material parameters, that similar extent of the mesh dependence is obtained and that the possible viscous regularization effects are absent in the current investigation. PMID:25530994

  14. Surface mesh to voxel data registration for patient-specific anatomical modeling

    NASA Astrophysics Data System (ADS)

    de Oliveira, Júlia E. E.; Giessler, Paul; Keszei, András.; Herrler, Andreas; Deserno, Thomas M.

    2016-03-01

    Virtual Physiological Human (VPH) models are frequently used for training, planning, and performing medical procedures. The Regional Anaesthesia Simulator and Assistant (RASimAs) project has the goal of increasing the application and effectiveness of regional anesthesia (RA) by combining a simulator of ultrasound-guided and electrical nerve-stimulated RA procedures and a subject-specific assistance system through an integration of image processing, physiological models, subject-specific data, and virtual reality. Individualized models enrich the virtual training tools for learning and improving regional anaesthesia (RA) skills. Therefore, we suggest patient-specific VPH models that are composed by registering the general mesh-based models with patient voxel data-based recordings. Specifically, the pelvis region has been focused for the support of the femoral nerve block. The processing pipeline is composed of different freely available toolboxes such as MatLab, the open Simulation framework (SOFA), and MeshLab. The approach of Gilles is applied for mesh-to-voxel registration. Personalized VPH models include anatomical as well as mechanical properties of the tissues. Two commercial VPH models (Zygote and Anatomium) were used together with 34 MRI data sets. Results are presented for the skin surface and pelvic bones. Future work will extend the registration procedure to cope with all model tissue (i.e., skin, muscle, bone, vessel, nerve, fascia) in a one-step procedure and extrapolating the personalized models to body regions actually being out of the captured field of view.

  15. Rate Sensitive Continuum Damage Models and Mesh Dependence in Finite Element Analyses

    PubMed Central

    Fagerström, Martin

    2014-01-01

    The experiences from orthogonal machining simulations show that the Johnson-Cook (JC) dynamic failure model exhibits significant element size dependence. Such mesh dependence is a direct consequence of the utilization of local damage models. The current contribution is an investigation of the extent of the possible pathological mesh dependence. A comparison of the resulting JC model behavior combined with two types of damage evolution is considered. The first damage model is the JC dynamic failure model, where the development of the “damage” does not affect the response until the critical state is reached. The second one is a continuum damage model, where the damage variable is affecting the material response continuously during the deformation. Both the plasticity and the damage models are rate dependent, and the damage evolutions for both models are defined as a postprocessing of the effective stress response. The investigation is conducted for a series of 2D shear tests utilizing different FE representations of the plane strain plate with pearlite material properties. The results show for both damage models, using realistic pearlite material parameters, that similar extent of the mesh dependence is obtained and that the possible viscous regularization effects are absent in the current investigation. PMID:25530994

  16. GrACE-PPM: A distributed dynamic adaptive mesh CFD Environment for accelerated inhomogeneous compressible flows

    NASA Astrophysics Data System (ADS)

    Zhang, Shuang; Parashar, Manish; Zabusky, Norman

    2001-11-01

    We merge the PPM compressible algorithm (VH-1 (M. Parashar, Grid Adaptive Computational Engine. 2001. http://www.caip.rutgers.edu/ parashar/TASSL/Projects/GrACE/Gmain.html)) with the new Grid Adaptive Computation Engine (GrACE ( J. M. Blondin and J. Hawley, Virginia Hydrodynamics Code. http://wonka.physics.ncsu.edu/pub/VH-1/index.html)). The latter environment uses the Berger-Oliger AMR algorithm and has many high-performance computation features such as data parallelism, data and computation locality, etc. We discuss the performance (scaling) resulting from examining the space of four parameters: top coarse level resolution; number of refinement levels; number of processors; duration of calculation. We validate the new code by applying it to the 2D shock-curtain interaction problem (N. J. Zabusky and S. Zhang. "Shock - planar curtain interactions in 2D: Emergence of vortex double layers, vortex projectiles and decaying stratified turbulence." Revised submitted Physics of Fluids, July, 2001.). We discuss the visualization and quantification of AMR data sets.

  17. SCEC CVM-Toolkit (CVM-T) -- High Performance Meshing Tools for SCEC Community Velocity Models

    NASA Astrophysics Data System (ADS)

    Small, P.; Maechling, P. J.; Ely, G. P.; Olsen, K. B.; Withers, K.; Graves, R. W.; Jordan, T. H.; Plesch, A.; Shaw, J. H.

    2010-12-01

    The SCEC Community Velocity Model Toolkit (CVM-T) enables earthquake modelers to quickly build, visualize, and validate large-scale 3D velocity meshes using SCEC CVM-H or CVM-4. CVM-T is comprised of three main components: (1) a current SCEC community velocity model for Southern California, (2) tools for extracting meshes from this model and visualizing them, and (3) an automated test framework for evaluating new releases of CVMs using SCEC’s AWP-ODC forward wave propagation software and one, or more, ground motion goodness of fit (GoF) algorithms. CVM-T is designed to help SCEC modelers build large-scale velocity meshes by extracting material properties from the most current version of Community Velocity Model H (CVM-H) and to provide a consistent interface as new CVM-H versions are developed. The CVM-T software provides a highly-scalable interface to CVM-H 6.2 (and later) voxets. Along with an improved interface to CVM-H material properties, the CVM-T software adds a geotechnical layer (GTL) to CVM-H 6.2+ based on Ely’s Vs30-derived GTL. The initial release of CVM-T also extends the coverage region for CVM-H 6.2 with a Hadley-Kanamori 1D background. Smoothing is performed within the transition boundary between the core model and the 1D background. The user interface now includes a C API that allows applications to query the model either by elevation or depth. The Extraction and Visualization Tools (EVT) include a parallelized 3D mesh generator which can quickly generate meshes (consisting of Vp, Vs, and density) from either CVM-H or CVM-4 with over 100 billion points. Python plotting scripts can be employed to plot horizontal or profile slices from existing meshes or directly from either CVM. The Automated Test Framework (ATF) is a system for quantitatively evaluating new versions of CVM-H and ensuring that the model improves against prior versions. The ATF employs the CruiseControl build and test framework to run an AWP-ODC simulation for the 2008 Chino

  18. The Dynamic Modelling of a Spur Gear in Mesh Including Friction and a Crack

    NASA Astrophysics Data System (ADS)

    Howard, Ian; Jia, Shengxiang; Wang, Jiande

    2001-09-01

    To improve the current generation of diagnostic techniques, many researchers are actively developing advanced dynamic models of gear case vibration to ascertain the effect of different types of gear train damage. This paper details a simplified gear dynamic model aimed at exploring the effect of friction on the resultant gear case vibration. The model incorporates the effect of variations in gear tooth torsional mesh stiffness, developed using finite element analysis, as the gears mesh together. The method of introducing the frictional force between teeth into the dynamic equations is given. The comparison between the results with friction and without friction was investigated using Matlab and Simulink models developed from the differential equations. The effects the single tooth crack has on the frequency spectrum and on the common diagnostic functions of the resulting gearbox component vibrations are also shown.

  19. Computationally tractable stochastic image modeling based on symmetric Markov mesh random fields.

    PubMed

    Yousefi, Siamak; Kehtarnavaz, Nasser; Cao, Yan

    2013-06-01

    In this paper, the properties of a new class of causal Markov random fields, named symmetric Markov mesh random field, are initially discussed. It is shown that the symmetric Markov mesh random fields from the upper corners are equivalent to the symmetric Markov mesh random fields from the lower corners. Based on this new random field, a symmetric, corner-independent, and isotropic image model is then derived which incorporates the dependency of a pixel on all its neighbors. The introduced image model comprises the product of several local 1D density and 2D joint density functions of pixels in an image thus making it computationally tractable and practically feasible by allowing the use of histogram and joint histogram approximations to estimate the model parameters. An image restoration application is also presented to confirm the effectiveness of the model developed. The experimental results demonstrate that this new model provides an improved tool for image modeling purposes compared to the conventional Markov random field models.

  20. Dynamic Rupture Modeling in Three Dimensions on Unstructured Meshes Using a Discontinuous Galerkin Method

    NASA Astrophysics Data System (ADS)

    Pelties, C.; Käser, M.

    2010-12-01

    We will present recent developments concerning the extensions of the ADER-DG method to solve three dimensional dynamic rupture problems on unstructured tetrahedral meshes. The simulation of earthquake rupture dynamics and seismic wave propagation using a discontinuous Galerkin (DG) method in 2D was recently presented by J. de la Puente et al. (2009). A considerable feature of this study regarding spontaneous rupture problems was the combination of the DG scheme and a time integration method using Arbitrarily high-order DERivatives (ADER) to provide high accuracy in space and time with the discretization on unstructured meshes. In the resulting discrete velocity-stress formulation of the elastic wave equations variables are naturally discontinuous at the interfaces between elements. The so-called Riemann problem can then be solved to obtain well defined values of the variables at the discontinuity itself. This is in particular valid for the fault at which a certain friction law has to be evaluated. Hence, the fault’s geometry is honored by the computational mesh. This way, complex fault planes can be modeled adequately with small elements while fast mesh coarsening is possible with increasing distance from the fault. Due to the strict locality of the scheme using only direct neighbor communication, excellent parallel behavior can be observed. A further advantage of the scheme is that it avoids spurious high-frequency contributions in the slip rate spectra and therefore does not require artificial Kelvin-Voigt damping or filtering of synthetic seismograms. In order to test the accuracy of the ADER-DG method the Southern California Earthquake Center (SCEC) benchmark for spontaneous rupture simulations was employed. Reference: J. de la Puente, J.-P. Ampuero, and M. Käser (2009), Dynamic rupture modeling on unstructured meshes using a discontinuous Galerkin method, JOURNAL OF GEOPHYSICAL RESEARCH, VOL. 114, B10302, doi:10.1029/2008JB006271

  1. Temperature Knowledge and Model Correlation for the Soil Moisture Active and Passive (SMAP) Reflector Mesh

    NASA Technical Reports Server (NTRS)

    Mikhaylov, Rebecca; Dawson, Douglas; Kwack, Eug

    2014-01-01

    NASA's Earth observing Soil Moisture Active & Passive (SMAP) Mission is scheduled to launch in November 2014 into a 685 km near-polar, sun synchronous orbit. SMAP will provide comprehensive global mapping measurements of soil moisture and freeze/thaw state in order to enhance understanding of the processes that link the water, energy, and carbon cycles. The primary objectives of SMAP are to improve worldwide weather and flood forecasting, enhance climate prediction, and refine drought and agriculture monitoring during its 3 year mission. The SMAP instrument architecture incorporates an L-band radar and an L-band radiometer which share a common feed horn and parabolic mesh reflector. The instrument rotates about the nadir axis at approximately 15 rpm, thereby providing a conically scanning wide swath antenna beam that is capable of achieving global coverage within 3 days. In order to make the necessary precise surface emission measurements from space, a temperature knowledge of 60 deg C for the mesh reflector is required. In order to show compliance, a thermal vacuum test was conducted using a portable solar simulator to illuminate a non flight, but flight-like test article through the quartz window of the vacuum chamber. The molybdenum wire of the antenna mesh is too fine to accommodate thermal sensors for direct temperature measurements. Instead, the mesh temperature was inferred from resistance measurements made during the test. The test article was rotated to five separate angles between 10 deg and 90 deg via chamber breaks to simulate the maximum expected on-orbit solar loading during the mission. The resistance measurements were converted to temperature via a resistance versus temperature calibration plot that was constructed from data collected in a separate calibration test. A simple thermal model of two different representations of the mesh (plate and torus) was created to correlate the mesh temperature predictions to within 60 deg C. The on-orbit mesh

  2. Temperature Structure of the Intracluster Medium from Smoothed-particle Hydrodynamics and Adaptive-mesh Refinement Simulations

    NASA Astrophysics Data System (ADS)

    Rasia, Elena; Lau, Erwin T.; Borgani, Stefano; Nagai, Daisuke; Dolag, Klaus; Avestruz, Camille; Granato, Gian Luigi; Mazzotta, Pasquale; Murante, Giuseppe; Nelson, Kaylea; Ragone-Figueroa, Cinthia

    2014-08-01

    Analyses of cosmological hydrodynamic simulations of galaxy clusters suggest that X-ray masses can be underestimated by 10%-30%. The largest bias originates from both violation of hydrostatic equilibrium (HE) and an additional temperature bias caused by inhomogeneities in the X-ray-emitting intracluster medium (ICM). To elucidate this large dispersion among theoretical predictions, we evaluate the degree of temperature structures in cluster sets simulated either with smoothed-particle hydrodynamics (SPH) or adaptive-mesh refinement (AMR) codes. We find that the SPH simulations produce larger temperature variations connected to the persistence of both substructures and their stripped cold gas. This difference is more evident in nonradiative simulations, whereas it is reduced in the presence of radiative cooling. We also find that the temperature variation in radiative cluster simulations is generally in agreement with that observed in the central regions of clusters. Around R 500 the temperature inhomogeneities of the SPH simulations can generate twice the typical HE mass bias of the AMR sample. We emphasize that a detailed understanding of the physical processes responsible for the complex thermal structure in ICM requires improved resolution and high-sensitivity observations in order to extend the analysis to higher temperature systems and larger cluster-centric radii.

  3. Temperature structure of the intracluster medium from smoothed-particle hydrodynamics and adaptive-mesh refinement simulations

    SciTech Connect

    Rasia, Elena; Lau, Erwin T.; Nagai, Daisuke; Avestruz, Camille; Borgani, Stefano; Dolag, Klaus; Granato, Gian Luigi; Murante, Giuseppe; Ragone-Figueroa, Cinthia; Mazzotta, Pasquale; Nelson, Kaylea

    2014-08-20

    Analyses of cosmological hydrodynamic simulations of galaxy clusters suggest that X-ray masses can be underestimated by 10%-30%. The largest bias originates from both violation of hydrostatic equilibrium (HE) and an additional temperature bias caused by inhomogeneities in the X-ray-emitting intracluster medium (ICM). To elucidate this large dispersion among theoretical predictions, we evaluate the degree of temperature structures in cluster sets simulated either with smoothed-particle hydrodynamics (SPH) or adaptive-mesh refinement (AMR) codes. We find that the SPH simulations produce larger temperature variations connected to the persistence of both substructures and their stripped cold gas. This difference is more evident in nonradiative simulations, whereas it is reduced in the presence of radiative cooling. We also find that the temperature variation in radiative cluster simulations is generally in agreement with that observed in the central regions of clusters. Around R {sub 500} the temperature inhomogeneities of the SPH simulations can generate twice the typical HE mass bias of the AMR sample. We emphasize that a detailed understanding of the physical processes responsible for the complex thermal structure in ICM requires improved resolution and high-sensitivity observations in order to extend the analysis to higher temperature systems and larger cluster-centric radii.

  4. Parameterized reduced order models from a single mesh using hyper-dual numbers

    NASA Astrophysics Data System (ADS)

    Brake, M. R. W.; Fike, J. A.; Topping, S. D.

    2016-06-01

    In order to assess the predicted performance of a manufactured system, analysts must consider random variations (both geometric and material) in the development of a model, instead of a single deterministic model of an idealized geometry with idealized material properties. The incorporation of random geometric variations, however, potentially could necessitate the development of thousands of nearly identical solid geometries that must be meshed and separately analyzed, which would require an impractical number of man-hours to complete. This research advances a recent approach to uncertainty quantification by developing parameterized reduced order models. These parameterizations are based upon Taylor series expansions of the system's matrices about the ideal geometry, and a component mode synthesis representation for each linear substructure is used to form an efficient basis with which to study the system. The numerical derivatives required for the Taylor series expansions are obtained via hyper-dual numbers, and are compared to parameterized models constructed with finite difference formulations. The advantage of using hyper-dual numbers is two-fold: accuracy of the derivatives to machine precision, and the need to only generate a single mesh of the system of interest. The theory is applied to a stepped beam system in order to demonstrate proof of concept. The results demonstrate that the hyper-dual number multivariate parameterization of geometric variations, which largely are neglected in the literature, are accurate for both sensitivity and optimization studies. As model and mesh generation can constitute the greatest expense of time in analyzing a system, the foundation to create a parameterized reduced order model based off of a single mesh is expected to reduce dramatically the necessary time to analyze multiple realizations of a component's possible geometry.

  5. A mesh-free mechanical model of the upper gastrointestinal system.

    PubMed

    Gastélum, Alfonso; Mosso, Jose L; Delmas, Patrice; Márquez, Jorge

    2008-01-01

    Realistic behavior in Computer Simulation of biological system (e.g. humans organs) is essential to 3D modeling in medicine. In order to improve realistic responses of 3D organ model it is essential to use mechanical models that can deal with multiple objects internal and external interactions in a reasonable time frame. We will apply the Smooth Particles Hydrodynamics (SPH) to model the esophagus and the stomach, thus constructing a physical background for interaction. We used a multilayer model of particles related to a single triangle mesh. Each particle layers represent distinct biological tissues of the esophagus and the stomach.

  6. A mechanical model for deformable and mesh pattern wheel of lunar roving vehicle

    NASA Astrophysics Data System (ADS)

    Liang, Zhongchao; Wang, Yongfu; Chen, Gang (Sheng); Gao, Haibo

    2015-12-01

    As an indispensable tool for astronauts on lunar surface, the lunar roving vehicle (LRV) is of great significance for manned lunar exploration. An LRV moves on loose and soft lunar soil, so the mechanical property of its wheels directly affects the mobility performance. The wheels used for LRV have deformable and mesh pattern, therefore, the existing mechanical theory of vehicle wheel cannot be used directly for analyzing the property of LRV wheels. In this paper, a new mechanical model for LRV wheel is proposed. At first, a mechanical model for a rigid normal wheel is presented, which involves in multiple conventional parameters such as vertical load, tangential traction force, lateral force, and slip ratio. Secondly, six equivalent coefficients are introduced to amend the rigid normal wheel model to fit for the wheels with deformable and mesh-pattern in LRV application. Thirdly, the values of the six equivalent coefficients are identified by using experimental data obtained in an LRV's single wheel testing. Finally, the identified mechanical model for LRV's wheel with deformable and mesh pattern are further verified and validated by using additional experimental results.

