Adaptive unstructured triangular mesh generation and flow solvers for the Navier-Stokes equations at high Reynolds number

NASA Technical Reports Server (NTRS)

Ashford, Gregory A.; Powell, Kenneth G.

1995-01-01

A method for generating high quality unstructured triangular grids for high Reynolds number Navier-Stokes calculations about complex geometries is described. Careful attention is paid in the mesh generation process to resolving efficiently the disparate length scales which arise in these flows. First the surface mesh is constructed in a way which ensures that the geometry is faithfully represented. The volume mesh generation then proceeds in two phases thus allowing the viscous and inviscid regions of the flow to be meshed optimally. A solution-adaptive remeshing procedure which allows the mesh to adapt itself to flow features is also described. The procedure for tracking wakes and refinement criteria appropriate for shock detection are described. Although at present it has only been implemented in two dimensions, the grid generation process has been designed with the extension to three dimensions in mind. An implicit, higher-order, upwind method is also presented for computing compressible turbulent flows on these meshes. Two recently developed one-equation turbulence models have been implemented to simulate the effects of the fluid turbulence. Results for flow about a RAE 2822 airfoil and a Douglas three-element airfoil are presented which clearly show the improved resolution obtainable.

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.

Front tracking based modeling of the solid grain growth on the adaptive control volume grid

NASA Astrophysics Data System (ADS)

Seredyński, Mirosław; Łapka, Piotr

2017-07-01

The paper presents the micro-scale model of unconstrained solidification of the grain immersed in under-cooled liquid, based on the front tracking approach. For this length scale, the interface tracked through the domain is meant as the solid-liquid boundary. To prevent generation of huge meshes the energy transport equation is discretized on the adaptive control volume (c.v.) mesh. The coupling of dynamically changing mesh and moving front position is addressed. Preliminary results of simulation of a test case, the growth of single grain, are presented and discussed.

Video Vectorization via Tetrahedral Remeshing.

PubMed

Wang, Chuan; Zhu, Jie; Guo, Yanwen; Wang, Wenping

2017-02-09

We present a video vectorization method that generates a video in vector representation from an input video in raster representation. A vector-based video representation offers the benefits of vector graphics, such as compactness and scalability. The vector video we generate is represented by a simplified tetrahedral control mesh over the spatial-temporal video volume, with color attributes defined at the mesh vertices. We present novel techniques for simplification and subdivision of a tetrahedral mesh to achieve high simplification ratio while preserving features and ensuring color fidelity. From an input raster video, our method is capable of generating a compact video in vector representation that allows a faithful reconstruction with low reconstruction errors.

Arbitrary-Order Conservative and Consistent Remapping and a Theory of Linear Maps: Part II

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ullrich, Paul A.; Devendran, Dharshi; Johansen, Hans

2016-04-01

The focus on this series of articles is on the generation of accurate, conservative, consistent, and (optionally) monotone linear offline maps. This paper is the second in the series. It extends on the first part by describing four examples of 2D linear maps that can be constructed in accordance with the theory of the earlier work. The focus is again on spherical geometry, although these techniques can be readily extended to arbitrary manifolds. The four maps include conservative, consistent, and (optionally) monotone linear maps (i) between two finite-volume meshes, (ii) from finite-volume to finite-element meshes using a projection-type approach, (iii)more » from finite-volume to finite-element meshes using volumetric integration, and (iv) between two finite-element meshes. Arbitrary order of accuracy is supported for each of the described nonmonotone maps.« less

Unstructured 3D Delaunay mesh generation applied to planes, trains and automobiles

NASA Technical Reports Server (NTRS)

Blake, Kenneth R.; Spragle, Gregory S.

1993-01-01

Technical issues associated with domain-tessellation production, including initial boundary node triangulation and volume mesh refinement, are presented for the 'TGrid' 3D Delaunay unstructured grid generation program. The approach employed is noted to be capable of preserving predefined triangular surface facets in the final tessellation. The capabilities of the approach are demonstrated by generating grids about an entire fighter aircraft configuration, a train, and a wind tunnel model of an automobile.

Automatic detection of sweep-meshable volumes

DOEpatents

Tautges,; Timothy J. , White; David, R [Pittsburgh, PA

2006-05-23

A method of and software for automatically determining whether a mesh can be generated by sweeping for a representation of a geometric solid comprising: classifying surface mesh schemes for surfaces of the representation locally using surface vertex types; grouping mappable and submappable surfaces of the representation into chains; computing volume edge types for the representation; recursively traversing surfaces of the representation and grouping the surfaces into source, target, and linking surface lists; and checking traversal direction when traversing onto linking surfaces.