  7. On Modeling and Analysis of MIMO Wireless Mesh Networks with Triangular Overlay Topology

    DOE PAGES

    Cao, Zhanmao; Wu, Chase Q.; Zhang, Yuanping; Shiva, Sajjan G.; Gu, Yi

    2015-01-01

    Multiple input multiple output (MIMO) wireless mesh networks (WMNs) aim to provide the last-mile broadband wireless access to the Internet. Along with the algorithmic development for WMNs, some fundamental mathematical problems also emerge in various aspects such as routing, scheduling, and channel assignment, all of which require an effective mathematical model and rigorous analysis of network properties. In this paper, we propose to employ Cartesian product of graphs (CPG) as a multichannel modeling approach and explore a set of unique properties of triangular WMNs. In each layer of CPG with a single channel, we design a node coordinate scheme thatmore » retains the symmetric property of triangular meshes and develop a function for the assignment of node identity numbers based on their coordinates. We also derive a necessary-sufficient condition for interference-free links and combinatorial formulas to determine the number of the shortest paths for channel realization in triangular WMNs.« less

  8. Spatiotemporal processing of gated cardiac SPECT images using deformable mesh modeling

    SciTech Connect

    Brankov, Jovan G.; Yang Yongyi; Wernick, Miles N.

    2005-09-15

    In this paper we present a spatiotemporal processing approach, based on deformable mesh modeling, for noise reduction in gated cardiac single-photon emission computed tomography images. Because of the partial volume effect (PVE), clinical cardiac-gated perfusion images exhibit a phenomenon known as brightening--the myocardium appears to become brighter as the heart wall thickens. Although brightening is an artifact, it serves as an important diagnostic feature for assessment of wall thickening in clinical practice. Our proposed processing algorithm aims to preserve this important diagnostic feature while reducing the noise level in the images. The proposed algorithm is based on the use of a deformable mesh for modeling the cardiac motion in a gated cardiac sequence, based on which the images are processed by smoothing along space-time trajectories of object points while taking into account the PVE. Our experiments demonstrate that the proposed algorithm can yield significantly more-accurate results than several existing methods.

  9. OMEGA: The operational multiscale environment model with grid adaptivity

    SciTech Connect

    Bacon, D.P.

    1995-07-01

    This review talk describes the OMEGA code, used for weather simulation and the modeling of aerosol transport through the atmosphere. Omega employs a 3D mesh of wedge shaped elements (triangles when viewed from above) that adapt with time. Because wedges are laid out in layers of triangular elements, the scheme can utilize structured storage and differencing techniques along the elevation coordinate, and is thus a hybrid of structured and unstructured methods. The utility of adaptive gridding in this moded, near geographic features such as coastlines, where material properties change discontinuously, is illustrated. Temporal adaptivity was used additionally to track moving internal fronts, such as clouds of aerosol contaminants. The author also discusses limitations specific to this problem, including manipulation of huge data bases and fixed turn-around times. In practice, the latter requires a carefully tuned optimization between accuracy and computation speed.

  10. Method For Model-Reference Adaptive Control

    NASA Technical Reports Server (NTRS)

    Seraji, Homayoun

    1990-01-01

    Relatively simple method of model-reference adaptive control (MRAC) developed from two prior classes of MRAC techniques: signal-synthesis method and parameter-adaption method. Incorporated into unified theory, which yields more general adaptation scheme.

  11. Mesh-based enhancement schemes in diffuse optical tomography.

    PubMed

    Gu, Xuejun; Xu, Yong; Jiang, Huabei

    2003-05-01

    Two mesh-based methods including dual meshing and adaptive meshing are developed to improve the finite element-based reconstruction of both absorption and scattering images of heterogeneous turbid media. The idea of dual meshing scheme is to use a fine mesh for the solution of photon propagation and a coarse mesh for the inversion of optical property distributions. The adaptive meshing method is accomplished by the automatic mesh refinement in the region of heterogeneity during reconstruction. These schemes are validated using tissue-like phantom measurements. Our results demonstrate the capabilities of the dual meshing and adaptive meshing in both qualitative and quantitative improvement of optical image reconstruction.

  12. Adaptive mesh simulations of astrophysical detonations using the ASCI flash code

    NASA Astrophysics Data System (ADS)

    Fryxell, B.; Calder, A. C.; Dursi, L. J.; Lamb, D. Q.; MacNeice, P.; Olson, K.; Ricker, P.; Rosner, R.; Timmes, F. X.; Truran, J. W.; Tufo, H. M.; Zingale, M.

    2001-08-01

    The Flash code was developed at the University of Chicago as part of the Department of Energy's Accelerated Strategic Computing Initiative (ASCI). The code was designed specifically to simulate thermonuclear flashes in compact stars (white dwarfs and neutron stars). This paper will give a brief introduction to the astrophysics problems we wish to address, followed by a description of the current version of the Flash code. Finally, we discuss two simulations of astrophysical detonations that we have carried out with the code. The first is of a helium detonation in an X-ray burst. The other simulation models a carbon detonation in a Type Ia supernova explosion. .

  13. A low-numerical dissipation, patch-based adaptive-mesh-refinement method for large-eddy simulation of compressible flows

    NASA Astrophysics Data System (ADS)

    Pantano, C.; Deiterding, R.; Hill, D. J.; Pullin, D. I.

    2006-09-01

    This paper describes a hybrid finite-difference method for the large-eddy simulation of compressible flows with low-numerical dissipation and structured adaptive mesh refinement (SAMR). A conservative flux-based approach is described with an explicit centered scheme used in turbulent flow regions while a weighted essentially non-oscillatory (WENO) scheme is employed to capture shocks. Three-dimensional numerical simulations of a Richtmyer-Meshkov instability are presented.

  14. Merging for Particle-Mesh Complex Particle Kinetic Modeling of the Multiple Plasma Beams

    NASA Technical Reports Server (NTRS)

    Lipatov, Alexander S.

    2011-01-01

    We suggest a merging procedure for the Particle-Mesh Complex Particle Kinetic (PMCPK) method in case of inter-penetrating flow (multiple plasma beams). We examine the standard particle-in-cell (PIC) and the PMCPK methods in the case of particle acceleration by shock surfing for a wide range of the control numerical parameters. The plasma dynamics is described by a hybrid (particle-ion-fluid-electron) model. Note that one may need a mesh if modeling with the computation of an electromagnetic field. Our calculations use specified, time-independent electromagnetic fields for the shock, rather than self-consistently generated fields. While a particle-mesh method is a well-verified approach, the CPK method seems to be a good approach for multiscale modeling that includes multiple regions with various particle/fluid plasma behavior. However, the CPK method is still in need of a verification for studying the basic plasma phenomena: particle heating and acceleration by collisionless shocks, magnetic field reconnection, beam dynamics, etc.

  15. An automatic generation of non-uniform mesh for CFD analyses of image-based multiscale human airway models

    NASA Astrophysics Data System (ADS)

    Miyawaki, Shinjiro; Tawhai, Merryn H.; Hoffman, Eric A.; Lin, Ching-Long

    2014-11-01

    The authors have developed a method to automatically generate non-uniform CFD mesh for image-based human airway models. The sizes of generated tetrahedral elements vary in both radial and longitudinal directions to account for boundary layer and multiscale nature of pulmonary airflow. The proposed method takes advantage of our previously developed centerline-based geometry reconstruction method. In order to generate the mesh branch by branch in parallel, we used the open-source programs Gmsh and TetGen for surface and volume meshes, respectively. Both programs can specify element sizes by means of background mesh. The size of an arbitrary element in the domain is a function of wall distance, element size on the wall, and element size at the center of airway lumen. The element sizes on the wall are computed based on local flow rate and airway diameter. The total number of elements in the non-uniform mesh (10 M) was about half of that in the uniform mesh, although the computational time for the non-uniform mesh was about twice longer (170 min). The proposed method generates CFD meshes with fine elements near the wall and smooth variation of element size in longitudinal direction, which are required, e.g., for simulations with high flow rate. NIH Grants R01-HL094315, U01-HL114494, and S10-RR022421. Computer time provided by XSEDE.

  16. Using adaptive-mesh refinement in SCFT simulations of surfactant adsorption

    NASA Astrophysics Data System (ADS)

    Sides, Scott; Kumar, Rajeev; Jamroz, Ben; Crockett, Robert; Pletzer, Alex

    2013-03-01

    Adsorption of surfactants at interfaces is relevant to many applications such as detergents, adhesives, emulsions and ferrofluids. Atomistic simulations of interface adsorption are challenging due to the difficulty of modeling the wide range of length scales in these problems: the thin interface region in equilibrium with a large bulk region that serves as a reservoir for the adsorbed species. Self-consistent field theory (SCFT) has been extremely useful for studying the morphologies of dense block copolymer melts. Field-theoretic simulations such as these are able to access large length and time scales that are difficult or impossible for particle-based simulations such as molecular dynamics. However, even SCFT methods can be difficult to apply to systems in which small spatial regions might require finer resolution than most of the simulation grid (eg. interface adsorption and confinement). We will present results on interface adsorption simulations using PolySwift++, an object-oriented, polymer SCFT simulation code aided by the Tech-X Chompst library that enables via block-structured AMR calculations with PETSc.

  17. Conversion of Component-Based Point Definition to VSP Model and Higher Order Meshing

    NASA Technical Reports Server (NTRS)

    Ordaz, Irian

    2011-01-01

    Vehicle Sketch Pad (VSP) has become a powerful conceptual and parametric geometry tool with numerous export capabilities for third-party analysis codes as well as robust surface meshing capabilities for computational fluid dynamics (CFD) analysis. However, a capability gap currently exists for reconstructing a fully parametric VSP model of a geometry generated by third-party software. A computer code called GEO2VSP has been developed to close this gap and to allow the integration of VSP into a closed-loop geometry design process with other third-party design tools. Furthermore, the automated CFD surface meshing capability of VSP are demonstrated for component-based point definition geometries in a conceptual analysis and design framework.

  18. Characterization of the non-uniqueness of used nuclear fuel burnup signatures through a Mesh-Adaptive Direct Search

    NASA Astrophysics Data System (ADS)

    Skutnik, Steven E.; Davis, David R.

    2016-05-01

    The use of passive gamma and neutron signatures from fission indicators is a common means of estimating used fuel burnup, enrichment, and cooling time. However, while characteristic fission product signatures such as 134Cs, 137Cs, 154Eu, and others are generally reliable estimators for used fuel burnup within the context where the assembly initial enrichment and the discharge time are known, in the absence of initial enrichment and/or cooling time information (such as when applying NDA measurements in a safeguards/verification context), these fission product indicators no longer yield a unique solution for assembly enrichment, burnup, and cooling time after discharge. Through the use of a new Mesh-Adaptive Direct Search (MADS) algorithm, it is possible to directly probe the shape of this "degeneracy space" characteristic of individual nuclides (and combinations thereof), both as a function of constrained parameters (such as the assembly irradiation history) and unconstrained parameters (e.g., the cooling time before measurement and the measurement precision for particular indicator nuclides). In doing so, this affords the identification of potential means of narrowing the uncertainty space of potential assembly enrichment, burnup, and cooling time combinations, thereby bounding estimates of assembly plutonium content. In particular, combinations of gamma-emitting nuclides with distinct half-lives (e.g., 134Cs with 137Cs and 154Eu) in conjunction with gross neutron counting (via 244Cm) are able to reasonably constrain the degeneracy space of possible solutions to a space small enough to perform useful discrimination and verification of fuel assemblies based on their irradiation history.

  19. Moving Overlapping Grids with Adaptive Mesh Refinement for High-Speed Reactive and Non-reactive Flow

    SciTech Connect

    Henshaw, W D; Schwendeman, D W

    2005-08-30

    We consider the solution of the reactive and non-reactive Euler equations on two-dimensional domains that evolve in time. The domains are discretized using moving overlapping grids. In a typical grid construction, boundary-fitted grids are used to represent moving boundaries, and these grids overlap with stationary background Cartesian grids. Block-structured adaptive mesh refinement (AMR) is used to resolve fine-scale features in the flow such as shocks and detonations. Refinement grids are added to base-level grids according to an estimate of the error, and these refinement grids move with their corresponding base-level grids. The numerical approximation of the governing equations takes place in the parameter space of each component grid which is defined by a mapping from (fixed) parameter space to (moving) physical space. The mapped equations are solved numerically using a second-order extension of Godunov's method. The stiff source term in the reactive case is handled using a Runge-Kutta error-control scheme. We consider cases when the boundaries move according to a prescribed function of time and when the boundaries of embedded bodies move according to the surface stress exerted by the fluid. In the latter case, the Newton-Euler equations describe the motion of the center of mass of the each body and the rotation about it, and these equations are integrated numerically using a second-order predictor-corrector scheme. Numerical boundary conditions at slip walls are described, and numerical results are presented for both reactive and non-reactive flows in order to demonstrate the use and accuracy of the numerical approach.

  20. A two DOF simulation of meshing in spur gear sets with modelling of the effect of individual tooth mass

    NASA Astrophysics Data System (ADS)

    Komitopoulos, Nikolaos; Vakouftsis, Christos

    2014-10-01

    A Two-Degree Of Freedom analytical model of meshing in a single-stage spur gear set was developed and used for time-domain dynamic simulation. Apart from the time-varying tooth stiffness, the individual tooth mass, reduced to the meshing point, was also taken into consideration and modeled. The simulations that were performed by means of MatLab software using numerical methods highlight the effect of the individual tooth mass in the dynamic response of the gear stage.

  1. Parallel Adaptive Computation of Blood Flow in a 3D ``Whole'' Body Model

    NASA Astrophysics Data System (ADS)

    Zhou, M.; Figueroa, C. A.; Taylor, C. A.; Sahni, O.; Jansen, K. E.

    2008-11-01

    Accurate numerical simulations of vascular trauma require the consideration of a larger portion of the vasculature than previously considered, due to the systemic nature of the human body's response. A patient-specific 3D model composed of 78 connected arterial branches extending from the neck to the lower legs is constructed to effectively represent the entire body. Recently developed outflow boundary conditions that appropriately represent the downstream vasculature bed which is not included in the 3D computational domain are applied at 78 outlets. In this work, the pulsatile blood flow simulations are started on a fairly uniform, unstructured mesh that is subsequently adapted using a solution-based approach to efficiently resolve the flow features. The adapted mesh contains non-uniform, anisotropic elements resulting in resolution that conforms with the physical length scales present in the problem. The effects of the mesh resolution on the flow field are studied, specifically on relevant quantities of pressure, velocity and wall shear stress.

  2. Seamless atmospheric modeling across the hydrostatic-nonhydrostatic scales - preliminary results using an unstructured-Voronoi mesh for weather prediction.

    NASA Astrophysics Data System (ADS)

    Skamarock, W. C.

    2015-12-01

    One of the major problems in atmospheric model applications is the representation of deep convection within the models; explicit simulation of deep convection on fine meshes performs much better than sub-grid parameterized deep convection on coarse meshes. Unfortunately, the high cost of explicit convective simulation has meant it has only been used to down-scale global simulations in weather prediction and regional climate applications, typically using traditional one-way interactive nesting technology. We have been performing real-time weather forecast tests using a global non-hydrostatic atmospheric model (the Model for Prediction Across Scales, MPAS) that employs a variable-resolution unstructured Voronoi horizontal mesh (nominally hexagons) to span hydrostatic to nonhydrostatic scales. The smoothly varying Voronoi mesh eliminates many downscaling problems encountered using traditional one- or two-way grid nesting. Our test weather forecasts cover two periods - the 2015 Spring Forecast Experiment conducted at the NOAA Storm Prediction Center during the month of May in which we used a 50-3 km mesh, and the PECAN field program examining nocturnal convection over the US during the months of June and July in which we used a 15-3 km mesh. An important aspect of this modeling system is that the model physics be scale-aware, particularly the deep convection parameterization. These MPAS simulations employ the Grell-Freitas scale-aware convection scheme. Our test forecasts show that the scheme produces a gradual transition in the deep convection, from the deep unstable convection being handled entirely by the convection scheme on the coarse mesh regions (dx > 15 km), to the deep convection being almost entirely explicit on the 3 km NA region of the meshes. We will present results illustrating the performance of critical aspects of the MPAS model in these tests.

  3. Video object motion tracking: a structured versus unstructured mesh topology

    NASA Astrophysics Data System (ADS)

    Badawy, Wael

    2001-11-01

    This paper presents a novel concept for very low bit rate video codec. It uses a new hierarchical adaptive structured mesh topology. The proposed video codec can be used in wireless video applications. It uses structures to model the dynamics of the video object where the proposed the adaptive structure splitting significantly reduces the number of bits used for mesh description. Moreover, it reduces the latency of motion estimation and compensation operations. A comprehensive performance study is presented for the proposed mesh-based motion tracking and the commonly used techniques. It shows the superior of the proposed concept compare to the current MPEG techniques.

  4. Multi-dimensional Upwind Fluctuation Splitting Scheme with Mesh Adaption for Hypersonic Viscous Flow. Degree awarded by Virginia Polytechnic Inst. and State Univ., 9 Nov. 2001

    NASA Technical Reports Server (NTRS)

    Wood, William A., III

    2002-01-01

    A multi-dimensional upwind fluctuation splitting scheme is developed and implemented for two-dimensional and axisymmetric formulations of the Navier-Stokes equations on unstructured meshes. Key features of the scheme are the compact stencil, full upwinding, and non-linear discretization which allow for second-order accuracy with enforced positivity. Throughout, the fluctuation splitting scheme is compared to a current state-of-the-art finite volume approach, a second-order, dual mesh upwind flux difference splitting scheme (DMFDSFV), and is shown to produce more accurate results using fewer computer resources for a wide range of test cases. A Blasius flat plate viscous validation case reveals a more accurate upsilon-velocity profile for fluctuation splitting, and the reduced artificial dissipation production is shown relative to DMFDSFV. Remarkably, the fluctuation splitting scheme shows grid converged skin friction coefficients with only five points in the boundary layer for this case. The second half of the report develops a local, compact, anisotropic unstructured mesh adaptation scheme in conjunction with the multi-dimensional upwind solver, exhibiting a characteristic alignment behavior for scalar problems. The adaptation strategy is extended to the two-dimensional and axisymmetric Navier-Stokes equations of motion through the concept of fluctuation minimization.

  5. An Approach for Patient-Specific Multi-domain Vascular Mesh Generation Featuring Spatially Varying Wall Thickness Modeling

    PubMed Central

    Raut, Samarth S.; Liu, Peng; Finol, Ender A.

    2015-01-01

    In this work, we present a computationally efficient image-derived volume mesh generation approach for vasculatures that implements spatially varying patient-specific wall thickness with a novel inward extrusion of the wall surface mesh. Multi-domain vascular meshes with arbitrary numbers, locations, and patterns of both iliac bifurcations and thrombi can be obtained without the need to specify features or landmark points as input. In addition, the mesh output is coordinate-frame independent and independent of the image grid resolution with high dimensional accuracy and mesh quality, devoid of errors typically found in off-the-shelf image-based model generation workflows. The absence of deformable template models or Cartesian grid-based methods enables the present approach to be robust by handling aneurysmatic geometries with highly irregular shapes, arterial branches nearly parallel to the image plane, and variable wall thickness. The assessment of the methodology was based on i) estimation of the surface reconstruction accuracy, ii) validation of the output mesh using an aneurysm phantom, and iii) benchmarking the volume mesh quality against other frameworks. For the phantom image dataset (pixel size 0.105 mm; slice spacing 0.7 mm; mean wall thickness 1.401 ± 0.120 mm), the average wall thickness in the mesh was 1.459 ± 0.123 mm. The absolute error in average wall thickness was 0.060 ± 0.036 mm, or about 8.6% of the largest image grid spacing (0.7 mm) and 4.36% of the actual mean wall thickness. Mesh quality metrics and the ability to reproduce regional variations of wall thickness were found superior to similar alternative frameworks. PMID:25976018

  6. Dynamic modelling of flexibly supported gears using iterative convergence of tooth mesh stiffness

    NASA Astrophysics Data System (ADS)

    Xue, Song; Howard, Ian

    2016-12-01

    This paper presents a new gear dynamic model for flexibly supported gear sets aiming to improve the accuracy of gear fault diagnostic methods. In the model, the operating gear centre distance, which can affect the gear design parameters, like the gear mesh stiffness, has been selected as the iteration criteria because it will significantly deviate from its nominal value for a flexible supported gearset when it is operating. The FEA method was developed for calculation of the gear mesh stiffnesses with varying gear centre distance, which can then be incorporated by iteration into the gear dynamic model. The dynamic simulation results from previous models that neglect the operating gear centre distance change and those from the new model that incorporate the operating gear centre distance change were obtained by numerical integration of the differential equations of motion using the Newmark method. Some common diagnostic tools were utilized to investigate the difference and comparison of the fault diagnostic results between the two models. The results of this paper indicate that the major difference between the two diagnostic results for the cracked tooth exists in the extended duration of the crack event and in changes to the phase modulation of the coherent time synchronous averaged signal even though other notable differences from other diagnostic results can also be observed.

  7. Quadtree-adaptive tsunami modelling

    NASA Astrophysics Data System (ADS)

    Popinet, Stéphane

    2011-09-01

    The well-balanced, positivity-preserving scheme of Audusse et al. (SIAM J Sci Comput 25(6):2050-2065, 2004), for the solution of the Saint-Venant equations with wetting and drying, is generalised to an adaptive quadtree spatial discretisation. The scheme is validated using an analytical solution for the oscillation of a fluid in a parabolic container, as well as the classic Monai tsunami laboratory benchmark. An efficient database system able to dynamically reconstruct a multiscale bathymetry based on extremely large datasets is also described. This combination of methods is successfully applied to the adaptive modelling of the 2004 Indian ocean tsunami. Adaptivity is shown to significantly decrease the exponent of the power law describing computational cost as a function of spatial resolution. The new exponent is directly related to the fractal dimension of the geometrical structures characterising tsunami propagation. The implementation of the method as well as the data and scripts necessary to reproduce the results presented are freely available as part of the open-source Gerris Flow Solver framework.

  8. Free Tools and Strategies for the Generation of 3D Finite Element Meshes: Modeling of the Cardiac Structures

    PubMed Central

    Pavarino, E.; Neves, L. A.; Machado, J. M.; de Godoy, M. F.; Shiyou, Y.; Momente, J. C.; Zafalon, G. F. D.; Pinto, A. R.; Valêncio, C. R.

    2013-01-01

    The Finite Element Method is a well-known technique, being extensively applied in different areas. Studies using the Finite Element Method (FEM) are targeted to improve cardiac ablation procedures. For such simulations, the finite element meshes should consider the size and histological features of the target structures. However, it is possible to verify that some methods or tools used to generate meshes of human body structures are still limited, due to nondetailed models, nontrivial preprocessing, or mainly limitation in the use condition. In this paper, alternatives are demonstrated to solid modeling and automatic generation of highly refined tetrahedral meshes, with quality compatible with other studies focused on mesh generation. The innovations presented here are strategies to integrate Open Source Software (OSS). The chosen techniques and strategies are presented and discussed, considering cardiac structures as a first application context. PMID:23762031

  9. Free Tools and Strategies for the Generation of 3D Finite Element Meshes: Modeling of the Cardiac Structures.

    PubMed

    Pavarino, E; Neves, L A; Machado, J M; de Godoy, M F; Shiyou, Y; Momente, J C; Zafalon, G F D; Pinto, A R; Valêncio, C R

    2013-01-01

    The Finite Element Method is a well-known technique, being extensively applied in different areas. Studies using the Finite Element Method (FEM) are targeted to improve cardiac ablation procedures. For such simulations, the finite element meshes should consider the size and histological features of the target structures. However, it is possible to verify that some methods or tools used to generate meshes of human body structures are still limited, due to nondetailed models, nontrivial preprocessing, or mainly limitation in the use condition. In this paper, alternatives are demonstrated to solid modeling and automatic generation of highly refined tetrahedral meshes, with quality compatible with other studies focused on mesh generation. The innovations presented here are strategies to integrate Open Source Software (OSS). The chosen techniques and strategies are presented and discussed, considering cardiac structures as a first application context. PMID:23762031

  10. Cosmology on a Mesh

    NASA Astrophysics Data System (ADS)

    Gill, Stuart P. D.; Knebe, Alexander; Gibson, Brad K.; Flynn, Chris; Ibata, Rodrigo A.; Lewis, Geraint F.

    2003-04-01

    An adaptive multi grid approach to simulating the formation of structure from collisionless dark matter is described. MLAPM (Multi-Level Adaptive Particle Mesh) is one of the most efficient serial codes available on the cosmological "market" today. As part of Swinburne University's role in the development of the Square Kilometer Array, we are implementing hydrodynamics, feedback, and radiative transfer within the MLAPM adaptive mesh, in order to simulate baryonic processes relevant to the interstellar and intergalactic media at high redshift. We will outline our progress to date in applying the existing MLAPM to a study of the decay of satellite galaxies within massive host potentials.

  11. Integration of Geographic Information System frameworks into domain discretisation and meshing processes for geophysical models

    NASA Astrophysics Data System (ADS)

    Candy, A. S.; Avdis, A.; Hill, J.; Gorman, G. J.; Piggott, M. D.

    2014-09-01

    Computational simulations of physical phenomena rely on an accurate discretisation of the model domain. Numerical models have increased in sophistication to a level where it is possible to support terrain-following boundaries that conform accurately to real physical interfaces, and resolve a multiscale of spatial resolutions. Whilst simulation codes are maturing in this area, pre-processing tools have not developed significantly enough to competently initialise these problems in a rigorous, efficient and recomputable manner. In the relatively disjoint field of Geographic Information Systems (GIS) however, techniques and tools for mapping and analysis of geographical data have matured significantly. If data provenance and recomputability are to be achieved, the manipulation and agglomeration of data in the pre-processing of numerical simulation initialisation data for geophysical models should be integrated into GIS. A new approach to the discretisation of geophysical domains is presented, and introduced with a verified implementation. This brings together the technologies of geospatial analysis, meshing and numerical simulation models. This platform enables us to combine and build up features, quickly drafting and updating mesh descriptions with the rigour that established GIS tools provide. This, combined with the systematic workflow, supports a strong provenance for model initialisation and encourages the convergence of standards.

  12. The whole mesh deformation model: a fast image segmentation method suitable for effective parallelization

    NASA Astrophysics Data System (ADS)

    Lenkiewicz, Przemyslaw; Pereira, Manuela; Freire, Mário M.; Fernandes, José

    2013-12-01

    In this article, we propose a novel image segmentation method called the whole mesh deformation (WMD) model, which aims at addressing the problems of modern medical imaging. Such problems have raised from the combination of several factors: (1) significant growth of medical image volumes sizes due to increasing capabilities of medical acquisition devices; (2) the will to increase the complexity of image processing algorithms in order to explore new functionality; (3) change in processor development and turn towards multi processing units instead of growing bus speeds and the number of operations per second of a single processing unit. Our solution is based on the concept of deformable models and is characterized by a very effective and precise segmentation capability. The proposed WMD model uses a volumetric mesh instead of a contour or a surface to represent the segmented shapes of interest, which allows exploiting more information in the image and obtaining results in shorter times, independently of image contents. The model also offers a good ability for topology changes and allows effective parallelization of workflow, which makes it a very good choice for large datasets. We present a precise model description, followed by experiments on artificial images and real medical data.

  13. An Interpreted Language and System for the Visualization of Unstructured Meshes

    NASA Technical Reports Server (NTRS)

    Moran, Patrick J.; Gerald-Yamasaki, Michael (Technical Monitor)

    1998-01-01

    We present an interpreted language and system supporting the visualization of unstructured meshes and the manipulation of shapes defined in terms of mesh subsets. The language features primitives inspired by geometric modeling, mathematical morphology and algebraic topology. The adaptation of the topology ideas to an interpreted environment, along with support for programming constructs such, as user function definition, provide a flexible system for analyzing a mesh and for calculating with shapes defined in terms of the mesh. We present results demonstrating some of the capabilities of the language, based on an implementation called the Shape Calculator, for tetrahedral meshes in R^3.

  14. TRANSL8GDECIM8. Data Translation and Filtering for Large 3D Triangle Mesh Models

    SciTech Connect

    Janucik, F.X.; Ross, D.M.

    1993-09-01

    The TRANSL8GDECIM8 system consists of two programs: TRANSL8G and DECIM8. The TRANSL8G program facilitates the interchange, topology generation, error checking, and enhancement of large 3D triangle meshes. Such data is frequently used to represent conceptual designs, scientific visualization volume modeling, or discrete sample data. Interchange is provided between several popular commercial and defacto standard geometry formats. Error checking is included to identify duplicate and zero area triangles. Model enhancement features include common vertex joining, consistent triangle vertex ordering, vertex normal vector averaging, and triangle strip generation. Many of the traditional O(n squared) algorithms required to provide the above features have been recast and are O(n) which support large mesh sizes. The DECIM8 program is based on a data filter algorithm that significantly reduces the number of triangles required to represent three dimensional (3D) models of geometry, scientific visualization results, and discretely sampled data. The algorithm uses a combined incremental and iterative strategy. It eliminates local patches of triangles whose geometries are not appreciably different and replaces them with fewer larger triangles. The algorithm has been used to reduce triangles in large conceptual design models to facilitate virtual walk throughs and to enable interactive viewing of large 3D iso-surface volume visualizations.

  15. Generation of the 30 M-Mesh Global Digital Surface Model by Alos Prism

    NASA Astrophysics Data System (ADS)

    Tadono, T.; Nagai, H.; Ishida, H.; Oda, F.; Naito, S.; Minakawa, K.; Iwamoto, H.

    2016-06-01

    Topographical information is fundamental to many geo-spatial related information and applications on Earth. Remote sensing satellites have the advantage in such fields because they are capable of global observation and repeatedly. Several satellite-based digital elevation datasets were provided to examine global terrains with medium resolutions e.g. the Shuttle Radar Topography Mission (SRTM), the global digital elevation model by the Advanced Spaceborne Thermal Emission and Reflection Radiometer (ASTER GDEM). A new global digital surface model (DSM) dataset using the archived data of the Panchromatic Remote-sensing Instrument for Stereo Mapping (PRISM) onboard the Advanced Land Observing Satellite (ALOS, nicknamed "Daichi") has been completed on March 2016 by Japan Aerospace Exploration Agency (JAXA) collaborating with NTT DATA Corp. and Remote Sensing Technology Center, Japan. This project is called "ALOS World 3D" (AW3D), and its dataset consists of the global DSM dataset with 0.15 arcsec. pixel spacing (approx. 5 m mesh) and ortho-rectified PRISM image with 2.5 m resolution. JAXA is also processing the global DSM with 1 arcsec. spacing (approx. 30 m mesh) based on the AW3D DSM dataset, and partially releasing it free of charge, which calls "ALOS World 3D 30 m mesh" (AW3D30). The global AW3D30 dataset will be released on May 2016. This paper describes the processing status, a preliminary validation result of the AW3D30 DSM dataset, and its public release status. As a summary of the preliminary validation of AW3D30 DSM, 4.40 m (RMSE) of the height accuracy of the dataset was confirmed using 5,121 independent check points distributed in the world.

  16. Creating geometry and mesh models for nuclear reactor core geometries using a lattice hierarchy-based approach.

    SciTech Connect

    Tautges, T. J.; Jain, R.; Mathematics and Computer Science

    2010-01-01

    Nuclear reactor cores are constructed as rectangular or hexagonal lattices of assemblies, where each assembly is itself a lattice of fuel, control, and instrumentation pins, surrounded by water or other material that moderates neutron energy and carries away fission heat. We describe a system for generating geometry and mesh for these systems. The method takes advantage of information about repeated structures in both assembly and core lattices to simplify the overall process. The system allows targeted user intervention midway through the process, enabling modification and manipulation of models for meshing or other purposes. Starting from text files describing assemblies and core, the tool can generate geometry and mesh for these models automatically as well. Simple and complex examples of tool operation are given, with the latter demonstrating generation of meshes with 12 million hexahedral elements in less than 30 minutes on a desktop workstation, using about 4 GB of memory. The tool is released as open source software as part of the MeshKit mesh generation library.

  17. Flowfield-Dependent Variation (FDV) method for compressible, incompressible, viscous, and inviscid flow interactions with FDV adaptive mesh refinements and parallel processing

    NASA Astrophysics Data System (ADS)

    Heard, Gary Wayne

    A new approach to solution-adaptive grid refinement using the finite element method and Flowfield-Dependent Variation (FDV) theory applied to the Navier-Stokes system of equations is discussed. Flowfield-Dependent Variation (FDV) parameters are introduced into a modified Taylor series expansion of the conservation variables, with the Navier-Stokes system of equations substituted into the Taylor series. The FDV parameters are calculated from the current Fowfield conditions, and automatically adjust the resulting equations from elliptic to parabolic to hyperbolic in type to assure solution accuracy in evolving fluid flowfields that may consist of interactions between regions of compressible and incompressible flow, viscous and inviscid flow, and turbulent and laminar flow. The system of equations is solved using an element-by-element iterative GMRES solver with the elements grouped together to allow the element operations to be performed in parallel. The FDV parameters play many roles in the numerical scheme. One of these roles is to control formations of shock wave discontinuities in high speeds and pressure oscillations in low speeds. To demonstrate these abilities, various example problems are shown, including supersonic flows over a flat plate and a compression corner, and flows involving triple shock waves generated on fin geometries for high speed compressible flows. Furthermore, analysis of low speed incompressible flows is presented in the form of flow in a lid-driven cavity at various Reynolds numbers. Another role of the FDV parameters is their use as error indicators for a solution-adaptive mesh. The finite element grid is refined as dictated by the magnitude of the FDV parameters. Examples of adaptive grids generated using the FDV parameters as error indicators are presented for supersonic flow over flat plate/compression ramp combinations in both two and three dimensions. Grids refined using the FDV parameters as error indicators are comparable to ones

  18. Simple method for model reference adaptive control

    NASA Technical Reports Server (NTRS)

    Seraji, H.

    1989-01-01

    A simple method is presented for combined signal synthesis and parameter adaptation within the framework of model reference adaptive control theory. The results are obtained using a simple derivation based on an improved Liapunov function.

  19. Documentation for MeshKit - Reactor Geometry (&mesh) Generator

    SciTech Connect

    Jain, Rajeev; Mahadevan, Vijay

    2015-09-30

    This report gives documentation for using MeshKit’s Reactor Geometry (and mesh) Generator (RGG) GUI and also briefly documents other algorithms and tools available in MeshKit. RGG is a program designed to aid in modeling and meshing of complex/large hexagonal and rectilinear reactor cores. RGG uses Argonne’s SIGMA interfaces, Qt and VTK to produce an intuitive user interface. By integrating a 3D view of the reactor with the meshing tools and combining them into one user interface, RGG streamlines the task of preparing a simulation mesh and enables real-time feedback that reduces accidental scripting mistakes that could waste hours of meshing. RGG interfaces with MeshKit tools to consolidate the meshing process, meaning that going from model to mesh is as easy as a button click. This report is designed to explain RGG v 2.0 interface and provide users with the knowledge and skills to pilot RGG successfully. Brief documentation of MeshKit source code, tools and other algorithms available are also presented for developers to extend and add new algorithms to MeshKit. RGG tools work in serial and parallel and have been used to model complex reactor core models consisting of conical pins, load pads, several thousands of axially varying material properties of instrumentation pins and other interstices meshes.