Domain decomposition by the advancing-partition method for parallel unstructured grid generation

NASA Technical Reports Server (NTRS)

Banihashemi, legal representative, Soheila (Inventor); Pirzadeh, Shahyar Z. (Inventor)

2012-01-01

In a method for domain decomposition for generating unstructured grids, a surface mesh is generated for a spatial domain. A location of a partition plane dividing the domain into two sections is determined. Triangular faces on the surface mesh that intersect the partition plane are identified. A partition grid of tetrahedral cells, dividing the domain into two sub-domains, is generated using a marching process in which a front comprises only faces of new cells which intersect the partition plane. The partition grid is generated until no active faces remain on the front. Triangular faces on each side of the partition plane are collected into two separate subsets. Each subset of triangular faces is renumbered locally and a local/global mapping is created for each sub-domain. A volume grid is generated for each sub-domain. The partition grid and volume grids are then merged using the local-global mapping.

An overlapped grid method for multigrid, finite volume/difference flow solvers: MaGGiE

NASA Technical Reports Server (NTRS)

Baysal, Oktay; Lessard, Victor R.

1990-01-01

The objective is to develop a domain decomposition method via overlapping/embedding the component grids, which is to be used by upwind, multi-grid, finite volume solution algorithms. A computer code, given the name MaGGiE (Multi-Geometry Grid Embedder) is developed to meet this objective. MaGGiE takes independently generated component grids as input, and automatically constructs the composite mesh and interpolation data, which can be used by the finite volume solution methods with or without multigrid convergence acceleration. Six demonstrative examples showing various aspects of the overlap technique are presented and discussed. These cases are used for developing the procedure for overlapping grids of different topologies, and to evaluate the grid connection and interpolation data for finite volume calculations on a composite mesh. Time fluxes are transferred between mesh interfaces using a trilinear interpolation procedure. Conservation losses are minimal at the interfaces using this method. The multi-grid solution algorithm, using the coaser grid connections, improves the convergence time history as compared to the solution on composite mesh without multi-gridding.

Merging Surface Reconstructions of Terrestrial and Airborne LIDAR Range Data

DTIC Science & Technology

2009-05-19

Mangan and R. Whitaker. Partitioning 3D surface meshes using watershed segmentation . IEEE Trans. on Visualization and Computer Graphics, 5(4), pp...Jain, and A. Zakhor. Data Processing Algorithms for Generating Textured 3D Building Facade Meshes from Laser Scans and Camera Images. International...acquired set of overlapping range images into a single mesh [2,9,10]. However, due to the volume of data involved in large scale urban modeling, data

A software platform for continuum modeling of ion channels based on unstructured mesh

NASA Astrophysics Data System (ADS)

Tu, B.; Bai, S. Y.; Chen, M. X.; Xie, Y.; Zhang, L. B.; Lu, B. Z.

2014-01-01

Most traditional continuum molecular modeling adopted finite difference or finite volume methods which were based on a structured mesh (grid). Unstructured meshes were only occasionally used, but an increased number of applications emerge in molecular simulations. To facilitate the continuum modeling of biomolecular systems based on unstructured meshes, we are developing a software platform with tools which are particularly beneficial to those approaches. This work describes the software system specifically for the simulation of a typical, complex molecular procedure: ion transport through a three-dimensional channel system that consists of a protein and a membrane. The platform contains three parts: a meshing tool chain for ion channel systems, a parallel finite element solver for the Poisson-Nernst-Planck equations describing the electrodiffusion process of ion transport, and a visualization program for continuum molecular modeling. The meshing tool chain in the platform, which consists of a set of mesh generation tools, is able to generate high-quality surface and volume meshes for ion channel systems. The parallel finite element solver in our platform is based on the parallel adaptive finite element package PHG which wass developed by one of the authors [1]. As a featured component of the platform, a new visualization program, VCMM, has specifically been developed for continuum molecular modeling with an emphasis on providing useful facilities for unstructured mesh-based methods and for their output analysis and visualization. VCMM provides a graphic user interface and consists of three modules: a molecular module, a meshing module and a numerical module. A demonstration of the platform is provided with a study of two real proteins, the connexin 26 and hemolysin ion channels.

dfnWorks: A discrete fracture network framework for modeling subsurface flow and transport

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hyman, Jeffrey D.; Karra, Satish; Makedonska, Nataliia