  20. 3D ADAPTIVE MESH REFINEMENT SIMULATIONS OF THE GAS CLOUD G2 BORN WITHIN THE DISKS OF YOUNG STARS IN THE GALACTIC CENTER

    SciTech Connect

    Schartmann, M.; Ballone, A.; Burkert, A.; Gillessen, S.; Genzel, R.; Pfuhl, O.; Eisenhauer, F.; Plewa, P. M.; Ott, T.; George, E. M.; Habibi, M.

    2015-10-01

    The dusty, ionized gas cloud G2 is currently passing the massive black hole in the Galactic Center at a distance of roughly 2400 Schwarzschild radii. We explore the possibility of a starting point of the cloud within the disks of young stars. We make use of the large amount of new observations in order to put constraints on G2's origin. Interpreting the observations as a diffuse cloud of gas, we employ three-dimensional hydrodynamical adaptive mesh refinement (AMR) simulations with the PLUTO code and do a detailed comparison with observational data. The simulations presented in this work update our previously obtained results in multiple ways: (1) high resolution three-dimensional hydrodynamical AMR simulations are used, (2) the cloud follows the updated orbit based on the Brackett-γ data, (3) a detailed comparison to the observed high-quality position–velocity (PV) diagrams and the evolution of the total Brackett-γ luminosity is done. We concentrate on two unsolved problems of the diffuse cloud scenario: the unphysical formation epoch only shortly before the first detection and the too steep Brackett-γ light curve obtained in simulations, whereas the observations indicate a constant Brackett-γ luminosity between 2004 and 2013. For a given atmosphere and cloud mass, we find a consistent model that can explain both, the observed Brackett-γ light curve and the PV diagrams of all epochs. Assuming initial pressure equilibrium with the atmosphere, this can be reached for a starting date earlier than roughly 1900, which is close to apo-center and well within the disks of young stars.

  1. Insertion of 3-D-primitives in mesh-based representations: towards compact models preserving the details.

    PubMed

    Lafarge, Florent; Keriven, Renaud; Brédif, Mathieu

    2010-07-01

    We propose an original hybrid modeling process of urban scenes that represents 3-D models as a combination of mesh-based surfaces and geometric 3-D-primitives. Meshes describe details such as ornaments and statues, whereas 3-D-primitives code for regular shapes such as walls and columns. Starting from an 3-D-surface obtained by multiview stereo techniques, these primitives are inserted into the surface after being detected. This strategy allows the introduction of semantic knowledge, the simplification of the modeling, and even correction of errors generated by the acquisition process. We design a hierarchical approach exploring different scales of an observed scene. Each level consists first in segmenting the surface using a multilabel energy model optimized by -expansion and then in fitting 3-D-primitives such as planes, cylinders or tori on the obtained partition where relevant. Experiments on real meshes, depth maps and synthetic surfaces show good potential for the proposed approach.

  2. An Engineering Solution for Solving Mesh Size Effects in the Simulation of Delamination with Cohesive Zone Models

    NASA Technical Reports Server (NTRS)

    Turon, A.; Davila, C. G.; Camanho, P. P.; Costa, J.

    2007-01-01

    This paper presents a methodology to determine the parameters to be used in the constitutive equations of Cohesive Zone Models employed in the simulation of delamination in composite materials by means of decohesion finite elements. A closed-form expression is developed to define the stiffness of the cohesive layer. A novel procedure that allows the use of coarser meshes of decohesion elements in large-scale computations is also proposed. The procedure ensures that the energy dissipated by the fracture process is computed correctly. It is shown that coarse-meshed models defined using the approach proposed here yield the same results as the models with finer meshes normally used for the simulation of fracture processes.

  3. Linking Local- and Aquifer-scale Groundwater Models Using Telescopic Mesh Refinement

    NASA Astrophysics Data System (ADS)

    Willson, C. S.; Rahman, A.; Milner, R.; Hanson, B.

    2001-12-01

    Groundwater modeling is a useful tool for evaluating and predicting whether a particular aquifer system is capable of supporting large volumes of groundwater withdrawals over long periods of time and what effect, if any, such activity will have on specific community water supplies, local agricultural and industrial needs, and the regional aquifer or aquifer system as a whole. High-resolution or refined models are necessary for quantification of local processes and phenomena. However, stand-alone refined models do not provide information on regional flow dynamics. Telescopic mesh refinement (TMR) is one technique that can be used to develop high-resolution groundwater models within larger-scale aquifer models. The objective of this study is to utilize TMR to develop parish-level high-resolution models within an existing U.S. Geological Survey groundwater model of the Chicot Aquifer in Southwestern Louisiana. These parish-level models will be used to identify and assess critical groundwater areas. The regional aquifer is used to identify possible long-term problems such as changes in recharge or salt-water encroachment. Issues that must be addressed when linking local and regional models include: incorporation of aquifer stratigraphy, recharge rates, incorporation of individual wells, boundary conditions, and model calibration.

  4. Performance of a Block Structured, Hierarchical Adaptive MeshRefinement Code on the 64k Node IBM BlueGene/L Computer

    SciTech Connect

    Greenough, Jeffrey A.; de Supinski, Bronis R.; Yates, Robert K.; Rendleman, Charles A.; Skinner, David; Beckner, Vince; Lijewski, Mike; Bell, John; Sexton, James C.

    2005-04-25

    We describe the performance of the block-structured Adaptive Mesh Refinement (AMR) code Raptor on the 32k node IBM BlueGene/L computer. This machine represents a significant step forward towards petascale computing. As such, it presents Raptor with many challenges for utilizing the hardware efficiently. In terms of performance, Raptor shows excellent weak and strong scaling when running in single level mode (no adaptivity). Hardware performance monitors show Raptor achieves an aggregate performance of 3:0 Tflops in the main integration kernel on the 32k system. Results from preliminary AMR runs on a prototype astrophysical problem demonstrate the efficiency of the current software when running at large scale. The BG/L system is enabling a physics problem to be considered that represents a factor of 64 increase in overall size compared to the largest ones of this type computed to date. Finally, we provide a description of the development work currently underway to address our inefficiencies.

  5. Generating meshes for finite-difference analysis using a solid modeler

    NASA Astrophysics Data System (ADS)

    Laguna, G. W.; White, W. T.; Cabral, B. K.

    1987-09-01

    One tool used by the Engineering Research Division of LLNL to help analyze the behavior of electronic systems in hostile environments is 3D finite-difference time-domain (FDTD) computation. FDTD codes solve Maxwell's equations,the differential equations of electromagnetism, on a uniform lattice of points. It is this uniform lattice, or mesh, that distinguishes finite-difference codes from other codes. The simple mesh makes FDTD codes computationally more efficient than other codes, which enables them to run larger problems and to run faster (up to thirty times faster than finite-element codes, for example). Therefore, within the Engineering Department at LLNL, Electronics Engineering (EE) has initiated a project to develop a mesh generator that will provide meshes suitable for FDTD analysis. This report describes the results of the first year of EE's FDTD Mesh Generation Project. During this year a preliminary version of an automated mesh generator was built and used to create a mesh of an object of interest to the High-Power Microwave Program, namely an electrically detonatable land mine. The code was verified by meshing basic solids such as spheres and cylinders. Because of the design of the code, there is no software limitation to the size of meshes that can be accommodated. The algorithm with a mesh space of approximately 500,000 cells has been demonstrated. The mesh generator can detect certain objects with walls that are thinner than the width of a cell. The code has internal graphics for viewing objects as they appear prior to being converted to a finite-difference representation. Additionally, via data files, the code is coupled to two external graphics packages for visually checking the meshes, namely TAURUS on the Cray and a new code, IMAGE, on the Silicon Graphics IRIS workstation.

  6. Large eddy simulation on unstructured meshes using Lagrangian subgrid-scale model for complex turbulent flows

    NASA Astrophysics Data System (ADS)

    Tran, Steven; Sahni, Onkar; RPI Team

    2015-11-01

    Large eddy simulations (LES) provide high fidelity in which the large-scale turbulent structures are resolved while their interactions with the subgrid scales are modeled. In a Smagorinsky-based LES approach, the unresolved stresses are modeled using an eddy viscosity which in-turn involves a model parameter that is unknown a priori and varies in space and time for complex problems. Therefore, dynamic procedures are employed to determine this parameter where averaging is applied to make the procedure robust. When applicable, spatial averaging is applied across homogeneous directions. However, for complex flows the Lagrangian subgrid-scale model employing averaging over pathlines becomes attractive. In contrast to the dynamic Smagorinsky model, variational multiscale (VMS) models have also been developed for LES. In this study, we investigate dynamic mixed models for LES based on the combinations of the Lagrangian subgrid-scale model and the residual-based VMS (RBVMS) approach to study complex, inhomogeneous turbulent flows on unstructured meshes. Applications range from flow through a channel to flow over an airfoil at a moderate angle of attack. Experimental and DNS data are used to make comparisons.

  7. EM modelling of arbitrary shaped anisotropic dielectric objects using an efficient 3D leapfrog scheme on unstructured meshes

    NASA Astrophysics Data System (ADS)

    Gansen, A.; Hachemi, M. El; Belouettar, S.; Hassan, O.; Morgan, K.

    2016-09-01

    The standard Yee algorithm is widely used in computational electromagnetics because of its simplicity and divergence free nature. A generalization of the classical Yee scheme to 3D unstructured meshes is adopted, based on the use of a Delaunay primal mesh and its high quality Voronoi dual. This allows the problem of accuracy losses, which are normally associated with the use of the standard Yee scheme and a staircased representation of curved material interfaces, to be circumvented. The 3D dual mesh leapfrog-scheme which is presented has the ability to model both electric and magnetic anisotropic lossy materials. This approach enables the modelling of problems, of current practical interest, involving structured composites and metamaterials.

  8. Solution of Poisson's equation in a volume conductor using resistor mesh models: Application to event related potential imaging

    NASA Astrophysics Data System (ADS)

    Franceries, X.; Doyon, B.; Chauveau, N.; Rigaud, B.; Celsis, P.; Morucci, J.-P.

    2003-03-01

    In electroencephalography (EEG) and event related potentials (ERP), localizing the electrical sources at the origin of scalp potentials (inverse problem) imposes, in a first step, the computation of scalp potential distribution from the simulation of sources (forward problem). This article proposes an alternative method for mimicing both the electrical and geometrical properties of the head, including brain, skull, and scalp tissue with resistors. Two resistor mesh models have been designed to reproduce the three-sphere reference model (analytical model). The first one (spherical resistor mesh) closely mimics the geometrical and electrical properties of the analytical model. The second one (cubic resistor mesh) is designed to conveniently handle anatomical data from magnetic resonance imaging. Both models have been validated, in reference to the analytical solution calculated on the three-sphere model, by computing the magnification factor and the relative difference measure. Results suggest that the mesh models can be used as robust and user-friendly simulation or exploration tools in EEG/ERP.

  9. Towards Spherical Mesh Gravity and Magnetic Modelling in an HPC Environment

    NASA Astrophysics Data System (ADS)

    Lane, R. J.; Brodie, R. C.; de Hoog, M.; Navin, J.; Chen, C.; Du, J.; Liang, Q.; Wang, H.; Li, Y.

    2013-12-01

    Staff at Geoscience Australia (GA), Australia's Commonwealth Government geoscientific agency, have routinely performed 3D gravity and magnetic modelling as part of geoscience investigations. For this work, we have used software programs that have been based on a Cartesian mesh spatial framework. These programs have come as executable files that were compiled to operate in a Windows environment on single core personal computers (PCs). To cope with models with higher resolution and larger extents, we developed an approach whereby a large problem could be broken down into a number of overlapping smaller models (';tiles') that could be modelled separately, with the results combined back into a single output model. To speed up the processing, we established a Condor distributed network from existing desktop PCs. A number of factors have caused us to consider a new approach to this modelling work. The drivers for change include; 1) models with very large lateral extents where the effects of Earth curvature are a consideration, 2) a desire to ensure that the modelling of separate regions is carried out in a consistent and managed fashion, 3) migration of scientific computing to off-site High Performance Computing (HPC) facilities, and 4) development of virtual globe environments for integration and visualization of 3D spatial objects. Some of the more surprising realizations to emerge have been that; 1) there aren't any readily available commercial software packages for modelling gravity and magnetic data in a spherical mesh spatial framework, 2) there are many different types of HPC environments, 3) no two HPC environments are the same, and 4) the most common virtual globe environment (i.e., Google Earth) doesn't allow spatial objects to be displayed below the topographic/bathymetric surface. Our response has been to do the following; 1) form a collaborative partnership with researchers at the Colorado School of Mines (CSM) and the China University of Geosciences (CUG

  10. Multigrid solution of compressible turbulent flow on unstructured meshes using a two-equation model

    NASA Technical Reports Server (NTRS)

    Mavriplis, D. J.; Martinelli, L.

    1991-01-01

    The system of equations consisting of the full Navier-Stokes equations and two turbulence equations was solved for in the steady state using a multigrid strategy on unstructured meshes. The flow equations and turbulence equations are solved in a loosely coupled manner. The flow equations are advanced in time using a multistage Runge-Kutta time stepping scheme with a stability bound local time step, while the turbulence equations are advanced in a point-implicit scheme with a time step which guarantees stability and positively. Low Reynolds number modifications to the original two equation model are incorporated in a manner which results in well behaved equations for arbitrarily small wall distances. A variety of aerodynamic flows are solved for, initializing all quantities with uniform freestream values, and resulting in rapid and uniform convergence rates for the flow and turbulence equations.

  11. Investigating the relationship between the mantle transition zone and the fate of subducted slabs: an adaptative-mesh numerical approach

    NASA Astrophysics Data System (ADS)

    Garel, F.; Davies, R.; Goes, S. D.; Davies, J.; Lithgow-Bertelloni, C. R.; Stixrude, L. P.

    2012-12-01

    Seismic observations show a wide range of slab morphologies within the mantle transition zone. This zone is likely to have been critical in Earth's thermal and chemical evolution, acting as a 'valve' that controls material transfer between the upper and lower mantle. However, the interaction between slabs and this complex region remains poorly understood. The complexity arises from non-linear and multi-scale interactions between several aspects of the mantle system, including mineral phase changes and material rheology. In this study, we will utilize new, multi-scale geodynamic models to determine what controls the seismically observed variability in slab behavior within the mantle transition zone and, hence, the down-going branch of the mantle 'valve'. Our models incorporate the newest mineral physics and theoretical constraints on density, phase proportions and rheology. In addition we exploit novel and unique adaptive grid methodologies to provide the resolution necessary to capture rapid changes in material properties in and around the transition zone. Our early results, which will be presented, illustrate the advantages of the new modelling technique for studying subduction including the effects of changes in material properties and mineral phases.

  12. An Adaptive Critic Approach to Reference Model Adaptation

    NASA Technical Reports Server (NTRS)

    Krishnakumar, K.; Limes, G.; Gundy-Burlet, K.; Bryant, D.

    2003-01-01

    Neural networks have been successfully used for implementing control architectures for different applications. In this work, we examine a neural network augmented adaptive critic as a Level 2 intelligent controller for a C- 17 aircraft. This intelligent control architecture utilizes an adaptive critic to tune the parameters of a reference model, which is then used to define the angular rate command for a Level 1 intelligent controller. The present architecture is implemented on a high-fidelity non-linear model of a C-17 aircraft. The goal of this research is to improve the performance of the C-17 under degraded conditions such as control failures and battle damage. Pilot ratings using a motion based simulation facility are included in this paper. The benefits of using an adaptive critic are documented using time response comparisons for severe damage situations.

  13. Adaptation and optimization of basic operations for an unstructured mesh CFD algorithm for computation on massively parallel accelerators

    NASA Astrophysics Data System (ADS)

    Bogdanov, P. B.; Gorobets, A. V.; Sukov, S. A.

    2013-08-01

    The design of efficient algorithms for large-scale gas dynamics computations with hybrid (heterogeneous) computing systems whose high performance relies on massively parallel accelerators is addressed. A high-order accurate finite volume algorithm with polynomial reconstruction on unstructured hybrid meshes is used to compute compressible gas flows in domains of complex geometry. The basic operations of the algorithm are implemented in detail for massively parallel accelerators, including AMD and NVIDIA graphics processing units (GPUs). Major optimization approaches and a computation transfer technique are covered. The underlying programming tool is the Open Computing Language (OpenCL) standard, which performs on accelerators of various architectures, both existing and emerging.

  14. The Subelement Sweeping method for radiation transport modeling on polygonal meshes

    NASA Astrophysics Data System (ADS)

    Gleicher, Frederick

    A new memory efficient way of obtaining numerical solutions to the radiation transport equation on random polygon meshes is developed and analyzed. This method is called the Subelement Sweeping method, and is applied to the discrete ordinates form of the 1-D and 2-D mono-energetic transport equations. In the Subelement Sweeping method, the coarse mesh is first subdivided into triangular subelements, and the subelement mesh is then swept to obtain subelement angular flux solutions. As the subelements are swept the scalar flux for the scattering source is interpolated from the coarse mesh. Numerical solutions on the subelements are obtained with the linear discontinuous finite element method, and the resulting angular fluxes are projected back onto the coarse mesh and accumulated into new scalar flux values. The old subelement information is then thrown away allowing the method to be memory efficient. Formulas for the interpolation from the coarse mesh fluxes to the subelement mesh fluxes and for the projection from the subelement fluxes to the coarse mesh fluxes are derived by minimizing the squared error norm between coarse mesh and subelement scalar fluxes. Asymptotic analysis is carried out in 1-D, and the Subelement Sweeping method is shown to yield a valid diffusion discretization on the coarse mesh. Asymptotic analysis is also carried out in 2-D, and the Subelement Sweeping method is shown to have the diffusion limit for orthogonal quadrilateral meshes with some simplifying assumptions. The method was implemented for the 1-D slab geometry, and numerical experiments in 1-D show that the Subelement Sweeping method is at least third order accurate and has the diffusion limit. The method was also implemented in the Capsaicin framework within the Anaheim package for 2-D polygonal meshes at Los Alamos National Laboratory. Numerical experiments in 2-D show that the Subelement Sweeping method is at least second order accurate, and suggest strongly that the diffusion

  15. Effect of mesh element type of Finite Element Model (FEM) on unimorph cantilever vibration

    NASA Astrophysics Data System (ADS)

    Aris, H.; Fitrio, D.; Singh, J.