DFNWORKS is a parallelized computational suite to generate three-dimensional discrete fracture networks (DFN) and simulate flow and transport. Developed at Los Alamos National Laboratory over the past five years, it has been used to study flow and transport in fractured media at scales ranging from millimeters to kilometers. The networks are created and meshed using DFNGEN, which combines FRAM (the feature rejection algorithm for meshing) methodology to stochastically generate three-dimensional DFNs with the LaGriT meshing toolbox to create a high-quality computational mesh representation. The representation produces a conforming Delaunay triangulation suitable for high performance computing finite volume solvers in anmore » intrinsically parallel fashion. Flow through the network is simulated in dfnFlow, which utilizes the massively parallel subsurface flow and reactive transport finite volume code PFLOTRAN. A Lagrangian approach to simulating transport through the DFN is adopted within DFNTRANS to determine pathlines and solute transport through the DFN. Example applications of this suite in the areas of nuclear waste repository science, hydraulic fracturing and CO 2 sequestration are also included.« less

dfnWorks: A discrete fracture network framework for modeling subsurface flow and transport

DOE PAGES

Hyman, Jeffrey D.; Karra, Satish; Makedonska, Nataliia; ...

2015-11-01

DFNWORKS is a parallelized computational suite to generate three-dimensional discrete fracture networks (DFN) and simulate flow and transport. Developed at Los Alamos National Laboratory over the past five years, it has been used to study flow and transport in fractured media at scales ranging from millimeters to kilometers. The networks are created and meshed using DFNGEN, which combines FRAM (the feature rejection algorithm for meshing) methodology to stochastically generate three-dimensional DFNs with the LaGriT meshing toolbox to create a high-quality computational mesh representation. The representation produces a conforming Delaunay triangulation suitable for high performance computing finite volume solvers in anmore » intrinsically parallel fashion. Flow through the network is simulated in dfnFlow, which utilizes the massively parallel subsurface flow and reactive transport finite volume code PFLOTRAN. A Lagrangian approach to simulating transport through the DFN is adopted within DFNTRANS to determine pathlines and solute transport through the DFN. Example applications of this suite in the areas of nuclear waste repository science, hydraulic fracturing and CO 2 sequestration are also included.« less

Mesh morphing for finite element analysis of implant positioning in cementless total hip replacements.

PubMed

Bah, Mamadou T; Nair, Prasanth B; Browne, Martin

2009-12-01

Finite element (FE) analysis of the effect of implant positioning on the performance of cementless total hip replacements (THRs) requires the generation of multiple meshes to account for positioning variability. This process can be labour intensive and time consuming as CAD operations are needed each time a specific orientation is to be analysed. In the present work, a mesh morphing technique is developed to automate the model generation process. The volume mesh of a baseline femur with the implant in a nominal position is deformed as the prosthesis location is varied. A virtual deformation field, obtained by solving a linear elasticity problem with appropriate boundary conditions, is applied. The effectiveness of the technique is evaluated using two metrics: the percentages of morphed elements exceeding an aspect ratio of 20 and an angle of 165 degrees between the adjacent edges of each tetrahedron. Results show that for 100 different implant positions, the first and second metrics never exceed 3% and 3.5%, respectively. To further validate the proposed technique, FE contact analyses are conducted using three selected morphed models to predict the strain distribution in the bone and the implant micromotion under joint and muscle loading. The entire bone strain distribution is well captured and both percentages of bone volume with strain exceeding 0.7% and bone average strains are accurately computed. The results generated from the morphed mesh models correlate well with those for models generated from scratch, increasing confidence in the methodology. This morphing technique forms an accurate and efficient basis for FE based implant orientation and stability analysis of cementless hip replacements.

Quasi-automatic 3D finite element model generation for individual single-rooted teeth and periodontal ligament.

PubMed

Clement, R; Schneider, J; Brambs, H-J; Wunderlich, A; Geiger, M; Sander, F G

2004-02-01

The paper demonstrates how to generate an individual 3D volume model of a human single-rooted tooth using an automatic workflow. It can be implemented into finite element simulation. In several computational steps, computed tomography data of patients are used to obtain the global coordinates of the tooth's surface. First, the large number of geometric data is processed with several self-developed algorithms for a significant reduction. The most important task is to keep geometrical information of the real tooth. The second main part includes the creation of the volume model for tooth and periodontal ligament (PDL). This is realized with a continuous free form surface of the tooth based on the remaining points. Generating such irregular objects for numerical use in biomechanical research normally requires enormous manual effort and time. The finite element mesh of the tooth, consisting of hexahedral elements, is composed of different materials: dentin, PDL and surrounding alveolar bone. It is capable of simulating tooth movement in a finite element analysis and may give valuable information for a clinical approach without the restrictions of tetrahedral elements. The mesh generator of FE software ANSYS executed the mesh process for hexahedral elements successfully.