    2013-12-01

    This paper discusses mesh refinement methods used to perform Finite Element Analysis (FEA) for vibration based MEMS Energy Harvester. The three types of meshing elements, 1) Linear Hexahedral, 2) Parabolic Hexahedral and 3) Parabolic Tetrahedral, were used in this study. The meshing methods are used to ensure accurate simulation result particularly in stress, and strain analysis obtained, since they are determined by the displacement of each node in the physical structure. The study of the accuracy of an mesh analysis is also known as mesh convergence study which element aspect ratios must be refined consistently. In this paper the dimensions of each elements were also varied in order to investigate the significant of this methods in achieving better ratios of simulation to theoretical results.

  16. Electrical properties analysis of wire mesh for mesh reflectors

    NASA Astrophysics Data System (ADS)

    Li, Tuanjie; Su, Jinguo

    2011-07-01

    The knitted wire mesh is often used as a reflecting surface of large deployable antennas. Different weaves have different electrical properties and it is very important and necessary to research the method of analyzing the electrical properties of wire mesh. This paper has developed an effective method to address the problem. First, a periodic unit of wire model in actual complex mesh structure is converted into an equivalent strip model according to the correlation between strip width and wire diameter. The equivalent regular wire-grid unit of the strip model is derived from the equivalences between the wire-grid unit and the strip model in near and far fields. Then the regular wire-grid units are arranged to form an equivalent mesh surface with the corresponding weave pattern, so the electrical properties of the mesh surface are equivalent to those of the actual mesh structure. Through analyzing electrical properties of the mesh surface including amplitude difference, phase difference and reflecting loss, we can find out the electrical properties of the actual knitted wire mesh. The single satin mesh and a two-bar tricot mesh are used as examples to illustrate the method of electrical properties analysis of wire mesh.

  17. Unstructured-mesh modeling of the Congo river-to-sea continuum

    NASA Astrophysics Data System (ADS)

    Bars, Yoann Le; Vallaeys, Valentin; Deleersnijder, Éric; Hanert, Emmanuel; Carrere, Loren; Channelière, Claire

    2016-04-01

    With the second largest outflow in the world and one of the widest hydrological basins, the Congo River is of a major importance both locally and globally. However, relatively few studies have been conducted on its hydrology, as compared to other great rivers such as the Amazon, Nile, Yangtze, or Mississippi. The goal of this study is therefore to help fill this gap and provide the first high-resolution simulation of the Congo river-estuary-coastal sea continuum. To this end, we are using a discontinuous-Galerkin finite element marine model that solves the two-dimensional depth-averaged shallow water equations on an unstructured mesh. To ensure a smooth transition from river to coastal sea, we have considered a model that encompasses both hydrological and coastal ocean processes. An important difficulty in setting up this model was to find data to parameterize and validate it, as it is a rather remote and understudied area. Therefore, an important effort in this study has been to establish a methodology to take advantage of all the data sources available including nautical charts that had to be digitalized. The model surface elevation has then been validated with respect to an altimetric database. Model results suggest the existence of gyres in the vicinity of the river mouth that have never been documented before. The effect of those gyres on the Congo River dynamics has been further investigated by simulating the transport of Lagrangian particles and computing the water age.

  18. Three-dimensional unstructured-mesh eutrophication model and its application to the Xiangxi River, China.

    PubMed

    Li, Jian; Li, Danxun; Wang, Xingkui

    2012-01-01

    The Xiangxi River is one of the main tributaries in the Three Gorges reservoir, with the shortest distance to the Three Gorges Project Dam. Severe and frequent algal bloom events have occurred frequently in the Xiangxi River in recent years. Therefore, the current study develops a three-dimensional unstructured-mesh model to investigate the dynamic process of algal bloom. The developed model comprises three modules, namely, hydrodynamics, nutrient cycles, and phytoplankton ecological dynamics. A number of factors, including hydrodynamic condition, nutrient concentration, temperature, and light illumination, that would affect the evolution of phytoplankton were considered. Moreover, the wave equation was used to solve the free surface fluctuations and vertical Z-coordinates with adjustable layered thicknesses. These values, in turn, are suitable for solving the algal bloom problems that occurred in the river style reservoir that has a complex boundary and dramatically changing hydrodynamic conditions. The comparisons between the modeling results and field data of years 2007 and 2008 indicate that the developed model is capable of simulating the algal bloom process in the Xiangxi River with reasonable accuracy. However, hydrodynamic force and external pollution loads affect the concentrations of nutrients, which, along with the underwater light intensity, could consequently affect phytoplankton evolution. Thus, flow velocity cannot be ignored in the analysis of river algal bloom. Based on the modeling results, building an impounding reservoir and increasing the releasing discharge at appropriate times are effective ways for controlling algal bloom.

  19. Three-dimensional unstructured-mesh eutrophication model and its application to the Xiangxi River, China.

    PubMed

    Li, Jian; Li, Danxun; Wang, Xingkui

    2012-01-01

    The Xiangxi River is one of the main tributaries in the Three Gorges reservoir, with the shortest distance to the Three Gorges Project Dam. Severe and frequent algal bloom events have occurred frequently in the Xiangxi River in recent years. Therefore, the current study develops a three-dimensional unstructured-mesh model to investigate the dynamic process of algal bloom. The developed model comprises three modules, namely, hydrodynamics, nutrient cycles, and phytoplankton ecological dynamics. A number of factors, including hydrodynamic condition, nutrient concentration, temperature, and light illumination, that would affect the evolution of phytoplankton were considered. Moreover, the wave equation was used to solve the free surface fluctuations and vertical Z-coordinates with adjustable layered thicknesses. These values, in turn, are suitable for solving the algal bloom problems that occurred in the river style reservoir that has a complex boundary and dramatically changing hydrodynamic conditions. The comparisons between the modeling results and field data of years 2007 and 2008 indicate that the developed model is capable of simulating the algal bloom process in the Xiangxi River with reasonable accuracy. However, hydrodynamic force and external pollution loads affect the concentrations of nutrients, which, along with the underwater light intensity, could consequently affect phytoplankton evolution. Thus, flow velocity cannot be ignored in the analysis of river algal bloom. Based on the modeling results, building an impounding reservoir and increasing the releasing discharge at appropriate times are effective ways for controlling algal bloom. PMID:23520863

  20. Multigrid techniques for unstructured meshes

    NASA Technical Reports Server (NTRS)

    Mavriplis, D. J.

    1995-01-01

    An overview of current multigrid techniques for unstructured meshes is given. The basic principles of the multigrid approach are first outlined. Application of these principles to unstructured mesh problems is then described, illustrating various different approaches, and giving examples of practical applications. Advanced multigrid topics, such as the use of algebraic multigrid methods, and the combination of multigrid techniques with adaptive meshing strategies are dealt with in subsequent sections. These represent current areas of research, and the unresolved issues are discussed. The presentation is organized in an educational manner, for readers familiar with computational fluid dynamics, wishing to learn more about current unstructured mesh techniques.

  1. Predictor-Based Model Reference Adaptive Control

    NASA Technical Reports Server (NTRS)

    Lavretsky, Eugene; Gadient, Ross; Gregory, Irene M.

    2009-01-01

    This paper is devoted to robust, Predictor-based Model Reference Adaptive Control (PMRAC) design. The proposed adaptive system is compared with the now-classical Model Reference Adaptive Control (MRAC) architecture. Simulation examples are presented. Numerical evidence indicates that the proposed PMRAC tracking architecture has better than MRAC transient characteristics. In this paper, we presented a state-predictor based direct adaptive tracking design methodology for multi-input dynamical systems, with partially known dynamics. Efficiency of the design was demonstrated using short period dynamics of an aircraft. Formal proof of the reported PMRAC benefits constitute future research and will be reported elsewhere.

  2. A fast tree-based method for estimating column densities in adaptive mesh refinement codes. Influence of UV radiation field on the structure of molecular clouds

    NASA Astrophysics Data System (ADS)

    Valdivia, Valeska; Hennebelle, Patrick

    2014-11-01

    Context. Ultraviolet radiation plays a crucial role in molecular clouds. Radiation and matter are tightly coupled and their interplay influences the physical and chemical properties of gas. In particular, modeling the radiation propagation requires calculating column densities, which can be numerically expensive in high-resolution multidimensional simulations. Aims: Developing fast methods for estimating column densities is mandatory if we are interested in the dynamical influence of the radiative transfer. In particular, we focus on the effect of the UV screening on the dynamics and on the statistical properties of molecular clouds. Methods: We have developed a tree-based method for a fast estimate of column densities, implemented in the adaptive mesh refinement code RAMSES. We performed numerical simulations using this method in order to analyze the influence of the screening on the clump formation. Results: We find that the accuracy for the extinction of the tree-based method is better than 10%, while the relative error for the column density can be much more. We describe the implementation of a method based on precalculating the geometrical terms that noticeably reduces the calculation time. To study the influence of the screening on the statistical properties of molecular clouds we present the probability distribution function of gas and the associated temperature per density bin and the mass spectra for different density thresholds. Conclusions: The tree-based method is fast and accurate enough to be used during numerical simulations since no communication is needed between CPUs when using a fully threaded tree. It is then suitable to parallel computing. We show that the screening for far UV radiation mainly affects the dense gas, thereby favoring low temperatures and affecting the fragmentation. We show that when we include the screening, more structures are formed with higher densities in comparison to the case that does not include this effect. We

  3. Mesh-based Monte Carlo code for fluorescence modeling in complex tissues with irregular boundaries

    NASA Astrophysics Data System (ADS)

    Wilson, Robert H.; Chen, Leng-Chun; Lloyd, William; Kuo, Shiuhyang; Marcelo, Cynthia; Feinberg, Stephen E.; Mycek, Mary-Ann

    2011-07-01

    There is a growing need for the development of computational models that can account for complex tissue morphology in simulations of photon propagation. We describe the development and validation of a user-friendly, MATLAB-based Monte Carlo code that uses analytically-defined surface meshes to model heterogeneous tissue geometry. The code can use information from non-linear optical microscopy images to discriminate the fluorescence photons (from endogenous or exogenous fluorophores) detected from different layers of complex turbid media. We present a specific application of modeling a layered human tissue-engineered construct (Ex Vivo Produced Oral Mucosa Equivalent, EVPOME) designed for use in repair of oral tissue following surgery. Second-harmonic generation microscopic imaging of an EVPOME construct (oral keratinocytes atop a scaffold coated with human type IV collagen) was employed to determine an approximate analytical expression for the complex shape of the interface between the two layers. This expression can then be inserted into the code to correct the simulated fluorescence for the effect of the irregular tissue geometry.

  4. On fractional Model Reference Adaptive Control.

    PubMed

    Shi, Bao; Yuan, Jian; Dong, Chao

    2014-01-01

    This paper extends the conventional Model Reference Adaptive Control systems to fractional ones based on the theory of fractional calculus. A control law and an incommensurate fractional adaptation law are designed for the fractional plant and the fractional reference model. The stability and tracking convergence are analyzed using the frequency distributed fractional integrator model and Lyapunov theory. Moreover, numerical simulations of both linear and nonlinear systems are performed to exhibit the viability and effectiveness of the proposed methodology. PMID:24574897

  5. Efficient, adaptive energy stable schemes for the incompressible Cahn-Hilliard Navier-Stokes phase-field models

    NASA Astrophysics Data System (ADS)

    Chen, Ying; Shen, Jie

    2016-03-01

    In this paper we develop a fully adaptive energy stable scheme for Cahn-Hilliard Navier-Stokes system, which is a phase-field model for two-phase incompressible flows, consisting a Cahn-Hilliard-type diffusion equation and a Navier-Stokes equation. This scheme, which is decoupled and unconditionally energy stable based on stabilization, involves adaptive mesh, adaptive time and a nonlinear multigrid finite difference method. Numerical experiments are carried out to validate the scheme for problems with matched density and non-matched density, and also demonstrate that CPU time can be significantly reduced with our adaptive approach.

  6. Mesh Oriented datABase

    2004-04-01

    MOAB is a component for representing and evaluating mesh data. MOAB can store stuctured and unstructured mesh, consisting of elements in the finite element "zoo". The functional interface to MOAB is simple yet powerful, allowing the representation of many types of metadata commonly found on the mesh. MOAB is optimized for efficiency in space and time, based on access to mesh in chunks rather than through individual entities, while also versatile enough to support individualmore » entity access. The MOAB data model consists of a mesh interface instance, mesh entities (vertices and elements), sets, and tags. Entities are addressed through handles rather than pointers, to allow the underlying representation of an entity to change without changing the handle to that entity. Sets are arbitrary groupings of mesh entities and other sets. Sets also support parent/child relationships as a relation distinct from sets containing other sets. The directed-graph provided by set parent/child relationships is useful for modeling topological relations from a geometric model or other metadata. Tags are named data which can be assigned to the mesh as a whole, individual entities, or sets. Tags are a mechanism for attaching data to individual entities and sets are a mechanism for describing relations between entities; the combination of these two mechanisms isa powerful yet simple interface for representing metadata or application-specific data. For example, sets and tags can be used together to describe geometric topology, boundary condition, and inter-processor interface groupings in a mesh. MOAB is used in several ways in various applications. MOAB serves as the underlying mesh data representation in the VERDE mesh verification code. MOAB can also be used as a mesh input mechanism, using mesh readers induded with MOAB, or as a t’anslator between mesh formats, using readers and writers included with MOAB.« less

  7. Mesh Oriented datABase

    SciTech Connect

    Tautges, Timothy J.

    2004-04-01

    MOAB is a component for representing and evaluating mesh data. MOAB can store stuctured and unstructured mesh, consisting of elements in the finite element "zoo". The functional interface to MOAB is simple yet powerful, allowing the representation of many types of metadata commonly found on the mesh. MOAB is optimized for efficiency in space and time, based on access to mesh in chunks rather than through individual entities, while also versatile enough to support individual entity access. The MOAB data model consists of a mesh interface instance, mesh entities (vertices and elements), sets, and tags. Entities are addressed through handles rather than pointers, to allow the underlying representation of an entity to change without changing the handle to that entity. Sets are arbitrary groupings of mesh entities and other sets. Sets also support parent/child relationships as a relation distinct from sets containing other sets. The directed-graph provided by set parent/child relationships is useful for modeling topological relations from a geometric model or other metadata. Tags are named data which can be assigned to the mesh as a whole, individual entities, or sets. Tags are a mechanism for attaching data to individual entities and sets are a mechanism for describing relations between entities; the combination of these two mechanisms isa powerful yet simple interface for representing metadata or application-specific data. For example, sets and tags can be used together to describe geometric topology, boundary condition, and inter-processor interface groupings in a mesh. MOAB is used in several ways in various applications. MOAB serves as the underlying mesh data representation in the VERDE mesh verification code. MOAB can also be used as a mesh input mechanism, using mesh readers induded with MOAB, or as a t’anslator between mesh formats, using readers and writers included with MOAB.

  8. On the Use of Adaptive Wavelet-based Methods for Ocean Modeling and Data Assimilation Problems

    NASA Astrophysics Data System (ADS)

    Vasilyev, Oleg V.; Yousuff Hussaini, M.; Souopgui, Innocent

    2014-05-01

    Latest advancements in parallel wavelet-based numerical methodologies for the solution of partial differential equations, combined with the unique properties of wavelet analysis to unambiguously identify and isolate localized dynamically dominant flow structures, make it feasible to start developing integrated approaches for ocean modeling and data assimilation problems that take advantage of temporally and spatially varying meshes. In this talk the Parallel Adaptive Wavelet Collocation Method with spatially and temporarily varying thresholding is presented and the feasibility/potential advantages of its use for ocean modeling are discussed. The second half of the talk focuses on the recently developed Simultaneous Space-time Adaptive approach that addresses one of the main challenges of variational data assimilation, namely the requirement to have a forward solution available when solving the adjoint problem. The issue is addressed by concurrently solving forward and adjoint problems in the entire space-time domain on a near optimal adaptive computational mesh that automatically adapts to spatio-temporal structures of the solution. The compressed space-time form of the solution eliminates the need to save or recompute forward solution for every time slice, as it is typically done in traditional time marching variational data assimilation approaches. The simultaneous spacio-temporal discretization of both the forward and the adjoint problems makes it possible to solve both of them concurrently on the same space-time adaptive computational mesh reducing the amount of saved data to the strict minimum for a given a priori controlled accuracy of the solution. The simultaneous space-time adaptive approach of variational data assimilation is demonstrated for the advection diffusion problem in 1D-t and 2D-t dimensions.

  9. Graphical Models and Computerized Adaptive Testing.

    ERIC Educational Resources Information Center

    Almond, Russell G.; Mislevy, Robert J.

    1999-01-01

    Considers computerized adaptive testing from the perspective of graphical modeling (GM). GM provides methods for making inferences about multifaceted skills and knowledge and for extracting data from complex performances. Provides examples from language-proficiency assessment. (SLD)

  10. Hybrid optimization methodology of variable densities mesh model for the axial supporting design of wide-field survey telescope

    NASA Astrophysics Data System (ADS)

    Wang, Hairen; Lou, Zheng; Qian, Yuan; Zheng, Xianzhong; Zuo, Yingxi

    2016-03-01

    The optimization of a primary mirror support system is one of the most critical problems in the design of large telescopes. Here, we propose a hybrid optimization methodology of variable densities mesh model (HOMVDMM) for the axial supporting design, which has three key steps: (1) creating a variable densities mesh model, which will partition the mirror into several sparse mesh areas and several dense mesh areas; (2) global optimization based on the zero-order optimization method for the support of primary mirror with a large tolerance; (3) based on the optimization results of the second step, further optimization with first-order optimization method in dense mesh areas by a small tolerance. HOMVDMM exploits the complementary merits of both the zero- and first-order optimizations, with the former in global scale and the latter in small scale. As an application, the axial support of the primary mirror of the 2.5-m wide-field survey telescope (WFST) is optimized by HOMVDMM. These three designs are obtained via a comparative study of different supporting points including 27 supporting points, 39 supporting points, and 54 supporting points. Their residual half-path length errors are 28.78, 9.32, and 5.29 nm. The latter two designs both meet the specification of WFST. In each of the three designs, a global optimization value with high accuracy will be obtained in an hour on an ordinary PC. As the results suggest, the overall performance of HOMVDMM is superior to the first-order optimization method as well as the zero-order optimization method.

  11. A Freestream-Preserving High-Order Finite-Volume Method for Mapped Grids with Adaptive-Mesh Refinement

    SciTech Connect

    Guzik, S; McCorquodale, P; Colella, P

    2011-12-16

    A fourth-order accurate finite-volume method is presented for solving time-dependent hyperbolic systems of conservation laws on mapped grids that are adaptively refined in space and time. Novel considerations for formulating the semi-discrete system of equations in computational space combined with detailed mechanisms for accommodating the adapting grids ensure that conservation is maintained and that the divergence of a constant vector field is always zero (freestream-preservation property). Advancement in time is achieved with a fourth-order Runge-Kutta method.

  12. Geometrical and topological issues in octree based automatic meshing

    NASA Technical Reports Server (NTRS)

    Saxena, Mukul; Perucchio, Renato

    1987-01-01

    Finite element meshes derived automatically from solid models through recursive spatial subdivision schemes (octrees) can be made to inherit the hierarchical structure and the spatial addressability intrinsic to the underlying grid. These two properties, together with the geometric regularity that can also be built into the mesh, make octree based meshes ideally suited for efficient analysis and self-adaptive remeshing and reanalysis. The element decomposition of the octal cells that intersect the boundary of the domain is discussed. The problem, central to octree based meshing, is solved by combining template mapping and element extraction into a procedure that utilizes both constructive solid geometry and boundary representation techniques. Boundary cells that are not intersected by the edge of the domain boundary are easily mapped to predefined element topology. Cells containing edges (and vertices) are first transformed into a planar polyhedron and then triangulated via element extractor. The modeling environments required for the derivation of planar polyhedra and for element extraction are analyzed.

  13. Adaptive Modeling Procedure Selection by Data Perturbation*

    PubMed Central

    Zhang, Yongli; Shen, Xiaotong

    2015-01-01

    Summary Many procedures have been developed to deal with the high-dimensional problem that is emerging in various business and economics areas. To evaluate and compare these procedures, modeling uncertainty caused by model selection and parameter estimation has to be assessed and integrated into a modeling process. To do this, a data perturbation method estimates the modeling uncertainty inherited in a selection process by perturbing the data. Critical to data perturbation is the size of perturbation, as the perturbed data should resemble the original dataset. To account for the modeling uncertainty, we derive the optimal size of perturbation, which adapts to the data, the model space, and other relevant factors in the context of linear regression. On this basis, we develop an adaptive data-perturbation method that, unlike its nonadaptive counterpart, performs well in different situations. This leads to a data-adaptive model selection method. Both theoretical and numerical analysis suggest that the data-adaptive model selection method adapts to distinct situations in that it yields consistent model selection and optimal prediction, without knowing which situation exists a priori. The proposed method is applied to real data from the commodity market and outperforms its competitors in terms of price forecasting accuracy. PMID:26640319

  14. Mesh versus bathtub - effects of flood models on exposure analysis in Switzerland

    NASA Astrophysics Data System (ADS)

    Röthlisberger, Veronika; Zischg, Andreas; Keiler, Margreth

    2016-04-01

    In Switzerland, mainly two types of maps that indicate potential flood zones are available for flood exposure analyses: 1) Aquaprotect, a nationwide overview provided by the Federal Office for the Environment and 2) communal flood hazard maps available from the 26 cantons. The model used to produce Aquaprotect can be described as a bathtub approach or linear superposition method with three main parameters, namely the horizontal and vertical distance of a point to water features and the size of the river sub-basin. Whereas the determination of flood zones in Aquaprotect is based on a uniform, nationwide model, the communal flood hazard maps are less homogenous, as they have been elaborated either at communal or cantonal levels. Yet their basic content (i.e. indication of potential flood zones for three recurrence periods, with differentiation of at least three inundation depths) is described in national directives and the vast majority of communal flood hazard maps are based on 2D inundation simulations using meshes. Apart from the methodical differences between Aquaprotect and the communal flood hazard maps (and among different communal flood hazard maps), all of these maps include a layer with a similar recurrence period (i.e. Aquaprotect 250 years, flood hazard maps 300 years) beyond the intended protection level of installed structural systems. In our study, we compare the resulting exposure by overlaying the two types of flood maps with a complete, harmonized, and nationwide dataset of building polygons. We assess the different exposure at the national level, and also consider differences among the 26 cantons and the six biogeographically unique regions, respectively. It was observed that while the nationwide exposure rates for both types of flood maps are similar, the differences within certain cantons and biogeographical regions are remarkable. We conclude that flood maps based on bathtub models are appropriate for assessments at national levels, while maps

  15. Diffraction analysis of mesh deployable reflector antennas

    NASA Astrophysics Data System (ADS)

    Rahmat-Samii, Y.

    1985-04-01

    A formulation and many representative numerical results for mesh reflector antennas are presented. The reflection coefficient matrix for the prescribed mesh configuration was determined and the local coordinate system of the mesh cells at each point on the curved reflector surface was accentuated. A novel strip aperture model was used to formulate the transmission coefficient matrix for a variety of mesh cell configurations. Numerical data are tailored to the dimensions of a conceptually designed land mobile satellite system (LMSS) which employs a large mesh deployable offset parabolic antenna. Results are shown for an offset parabolic reflector with mesh surfaces similar to the mesh surface of tracking and data relay satellite system (TDRSS).

  16. Diffraction Analysis of Mesh Deployable Reflector Antennas

    NASA Technical Reports Server (NTRS)

    Rahmat-Samii, Y.

    1985-01-01

    A formulation and many representative numerical results for mesh reflector antennas are presented. The reflection coefficient matrix for the prescribed mesh configuration was determined and the local coordinate system of the mesh cells at each point on the curved reflector surface was accentuated. A novel strip aperture model was used to formulate the transmission coefficient matrix for a variety of mesh cell configurations. Numerical data are tailored to the dimensions of a conceptually designed land mobile satellite system (LMSS) which employs a large mesh deployable offset parabolic antenna. Results are shown for an offset parabolic reflector with mesh surfaces similar to the mesh surface of tracking and data relay satellite system (TDRSS).

  17. Toward Interoperable Mesh, Geometry and Field Components for PDE Simulation Development

    SciTech Connect

    Chand, K K; Diachin, L F; Li, X; Ollivier-Gooch, C; Seol, E S; Shephard, M; Tautges, T; Trease, H

    2005-07-11

    Mesh-based PDE simulation codes are becoming increasingly sophisticated and rely on advanced meshing and discretization tools. Unfortunately, it is still difficult to interchange or interoperate tools developed by different communities to experiment with various technologies or to develop new capabilities. To address these difficulties, we have developed component interfaces designed to support the information flow of mesh-based PDE simulations. We describe this information flow and discuss typical roles and services provided by the geometry, mesh, and field components of the simulation. Based on this delineation for the roles of each component, we give a high-level description of the abstract data model and set of interfaces developed by the Department of Energy's Interoperable Tools for Advanced Petascale Simulation (ITAPS) center. These common interfaces are critical to our interoperability goal, and we give examples of several services based upon these interfaces including mesh adaptation and mesh improvement.

  18. Spherical harmonic-based finite element meshing scheme for modelling current flow within the heart.

    PubMed

    Hopenfeld, B

    2004-11-01

    The paper describes a spherical harmonic-based finite element scheme for solving Poisson-type equations throughout volumes characterised by irregularly shaped inner and outer surfaces. The inner and outer surfaces are defined by spherical harmonics, and the volume in between these surfaces is divided into nested shells that are weighted averages of the inner and outer surfaces. The resulting mesh comprises hexahedral elements, wherein each hexahedral element is defined by inner and outer shells in the radial direction and divisions in the polar and azimuthal directions. The spacing between shells can be set to any desired value. Similarly, the size of the polar and azimuthal divisions can be specified. A test of the scheme on an anisotropic sphere, meshed with 720 nodes, yielded a relative error of 0.78% on the sphere's surface. As a comparison, a previously published combined finite element/boundary element scheme with a 946-node mesh produced a corresponding error of 3.57%.

  19. Tsunami modelling with adaptively refined finite volume methods

    USGS Publications Warehouse

    LeVeque, R.J.; George, D.L.; Berger, M.J.

    2011-01-01

    Numerical modelling of transoceanic tsunami propagation, together with the detailed modelling of inundation of small-scale coastal regions, poses a number of algorithmic challenges. The depth-averaged shallow water equations can be used to reduce this to a time-dependent problem in two space dimensions, but even so it is crucial to use adaptive mesh refinement in order to efficiently handle the vast differences in spatial scales. This must be done in a 'wellbalanced' manner that accurately captures very small perturbations to the steady state of the ocean at rest. Inundation can be modelled by allowing cells to dynamically change from dry to wet, but this must also be done carefully near refinement boundaries. We discuss these issues in the context of Riemann-solver-based finite volume methods for tsunami modelling. Several examples are presented using the GeoClaw software, and sample codes are available to accompany the paper. The techniques discussed also apply to a variety of other geophysical flows. ?? 2011 Cambridge University Press.

  20. Tangle-Free Mesh Motion for Ablation Simulations

    NASA Technical Reports Server (NTRS)

    Droba, Justin

    2016-01-01

    Problems involving mesh motion-which should not be mistakenly associated with moving mesh methods, a class of adaptive mesh redistribution techniques-are of critical importance in numerical simulations of the thermal response of melting and ablative materials. Ablation is the process by which material vaporizes or otherwise erodes due to strong heating. Accurate modeling of such materials is of the utmost importance in design of passive thermal protection systems ("heatshields") for spacecraft, the layer of the vehicle that ensures survival of crew and craft during re-entry. In an explicit mesh motion approach, a complete thermal solve is first performed. Afterwards, the thermal response is used to determine surface recession rates. These values are then used to generate boundary conditions for an a posteriori correction designed to update the location of the mesh nodes. Most often, linear elastic or biharmonic equations are used to model this material response, traditionally in a finite element framework so that complex geometries can be simulated. A simple scheme for moving the boundary nodes involves receding along the surface normals. However, for all but the simplest problem geometries, evolution in time following such a scheme will eventually bring the mesh to intersect and "tangle" with itself, inducing failure. This presentation demonstrates a comprehensive and sophisticated scheme that analyzes the local geometry of each node with help from user-provided clues to eliminate the tangle and enable simulations on a wide-class of difficult problem geometries. The method developed is demonstrated for linear elastic equations but is general enough that it may be adapted to other modeling equations. The presentation will explicate the inner workings of the tangle-free mesh motion algorithm for both two and three-dimensional meshes. It will show abstract examples of the method's success, including a verification problem that demonstrates its accuracy and

  1. Gamra: Simple meshing for complex earthquakes

    NASA Astrophysics Data System (ADS)

    Landry, Walter; Barbot, Sylvain

    2016-05-01

    The static offsets caused by earthquakes are well described by elastostatic models with a discontinuity in the displacement along the fault. A traditional approach to model this discontinuity is to align the numerical mesh with the fault and solve the equations using finite elements. However, this distorted mesh can be difficult to generate and update. We present a new numerical method, inspired by the Immersed Interface Method (Leveque and Li, 1994), for solving the elastostatic equations with embedded discontinuities. This method has been carefully designed so that it can be used on parallel machines on an adapted finite difference grid. We have implemented this method in Gamra, a new code for earth modeling. We demonstrate the correctness of the method with analytic tests, and we demonstrate its practical performance by solving a realistic earthquake model to extremely high precision.

  2. Numerical calculation of listener-specific head-related transfer functions and sound localization: Microphone model and mesh discretization

    PubMed Central

    Ziegelwanger, Harald; Majdak, Piotr; Kreuzer, Wolfgang

    2015-01-01

    Head-related transfer functions (HRTFs) can be numerically calculated by applying the boundary element method on the geometry of a listener’s head and pinnae. The calculation results are defined by geometrical, numerical, and acoustical parameters like the microphone used in acoustic measurements. The scope of this study was to estimate requirements on the size and position of the microphone model and on the discretization of the boundary geometry as triangular polygon mesh for accurate sound localization. The evaluation involved the analysis of localization errors predicted by a sagittal-plane localization model, the comparison of equivalent head radii estimated by a time-of-arrival model, and the analysis of actual localization errors obtained in a sound-localization experiment. While the average edge length (AEL) of the mesh had a negligible effect on localization performance in the lateral dimension, the localization performance in sagittal planes, however, degraded for larger AELs with the geometrical error as dominant factor. A microphone position at an arbitrary position at the entrance of the ear canal, a microphone size of 1 mm radius, and a mesh with 1 mm AEL yielded a localization performance similar to or better than observed with acoustically measured HRTFs. PMID:26233020

  3. Optimizing triangular mesh generation from range images

    NASA Astrophysics Data System (ADS)

    Lu, Tianyu; Yun, David Y.

    2000-03-01

    An algorithm for the automatic reconstruction of triangular mesh surface model form range images is presented. The optimal piecewise linear surface approximation problem is defined as: given a set S of points uniformly sampled from a vibrate function f(x,y) on a rectangular grid of dimension W X H, find a minimum triangular mesh approximating the surface with vertices anchored at a subset S' of S, such that the deviation at any sample point is within a given bound of (epsilon) > 0. The algorithm deploys a multi- agent resource planning approach to achieve adaptive, accurate and concise piecewise linear approximation using the L-(infinity) norm. The resulting manifold triangular mesh can be directly used as 3D rendering model for visualization with controllable and guaranteed quality. Due to this dual optimality, the algorithm achieves both storage efficiency and visual quality. The error control scheme further facilitates the construction of models in multiple levels of details, which is desirable in animation and virtual reality moving scenes. Experiments with various benchmark range images form smooth functional surfaces to satellite terrain images yield succinct, accurate and visually pleasant triangular meshes. Furthermore, the independence and multiplicity of agents suggest a natural parallelism for triangulation computation, which provides a promising solution for the real-time exploration of large data sets.

  4. Parallel Adaptive Multi-Mechanics Simulations using Diablo

    SciTech Connect

    Parsons, D; Solberg, J

    2004-12-03

    Coupled multi-mechanics simulations (such as thermal-stress and fluidstructure interaction problems) are of substantial interest to engineering analysts. In addition, adaptive mesh refinement techniques present an attractive alternative to current mesh generation procedures and provide quantitative error bounds that can be used for model verification. This paper discusses spatially adaptive multi-mechanics implicit simulations using the Diablo computer code. (U)

  5. Adaptive Modeling Language and Its Derivatives

    NASA Technical Reports Server (NTRS)

    Chemaly, Adel

    2006-01-01

    Adaptive Modeling Language (AML) is the underlying language of an object-oriented, multidisciplinary, knowledge-based engineering framework. AML offers an advanced modeling paradigm with an open architecture, enabling the automation of the entire product development cycle, integrating product configuration, design, analysis, visualization, production planning, inspection, and cost estimation.

  6. Graphical Models and Computerized Adaptive Testing.

    ERIC Educational Resources Information Center

    Mislevy, Robert J.; Almond, Russell G.

    This paper synthesizes ideas from the fields of graphical modeling and education testing, particularly item response theory (IRT) applied to computerized adaptive testing (CAT). Graphical modeling can offer IRT a language for describing multifaceted skills and knowledge, and disentangling evidence from complex performances. IRT-CAT can offer…

  7. Adaptive approximation models in optimization

    SciTech Connect

    Voronin, A.N.

    1995-05-01

    The paper proposes a method for optimization of functions of several variables that substantially reduces the number of objective function evaluations compared to traditional methods. The method is based on the property of iterative refinement of approximation models of the optimand function in approximation domains that contract to the extremum point. It does not require subjective specification of the starting point, step length, or other parameters of the search procedure. The method is designed for efficient optimization of unimodal functions of several (not more than 10-15) variables and can be applied to find the global extremum of polymodal functions and also for optimization of scalarized forms of vector objective functions.

  8. Extreme Wave Simulation due to Typhoon Bolaven based on locally Enhanced Fine-Mesh Unstructured Grid Model

    NASA Astrophysics Data System (ADS)

    Kim, Kyeong Ok; Choi, Byung Ho; Jung, Kyung Tae

    2016-04-01

    The performance of an integrally coupled wave-tide-surge model using the unstructured mesh system has been tested for the typhoon Bolaven which is regarded as the most powerful storm to strike the Korean Peninsula in nearly a decade with wind gusts measured up to 50 m/s, causing serious damages with 19 victims. Use of the unstructured mesh in coastal sea regions of marginal scale allows all energy from deep to shallow waters to be seamlessly followed; the physics of wave-circulation interactions can be then correctly resolved. The model covers the whole Yellow and East China Seas with locally refined meshes near the regions of Gageo Island (offshore southwestern corner of the Korean Peninsula) and south of Jeju Island (Gangjeong and Seogwipo ports). The wind and pressure fields during the passage of typhoon Bolaven are generated by the blending method. Generally the numerical atmospheric model cannot satisfactorily reproduce the strength of typhoons due to dynamic and resolution restrictions. In this study we could achieve an improved conservation of the typhoon strength by blending the Holland typhoon model result by the empirical formula onto the ambient meteorological fields of NCEP dataset. The model results are compared with the observations and the model performance is then evaluated. The computed wave spectrums for one and two dimensions are compared with the observation in Ieodo station. Results show that the wind wave significantly enhances the current intensity and surge elevation, addressing that to incorporate the wave-current interaction effect in the wave-tide-surge coupled model is important for the accurate prediction of current and sea surface elevation as well as extreme waves in shallow coastal sea regions. The resulting modeling system can be used for hindcasting and forecasting the wave-tide-surges in marine environments with complex coastlines, shallow water depth and fine sediment.

  9. Multiple model adaptive control with mixing

    NASA Astrophysics Data System (ADS)

    Kuipers, Matthew

    Despite the remarkable theoretical accomplishments and successful applications of adaptive control, the field is not sufficiently mature to solve challenging control problems requiring strict performance and safety guarantees. Towards addressing these issues, a novel deterministic multiple-model adaptive control approach called adaptive mixing control is proposed. In this approach, adaptation comes from a high-level system called the supervisor that mixes into feedback a number of candidate controllers, each finely-tuned to a subset of the parameter space. The mixing signal, the supervisor's output, is generated by estimating the unknown parameters and, at every instant of time, calculating the contribution level of each candidate controller based on certainty equivalence. The proposed architecture provides two characteristics relevant to solving stringent, performance-driven applications. First, the full-suite of linear time invariant control tools is available. A disadvantage of conventional adaptive control is its restriction to utilizing only those control laws whose solutions can be feasibly computed in real-time, such as model reference and pole-placement type controllers. Because its candidate controllers are computed off line, the proposed approach suffers no such restriction. Second, the supervisor's output is smooth and does not necessarily depend on explicit a priori knowledge of the disturbance model. These characteristics can lead to improved performance by avoiding the unnecessary switching and chattering behaviors associated with some other multiple adaptive control approaches. The stability and robustness properties of the adaptive scheme are analyzed. It is shown that the mean-square regulation error is of the order of the modeling error. And when the parameter estimate converges to its true value, which is guaranteed if a persistence of excitation condition is satisfied, the adaptive closed-loop system converges exponentially fast to a closed

  10. A STABLE, ACCURATE METHODOLOGY FOR HIGH MACH NUMBER, STRONG MAGNETIC FIELD MHD TURBULENCE WITH ADAPTIVE MESH REFINEMENT: RESOLUTION AND REFINEMENT STUDIES

    SciTech Connect

    Li, Pak Shing; Klein, Richard I.; Martin, Daniel F.; McKee, Christopher F. E-mail: klein@astron.berkeley.edu E-mail: cmckee@astro.berkeley.edu

    2012-02-01

    Performing a stable, long-duration simulation of driven MHD turbulence with a high thermal Mach number and a strong initial magnetic field is a challenge to high-order Godunov ideal MHD schemes because of the difficulty in guaranteeing positivity of the density and pressure. We have implemented a robust combination of reconstruction schemes, Riemann solvers, limiters, and constrained transport electromotive force averaging schemes that can meet this challenge, and using this strategy, we have developed a new adaptive mesh refinement (AMR) MHD module of the ORION2 code. We investigate the effects of AMR on several statistical properties of a turbulent ideal MHD system with a thermal Mach number of 10 and a plasma {beta}{sub 0} of 0.1 as initial conditions; our code is shown to be stable for simulations with higher Mach numbers (M{sub rms}= 17.3) and smaller plasma beta ({beta}{sub 0} = 0.0067) as well. Our results show that the quality of the turbulence simulation is generally related to the volume-averaged refinement. Our AMR simulations show that the turbulent dissipation coefficient for supersonic MHD turbulence is about 0.5, in agreement with unigrid simulations.

  11. New algorithms for field-theoretic block copolymer simulations: Progress on using adaptive-mesh refinement and sparse matrix solvers in SCFT calculations

    NASA Astrophysics Data System (ADS)

    Sides, Scott; Jamroz, Ben; Crockett, Robert; Pletzer, Alexander

    2012-02-01

    Self-consistent field theory (SCFT) for dense polymer melts has been highly successful in describing complex morphologies in block copolymers. Field-theoretic simulations such as these are able to access large length and time scales that are difficult or impossible for particle-based simulations such as molecular dynamics. The modified diffusion equations that arise as a consequence of the coarse-graining procedure in the SCF theory can be efficiently solved with a pseudo-spectral (PS) method that uses fast-Fourier transforms on uniform Cartesian grids. However, PS methods can be difficult to apply in many block copolymer SCFT simulations (eg. confinement, interface adsorption) in which small spatial regions might require finer resolution than most of the simulation grid. Progress on using new solver algorithms to address these problems will be presented. The Tech-X Chompst project aims at marrying the best of adaptive mesh refinement with linear matrix solver algorithms. The Tech-X code PolySwift++ is an SCFT simulation platform that leverages ongoing development in coupling Chombo, a package for solving PDEs via block-structured AMR calculations and embedded boundaries, with PETSc, a toolkit that includes a large assortment of sparse linear solvers.

  12. Fourier models and the loci of adaptation.

    PubMed

    Makous, W L

    1997-09-01

    First measures of sensitivity and the need for a model to interpret them are addressed. Then modeling in the Fourier domain is promoted by a demonstration of how much an approach explains spatial sensitization and its dependence on luminance. Then the retinal illuminance and receptor absorptions produced by various stimuli are derived to foster interpretation of the neural mechanisms underlying various psychophysical phenomena. Finally, the sequence and the anatomical loci of the processes controlling visual sensitivity are addressed. It is concluded that multiplicative adaptation often has effects identical to response compression followed by subtractive adaptation and that, perhaps as a consequence, there is no evidence of retinal gain changes in human cone vision until light levels are well above those available in natural scenes and in most contemporary psychophysical experiments; that contrast gain control fine tunes sensitivity to patterns at all luminances; and that response compression, modulated by subtractive adaptation, predominates in the control of sensitivity in human cone vision.

  13. Conditional ɛ-uniform boundedness of Galerkin projectors and convergence of an adaptive mesh method as applied to singularly perturbed boundary value problems

    NASA Astrophysics Data System (ADS)

    Blatov, I. A.; Dobrobog, N. V.; Kitaeva, E. V.

    2016-07-01

    The Galerkin finite element method is applied to nonself-adjoint singularly perturbed boundary value problems on Shishkin meshes. The Galerkin projection method is used to obtain conditionally ɛ-uniform a priori error estimates and to prove the convergence of a sequence of meshes in the case of an unknown boundary layer edge.

  14. Hip Joint Replacement Using Monofilament Polypropylene Surgical Mesh: An Animal Model

    PubMed Central

    Białecki, Jacek; Klimowicz-Bodys, Małgorzata Dorota; Wierzchoś, Edward; Kołomecki, Krzysztof

    2014-01-01

    Hip joint dysplasia is a deformation of the articular elements (pelvic acetabulum, head of the femur, and/or ligament of the head of the femur) leading to laxity of the hip components and dislocation of the femoral head from the pelvic acetabulum. Diagnosis is based on symptoms observed during clinical and radiological examinations. There are two treatment options: conservative and surgical. The classic surgical procedures are juvenile pubic symphysiodesis (JPS), triple pelvic osteotomy (TPO), total hip replacement (THR), and femoral head and neck resection (FHNE). The aim of this experiment was to present an original technique of filling the acetabulum with a polypropylene implant, resting the femoral neck directly on the mesh. The experiment was performed on eight sheep. The clinical value of the new surgical technique was evaluated using clinical, radiological, and histological methods. This technique helps decrease the loss of limb length by supporting the femoral neck on the mesh equivalent to the femoral head. It also reduces joint pain and leads to the formation of stable and mobile pseudarthrosis. The mesh manifested osteoprotective properties and enabled the formation of a stiff-elastic connection within the hip joint. The method is very cost-effective and the technique itself is simple to perform. PMID:24987672

  15. Hip joint replacement using monofilament polypropylene surgical mesh: an animal model.

    PubMed

    Białecki, Jacek; Majchrzycki, Marian; Szymczak, Antoni; Klimowicz-Bodys, Małgorzata Dorota; Wierzchoś, Edward; Kołomecki, Krzysztof

    2014-01-01

    Hip joint dysplasia is a deformation of the articular elements (pelvic acetabulum, head of the femur, and/or ligament of the head of the femur) leading to laxity of the hip components and dislocation of the femoral head from the pelvic acetabulum. Diagnosis is based on symptoms observed during clinical and radiological examinations. There are two treatment options: conservative and surgical. The classic surgical procedures are juvenile pubic symphysiodesis (JPS), triple pelvic osteotomy (TPO), total hip replacement (THR), and femoral head and neck resection (FHNE). The aim of this experiment was to present an original technique of filling the acetabulum with a polypropylene implant, resting the femoral neck directly on the mesh. The experiment was performed on eight sheep. The clinical value of the new surgical technique was evaluated using clinical, radiological, and histological methods. This technique helps decrease the loss of limb length by supporting the femoral neck on the mesh equivalent to the femoral head. It also reduces joint pain and leads to the formation of stable and mobile pseudarthrosis. The mesh manifested osteoprotective properties and enabled the formation of a stiff-elastic connection within the hip joint. The method is very cost-effective and the technique itself is simple to perform. PMID:24987672

  16. Automated adaptive inference of phenomenological dynamical models

    PubMed Central

    Daniels, Bryan C.; Nemenman, Ilya

    2015-01-01

    Dynamics of complex systems is often driven by large and intricate networks of microscopic interactions, whose sheer size obfuscates understanding. With limited experimental data, many parameters of such dynamics are unknown, and thus detailed, mechanistic models risk overfitting and making faulty predictions. At the other extreme, simple ad hoc models often miss defining features of the underlying systems. Here we develop an approach that instead constructs phenomenological, coarse-grained models of network dynamics that automatically adapt their complexity to the available data. Such adaptive models produce accurate predictions even when microscopic details are unknown. The approach is computationally tractable, even for a relatively large number of dynamical variables. Using simulated data, it correctly infers the phase space structure for planetary motion, avoids overfitting in a biological signalling system and produces accurate predictions for yeast glycolysis with tens of data points and over half of the interacting species unobserved. PMID:26293508

  17. Adaptive-network models of collective dynamics

    NASA Astrophysics Data System (ADS)

    Zschaler, G.

    2012-09-01

    Complex systems can often be modelled as networks, in which their basic units are represented by abstract nodes and the interactions among them by abstract links. This network of interactions is the key to understanding emergent collective phenomena in such systems. In most cases, it is an adaptive network, which is defined by a feedback loop between the local dynamics of the individual units and the dynamical changes of the network structure itself. This feedback loop gives rise to many novel phenomena. Adaptive networks are a promising concept for the investigation of collective phenomena in different systems. However, they also present a challenge to existing modelling approaches and analytical descriptions due to the tight coupling between local and topological degrees of freedom. In this work, which is essentially my PhD thesis, I present a simple rule-based framework for the investigation of adaptive networks, using which a wide range of collective phenomena can be modelled and analysed from a common perspective. In this framework, a microscopic model is defined by the local interaction rules of small network motifs, which can be implemented in stochastic simulations straightforwardly. Moreover, an approximate emergent-level description in terms of macroscopic variables can be derived from the microscopic rules, which we use to analyse the system's collective and long-term behaviour by applying tools from dynamical systems theory. We discuss three adaptive-network models for different collective phenomena within our common framework. First, we propose a novel approach to collective motion in insect swarms, in which we consider the insects' adaptive interaction network instead of explicitly tracking their positions and velocities. We capture the experimentally observed onset of collective motion qualitatively in terms of a bifurcation in this non-spatial model. We find that three-body interactions are an essential ingredient for collective motion to emerge

  18. Maximizing Adaptivity in Hierarchical Topological Models Using Cancellation Trees

    SciTech Connect

    Bremer, P; Pascucci, V; Hamann, B

    2008-12-08

    We present a highly adaptive hierarchical representation of the topology of functions defined over two-manifold domains. Guided by the theory of Morse-Smale complexes, we encode dependencies between cancellations of critical points using two independent structures: a traditional mesh hierarchy to store connectivity information and a new structure called cancellation trees to encode the configuration of critical points. Cancellation trees provide a powerful method to increase adaptivity while using a simple, easy-to-implement data structure. The resulting hierarchy is significantly more flexible than the one previously reported. In particular, the resulting hierarchy is guaranteed to be of logarithmic height.

  19. Numerical simulation of H2/air detonation using unstructured mesh

    NASA Astrophysics Data System (ADS)

    Togashi, Fumiya; Löhner, Rainald; Tsuboi, Nobuyuki

    2009-06-01

    To explore the capability of unstructured mesh to simulate detonation wave propagation phenomena, numerical simulation of H2/air detonation using unstructured mesh was conducted. The unstructured mesh has several adv- antages such as easy mesh adaptation and flexibility to the complicated configurations. To examine the resolution dependency of the unstructured mesh, several simulations varying the mesh size were conducted and compared with a computed result using a structured mesh. The results show that the unstructured mesh solution captures the detailed structure of detonation wave, as well as the structured mesh solution. To capture the detailed detonation cell structure, the unstructured mesh simulations required at least twice, ideally 5times the resolution of structured mesh solution.

  20. A three-dimensional finite element model of human atrial anatomy: New methods for cubic Hermite meshes with extraordinary vertices

    PubMed Central

    Gonzales, Matthew J.; Sturgeon, Gregory; Krishnamurthy, Adarsh; Hake, Johan; Jonas, René; Stark, Paul; Rappel, Wouter-Jan; Narayan, Sanjiv M.; Zhang, Yongjie; Segars, W. Paul; McCulloch, Andrew D.

    2013-01-01

    High-order cubic Hermite finite elements have been valuable in modeling cardiac geometry, fiber orientations, biomechanics, and electrophysiology, but their use in solving three-dimensional problems has been limited to ventricular models with simple topologies. Here, we utilized a subdivision surface scheme and derived a generalization of the “local-to-global” derivative mapping scheme of cubic Hermite finite elements to construct bicubic and tricubic Hermite models of the human atria with extraordinary vertices from computed tomography images of a patient with atrial fibrillation. To an accuracy of 0.6 millimeters, we were able to capture the left atrial geometry with only 142 bicubic Hermite finite elements, and the right atrial geometry with only 90. The left and right atrial bicubic Hermite meshes were G1 continuous everywhere except in the one-neighborhood of extraordinary vertices, where the mean dot products of normals at adjacent elements were 0.928 and 0.925. We also constructed two biatrial tricubic Hermite models and defined fiber orientation fields in agreement with diagrammatic data from the literature using only 42 angle parameters. The meshes all have good quality metrics, uniform element sizes, and elements with aspect ratios near unity, and are shared with the public. These new methods will allow for more compact and efficient patient-specific models of human atrial and whole heart physiology. PMID:23602918

  1. Adaptive Behaviour Assessment System: Indigenous Australian Adaptation Model (ABAS: IAAM)

    ERIC Educational Resources Information Center

    du Plessis, Santie

    2015-01-01

    The study objectives were to develop, trial and evaluate a cross-cultural adaptation of the Adaptive Behavior Assessment System-Second Edition Teacher Form (ABAS-II TF) ages 5-21 for use with Indigenous Australian students ages 5-14. This study introduced a multiphase mixed-method design with semi-structured and informal interviews, school…

  2. 6th International Meshing Roundtable '97

    SciTech Connect

    White, D.

    1997-09-01

    The goal of the 6th International Meshing Roundtable is to bring together researchers and developers from industry, academia, and government labs in a stimulating, open environment for the exchange of technical information related to the meshing process. In the pas~ the Roundtable has enjoyed significant participation born each of these groups from a wide variety of countries. The Roundtable will consist of technical presentations from contributed papers and abstracts, two invited speakers, and two invited panels of experts discussing topics related to the development and use of automatic mesh generation tools. In addition, this year we will feature a "Bring Your Best Mesh" competition and poster session to encourage discussion and participation from a wide variety of mesh generation tool users. The schedule and evening social events are designed to provide numerous opportunities for informal dialog. A proceedings will be published by Sandia National Laboratories and distributed at the Roundtable. In addition, papers of exceptionally high quaIity will be submitted to a special issue of the International Journal of Computational Geometry and Applications. Papers and one page abstracts were sought that present original results on the meshing process. Potential topics include but are got limited to: Unstructured triangular and tetrahedral mesh generation Unstructured quadrilateral and hexahedral mesh generation Automated blocking and structured mesh generation Mixed element meshing Surface mesh generation Geometry decomposition and clean-up techniques Geometry modification techniques related to meshing Adaptive mesh refinement and mesh quality control Mesh visualization Special purpose meshing algorithms for particular applications Theoretical or novel ideas with practical potential Technical presentations from industrial researchers.

  3. POD-Galerkin reduced-order modeling with adaptive finite element snapshots

    NASA Astrophysics Data System (ADS)

    Ullmann, Sebastian; Rotkvic, Marko; Lang, Jens

    2016-11-01

    We consider model order reduction by proper orthogonal decomposition (POD) for parametrized partial differential equations, where the underlying snapshots are computed with adaptive finite elements. We address computational and theoretical issues arising from the fact that the snapshots are members of different finite element spaces. We propose a method to create a POD-Galerkin model without interpolating the snapshots onto their common finite element mesh. The error of the reduced-order solution is not necessarily Galerkin orthogonal to the reduced space created from space-adapted snapshot. We analyze how this influences the error assessment for POD-Galerkin models of linear elliptic boundary value problems. As a numerical example we consider a two-dimensional convection-diffusion equation with a parametrized convective direction. To illustrate the applicability of our techniques to non-linear time-dependent problems, we present a test case of a two-dimensional viscous Burgers equation with parametrized initial data.

  4. Adaptive importance sampling for network growth models

    PubMed Central

    Holmes, Susan P.

    2016-01-01

    Network Growth Models such as Preferential Attachment and Duplication/Divergence are popular generative models with which to study complex networks in biology, sociology, and computer science. However, analyzing them within the framework of model selection and statistical inference is often complicated and computationally difficult, particularly when comparing models that are not directly related or nested. In practice, ad hoc methods are often used with uncertain results. If possible, the use of standard likelihood-based statistical model selection techniques is desirable. With this in mind, we develop an Adaptive Importance Sampling algorithm for estimating likelihoods of Network Growth Models. We introduce the use of the classic Plackett-Luce model of rankings as a family of importance distributions. Updates to importance distributions are performed iteratively via the Cross-Entropy Method with an additional correction for degeneracy/over-fitting inspired by the Minimum Description Length principle. This correction can be applied to other estimation problems using the Cross-Entropy method for integration/approximate counting, and it provides an interpretation of Adaptive Importance Sampling as iterative model selection. Empirical results for the Preferential Attachment model are given, along with a comparison to an alternative established technique, Annealed Importance Sampling. PMID:27182098

  5. Multi-Resolution Dynamic Meshes with Arbitrary Deformations

    SciTech Connect

    Shamir, A.; Pascucci, V.; Bajaj, C.

    2000-07-10

    Multi-resolution techniques and models have been shown to be effective for the display and transmission of large static geometric object. Dynamic environments with internally deforming models and scientific simulations using dynamic meshes pose greater challenges in terms of time and space, and need the development of similar solutions. In this paper we introduce the T-DAG, an adaptive multi-resolution representation for dynamic meshes with arbitrary deformations including attribute, position, connectivity and topology changes. T-DAG stands for Time-dependent Directed Acyclic Graph which defines the structure supporting this representation. We also provide an incremental algorithm (in time) for constructing the T-DAG representation of a given input mesh. This enables the traversal and use of the multi-resolution dynamic model for partial playback while still constructing new time-steps.

  6. Quadrilateral/hexahedral finite element mesh coarsening

    DOEpatents

    Staten, Matthew L; Dewey, Mark W; Scott, Michael A; Benzley, Steven E

    2012-10-16

    A technique for coarsening a finite element mesh ("FEM") is described. This technique includes identifying a coarsening region within the FEM to be coarsened. Perimeter chords running along perimeter boundaries of the coarsening region are identified. The perimeter chords are redirected to create an adaptive chord separating the coarsening region from a remainder of the FEM. The adaptive chord runs through mesh elements residing along the perimeter boundaries of the coarsening region. The adaptive chord is then extracted to coarsen the FEM.

  7. A comprehensive tool for image-based generation of fetus and pregnant women mesh models for numerical dosimetry studies

    NASA Astrophysics Data System (ADS)

    Dahdouh, S.; Varsier, N.; Serrurier, A.; De la Plata, J.-P.; Anquez, J.; Angelini, E. D.; Wiart, J.; Bloch, I.

    2014-08-01

    Fetal dosimetry studies require the development of accurate numerical 3D models of the pregnant woman and the fetus. This paper proposes a 3D articulated fetal growth model covering the main phases of pregnancy and a pregnant woman model combining the utero-fetal structures and a deformable non-pregnant woman body envelope. The structures of interest were automatically or semi-automatically (depending on the stage of pregnancy) segmented from a database of images and surface meshes were generated. By interpolating linearly between fetal structures, each one can be generated at any age and in any position. A method is also described to insert the utero-fetal structures in the maternal body. A validation of the fetal models is proposed, comparing a set of biometric measurements to medical reference charts. The usability of the pregnant woman model in dosimetry studies is also investigated, with respect to the influence of the abdominal fat layer.

  8. INGRID: a three-dimensional mesh generator for modeling nonlinear systems

    SciTech Connect

    Stillman, D.W.; Hallquist, J.O.

    1985-07-01

    INGRID generates complete input files for the codes DYNA3D, NIKE3D, FACET, and TOPAZ3D. Geometries are described primarily using index space concepts which came from the program INGEN. The ideas used in INGEN were reworked into a new method which is both simple and powerful. Interactive graphics in INGRID are patterned after TAURUS, a three-dimensional post-processor, and MAZE, a two-dimensional mesh generator. Much of the coding from MAZE is directly incorporated in INGRID.

  9. Dynamic Load Balancing for Adaptive Unstructured Grids

    NASA Technical Reports Server (NTRS)

    Biswas, Rupak; Saini, Subhash (Technical Monitor)

    1998-01-01

    Dynamic mesh adaptation on unstructured grids is a powerful tool for computing unsteady three-dimensional problems that require grid modifications to efficiently resolve solution features. By locally refining and coarsening the mesh to capture phenomena of interest, such procedures make standard computational methods more cost effective. Highly refined meshes are required to accurately capture shock waves, contact discontinuities, vortices, and shear layers in fluid flow problems. Adaptive meshes have also proved to be useful in several other areas of computational science and engineering like computer vision and graphics, semiconductor device modeling, and structural mechanics. Local mesh adaptation provides the opportunity to obtain solutions that are comparable to those obtained on globally-refined grids but at a much lower cost. Additional information is contained in the original extended abstract.

  10. Adaptive Control with Reference Model Modification

    NASA Technical Reports Server (NTRS)

    Stepanyan, Vahram; Krishnakumar, Kalmanje

    2012-01-01

    This paper presents a modification of the conventional model reference adaptive control (MRAC) architecture in order to improve transient performance of the input and output signals of uncertain systems. A simple modification of the reference model is proposed by feeding back the tracking error signal. It is shown that the proposed approach guarantees tracking of the given reference command and the reference control signal (one that would be designed if the system were known) not only asymptotically but also in transient. Moreover, it prevents generation of high frequency oscillations, which are unavoidable in conventional MRAC systems for large adaptation rates. The provided design guideline makes it possible to track a reference commands of any magnitude from any initial position without re-tuning. The benefits of the method are demonstrated with a simulation example

  11. Adaptive cyber-attack modeling system

    NASA Astrophysics Data System (ADS)

    Gonsalves, Paul G.; Dougherty, Edward T.

    2006-05-01

    The pervasiveness of software and networked information systems is evident across a broad spectrum of business and government sectors. Such reliance provides an ample opportunity not only for the nefarious exploits of lone wolf computer hackers, but for more systematic software attacks from organized entities. Much effort and focus has been placed on preventing and ameliorating network and OS attacks, a concomitant emphasis is required to address protection of mission critical software. Typical software protection technique and methodology evaluation and verification and validation (V&V) involves the use of a team of subject matter experts (SMEs) to mimic potential attackers or hackers. This manpower intensive, time-consuming, and potentially cost-prohibitive approach is not amenable to performing the necessary multiple non-subjective analyses required to support quantifying software protection levels. To facilitate the evaluation and V&V of software protection solutions, we have designed and developed a prototype adaptive cyber attack modeling system. Our approach integrates an off-line mechanism for rapid construction of Bayesian belief network (BN) attack models with an on-line model instantiation, adaptation and knowledge acquisition scheme. Off-line model construction is supported via a knowledge elicitation approach for identifying key domain requirements and a process for translating these requirements into a library of BN-based cyber-attack models. On-line attack modeling and knowledge acquisition is supported via BN evidence propagation and model parameter learning.

  12. Bone Marrow–Derived Mesenchymal Stem Cells Enhance Bacterial Clearance and Preserve Bioprosthetic Integrity in a Model of Mesh Infection

    PubMed Central

    Criman, Erik T.; Kurata, Wendy E.; Matsumoto, Karen W.; Aubin, Harry T.; Campbell, Carmen E.

    2016-01-01

    Background: The reported incidence of mesh infection in contaminated operative fields is as high as 30% regardless of the material used. Recently, mesenchymal stem cells (MSCs) have been shown to possess favorable immunomodulatory properties and improve tissue incorporation when seeded onto bioprosthetics. The aim of this study was to evaluate whether seeding noncrosslinked bovine pericardium (Veritas Collagen Matrix) with allogeneic bone marrow–derived MSCs improves infection resistance in vivo after inoculation with Escherichia coli (E. coli). Methods: Rat bone marrow–derived MSCs at passage 3 were seeded onto bovine pericardium and cultured for 7 days before implantation. Additional rats (n = 24) were implanted subcutaneously with MSC-seeded or unseeded mesh and inoculated with 7 × 105 colony-forming units of E. coli or saline before wound closure (group 1, unseeded mesh/saline; group 2, unseeded mesh/E. coli; group 3, MSC-seeded mesh/E. coli; 8 rats per group). Meshes were explanted at 4 weeks and underwent microbiologic and histologic analyses. Results: MSC-seeded meshes inoculated with E. coli demonstrated superior bacterial clearance and preservation of mesh integrity compared with E. coli–inoculated unseeded meshes (87.5% versus 0% clearance; p = 0.001). Complete mesh degradation concurrent with abscess formation was observed in 100% of rats in the unseeded/E. coli group, which is in contrast to 12.5% of rats in the MSC-seeded/E. coli group. Histologic evaluation determined that remodeling characteristics of E. coli–inoculated MSC-seeded meshes were similar to those of uninfected meshes 4 weeks after implantation. Conclusions: Augmenting a bioprosthetic material with stem cells seems to markedly enhance resistance to bacterial infection in vivo and preserve mesh integrity. PMID:27482490

  13. Modeling and adaptive control of acoustic noise

    NASA Astrophysics Data System (ADS)

    Venugopal, Ravinder

    Active noise control is a problem that receives significant attention in many areas including aerospace and manufacturing. The advent of inexpensive high performance processors has made it possible to implement real-time control algorithms to effect active noise control. Both fixed-gain and adaptive methods may be used to design controllers for this problem. For fixed-gain methods, it is necessary to obtain a mathematical model of the system to design controllers. In addition, models help us gain phenomenological insights into the dynamics of the system. Models are also necessary to perform numerical simulations. However, models are often inadequate for the purpose of controller design because they involve parameters that are difficult to determine and also because there are always unmodeled effects. This fact motivates the use of adaptive algorithms for control since adaptive methods usually require significantly less model information than fixed-gain methods. The first part of this dissertation deals with derivation of a state space model of a one-dimensional acoustic duct. Two types of actuation, namely, a side-mounted speaker (interior control) and an end-mounted speaker (boundary control) are considered. The techniques used to derive the model of the acoustic duct are extended to the problem of fluid surface wave control. A state space model of small amplitude surfaces waves of a fluid in a rectangular container is derived and two types of control methods, namely, surface pressure control and map actuator based control are proposed and analyzed. The second part of this dissertation deals with the development of an adaptive disturbance rejection algorithm that is applied to the problem of active noise control. ARMARKOV models which have the same structure as predictor models are used for system representation. The algorithm requires knowledge of only one path of the system, from control to performance, and does not require a measurement of the disturbance nor

  14. A new spectral finite volume method for elastic wave modelling on unstructured meshes

    NASA Astrophysics Data System (ADS)

    Zhang, Wensheng; Zhuang, Yuan; Chung, Eric T.

    2016-07-01

    In this paper, we consider a new spectral finite volume method (FVM) for the elastic wave equations. Our new FVM is based on a piecewise constant approximation on a fine mesh and a high-order polynomial reconstruction on a coarser mesh. Our new method is constructed based on two existing techniques, the high-order FVM and the spectral FVM. In fact, we will construct a new method to take advantage of both methods. More precisely, our method has two distinctive features. The first one is that the local polynomial reconstructions are performed on the coarse triangles and the reconstruction matrices for all the coarse triangles are the same. This fact enhances the parallelization of our algorithm. We will present a parallel implementation of our method and show excellent efficiency results. The second one is that, by using a suitable number of finer triangles with a coarse triangle, we obtain an overdetermined reconstruction system, which can enhance the robustness of the reconstruction process. To derive our scheme, standard finite volume technique is applied to each fine triangle, and the high-order reconstructed polynomials, computed on coarse triangles, are used to compute numerical fluxes. We will present numerical results to show the performance of our method. Our method is presented for 2-D problems, but the same methodology can be applied to 3-D.

  15. Adaptive human behavior in epidemiological models.

    PubMed

    Fenichel, Eli P; Castillo-Chavez, Carlos; Ceddia, M G; Chowell, Gerardo; Parra, Paula A Gonzalez; Hickling, Graham J; Holloway, Garth; Horan, Richard; Morin, Benjamin; Perrings, Charles; Springborn, Michael; Velazquez, Leticia; Villalobos, Cristina

    2011-04-12

    The science and management of infectious disease are entering a new stage. Increasingly public policy to manage epidemics focuses on motivating people, through social distancing policies, to alter their behavior to reduce contacts and reduce public disease risk. Person-to-person contacts drive human disease dynamics. People value such contacts and are willing to accept some disease risk to gain contact-related benefits. The cost-benefit trade-offs that shape contact behavior, and hence the course of epidemics, are often only implicitly incorporated in epidemiological models. This approach creates difficulty in parsing out the effects of adaptive behavior. We use an epidemiological-economic model of disease dynamics to explicitly model the trade-offs that drive person-to-person contact decisions. Results indicate that including adaptive human behavior significantly changes the predicted course of epidemics and that this inclusion has implications for parameter estimation and interpretation and for the development of social distancing policies. Acknowledging adaptive behavior requires a shift in thinking about epidemiological processes and parameters.

  16. An interoperable, data-structure-neutral component for mesh query and manipulation.

    SciTech Connect

    Ollivier-Gooch, C.; Diachin, L.; Shephard, M. S.; Tautges, T.; Kraftcheck, J.; Leung, V.; Luo, X.; Miller, M.

    2010-01-01

    Much of the effort required to create a new simulation code goes into developing infrastructure for mesh data manipulation, adaptive refinement, design optimization, and so forth. This infrastructure is an obvious target for code reuse, except that implementations of these functionalities are typically tied to specific data structures. In this article, we describe a software component---an abstract data model and programming interface---designed to provide low-level mesh query and manipulation support for meshing and solution algorithms. The component's data model provides a data abstraction, completely hiding all details of how mesh data is stored, while its interface defines how applications can interact with that data. Because the component has been carefully designed to be general purpose and efficient, it provides a practical platform for implementing high-level mesh operations independently of the underlying mesh data structures. After describing the data model and interface, we provide several usage examples, each of which has been used successfully with multiple implementations of the interface functionality. The overhead due to accessing mesh data through the interface rather than directly accessing the underlying mesh data is shown to be acceptably small.

  17. Turing pattern dynamics and adaptive discretization for a super-diffusive Lotka-Volterra model.

    PubMed

    Bendahmane, Mostafa; Ruiz-Baier, Ricardo; Tian, Canrong

    2016-05-01

    In this paper we analyze the effects of introducing the fractional-in-space operator into a Lotka-Volterra competitive model describing population super-diffusion. First, we study how cross super-diffusion influences the formation of spatial patterns: a linear stability analysis is carried out, showing that cross super-diffusion triggers Turing instabilities, whereas classical (self) super-diffusion does not. In addition we perform a weakly nonlinear analysis yielding a system of amplitude equations, whose study shows the stability of Turing steady states. A second goal of this contribution is to propose a fully adaptive multiresolution finite volume method that employs shifted Grünwald gradient approximations, and which is tailored for a larger class of systems involving fractional diffusion operators. The scheme is aimed at efficient dynamic mesh adaptation and substantial savings in computational burden. A numerical simulation of the model was performed near the instability boundaries, confirming the behavior predicted by our analysis.

  18. Turing pattern dynamics and adaptive discretization for a super-diffusive Lotka-Volterra model.

    PubMed

    Bendahmane, Mostafa; Ruiz-Baier, Ricardo; Tian, Canrong

    2016-05-01

    In this paper we analyze the effects of introducing the fractional-in-space operator into a Lotka-Volterra competitive model describing population super-diffusion. First, we study how cross super-diffusion influences the formation of spatial patterns: a linear stability analysis is carried out, showing that cross super-diffusion triggers Turing instabilities, whereas classical (self) super-diffusion does not. In addition we perform a weakly nonlinear analysis yielding a system of amplitude equations, whose study shows the stability of Turing steady states. A second goal of this contribution is to propose a fully adaptive multiresolution finite volume method that employs shifted Grünwald gradient approximations, and which is tailored for a larger class of systems involving fractional diffusion operators. The scheme is aimed at efficient dynamic mesh adaptation and substantial savings in computational burden. A numerical simulation of the model was performed near the instability boundaries, confirming the behavior predicted by our analysis. PMID:26219250

  19. Spectral characteristics of mid-latitude continental convection from a global variable-resolution Voronoi-mesh atmospheric model

    NASA Astrophysics Data System (ADS)

    Wong, M.; Skamarock, W. C.

    2015-12-01

    Global numerical weather forecast tests were performed using the global nonhydrostatic atmospheric model, Model for Prediction Across Scales (MPAS), for the NOAA Storm Prediction Center 2015 Spring Forecast Experiment (May 2015) and the Plains Elevated Convection at Night (PECAN) field campaign (June to mid-July 2015). These two sets of forecasts were performed on 50-to-3 km and 15-to-3 km smoothly-varying horizontal meshes, respectively. Both variable-resolution meshes have nominal convection-permitting 3-km grid spacing over the entire continental US. Here we evaluate the limited-area (vs. global) spectra from these NWP simulations. We will show the simulated spectral characteristics of total kinetic energy, vertical velocity variance, and precipitation during these spring and summer periods when diurnal continental convection is most active over central US. Spectral characteristics of a high-resolution global 3-km simulation (essentially no nesting) from the 20 May 2013 Moore, OK tornado case are also shown. These characteristics include spectral scaling, shape, and anisotropy, as well as the effective resolution of continental convection representation in MPAS.

  20. Controlling Reflections from Mesh Refinement Interfaces in Numerical Relativity

    NASA Technical Reports Server (NTRS)

    Baker, John G.; Van Meter, James R.

    2005-01-01

    A leading approach to improving the accuracy on numerical relativity simulations of black hole systems is through fixed or adaptive mesh refinement techniques. We describe a generic numerical error which manifests as slowly converging, artificial reflections from refinement boundaries in a broad class of mesh-refinement implementations, potentially limiting the effectiveness of mesh- refinement techniques for some numerical relativity applications. We elucidate this numerical effect by presenting a model problem which exhibits the phenomenon, but which is simple enough that its numerical error can be understood analytically. Our analysis shows that the effect is caused by variations in finite differencing error generated across low and high resolution regions, and that its slow convergence is caused by the presence of dramatic speed differences among propagation modes typical of 3+1 relativity. Lastly, we resolve the problem, presenting a class of finite-differencing stencil modifications which eliminate this pathology in both our model problem and in numerical relativity examples.