Polyhedral meshing in numerical analysis of conjugate heat transfer

NASA Astrophysics Data System (ADS)

Sosnowski, Marcin; Krzywanski, Jaroslaw; Grabowska, Karolina; Gnatowska, Renata

2018-06-01

Computational methods have been widely applied in conjugate heat transfer analysis. The very first and crucial step in such research is the meshing process which consists in dividing the analysed geometry into numerous small control volumes (cells). In Computational Fluid Dynamics (CFD) applications it is desirable to use the hexahedral cells as the resulting mesh is characterized by low numerical diffusion. Unfortunately generating such mesh can be a very time-consuming task and in case of complicated geometry - it may not be possible to generate cells of good quality. Therefore tetrahedral cells have been implemented into commercial pre-processors. Their advantage is the ease of its generation even in case of very complex geometry. On the other hand tetrahedrons cannot be stretched excessively without decreasing the mesh quality factor, so significantly larger number of cells has to be used in comparison to hexahedral mesh in order to achieve a reasonable accuracy. Moreover the numerical diffusion of tetrahedral elements is significantly higher. Therefore the polyhedral cells are proposed within the paper in order to combine the advantages of hexahedrons (low numerical diffusion resulting in accurate solution) and tetrahedrons (rapid semi-automatic generation) as well as to overcome the disadvantages of both the above mentioned mesh types. The major benefit of polyhedral mesh is that each individual cell has many neighbours, so gradients can be well approximated. Polyhedrons are also less sensitive to stretching than tetrahedrons which results in better mesh quality leading to improved numerical stability of the model. In addition, numerical diffusion is reduced due to mass exchange over numerous faces. This leads to a more accurate solution achieved with a lower cell count. Therefore detailed comparison of numerical modelling results concerning conjugate heat transfer using tetrahedral and polyhedral meshes is presented in the paper.

Discrete Surface Evolution and Mesh Deformation for Aircraft Icing Applications

NASA Technical Reports Server (NTRS)

Thompson, David; Tong, Xiaoling; Arnoldus, Qiuhan; Collins, Eric; McLaurin, David; Luke, Edward; Bidwell, Colin S.

2013-01-01

Robust, automated mesh generation for problems with deforming geometries, such as ice accreting on aerodynamic surfaces, remains a challenging problem. Here we describe a technique to deform a discrete surface as it evolves due to the accretion of ice. The surface evolution algorithm is based on a smoothed, face-offsetting approach. We also describe a fast algebraic technique to propagate the computed surface deformations into the surrounding volume mesh while maintaining geometric mesh quality. Preliminary results presented here demonstrate the ecacy of the approach for a sphere with a prescribed accretion rate, a rime ice accretion, and a more complex glaze ice accretion.

Dynamic Mesh Adaptation for Front Evolution Using Discontinuous Galerkin Based Weighted Condition Number Mesh Relaxation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Greene, Patrick T.; Schofield, Samuel P.; Nourgaliev, Robert

2016-06-21

A new mesh smoothing method designed to cluster mesh cells near a dynamically evolving interface is presented. The method is based on weighted condition number mesh relaxation with the weight function being computed from a level set representation of the interface. The weight function is expressed as a Taylor series based discontinuous Galerkin projection, which makes the computation of the derivatives of the weight function needed during the condition number optimization process a trivial matter. For cases when a level set is not available, a fast method for generating a low-order level set from discrete cell-centered elds, such as amore » volume fraction or index function, is provided. Results show that the low-order level set works equally well for the weight function as the actual level set. Meshes generated for a number of interface geometries are presented, including cases with multiple level sets. Dynamic cases for moving interfaces are presented to demonstrate the method's potential usefulness to arbitrary Lagrangian Eulerian (ALE) methods.« less

A general gridding, discretization, and coarsening methodology for modeling flow in porous formations with discrete geological features

NASA Astrophysics Data System (ADS)

Karimi-Fard, M.; Durlofsky, L. J.

2016-10-01

A comprehensive framework for modeling flow in porous media containing thin, discrete features, which could be high-permeability fractures or low-permeability deformation bands, is presented. The key steps of the methodology are mesh generation, fine-grid discretization, upscaling, and coarse-grid discretization. Our specialized gridding technique combines a set of intersecting triangulated surfaces by constructing approximate intersections using existing edges. This procedure creates a conforming mesh of all surfaces, which defines the internal boundaries for the volumetric mesh. The flow equations are discretized on this conforming fine mesh using an optimized two-point flux finite-volume approximation. The resulting discrete model is represented by a list of control-volumes with associated positions and pore-volumes, and a list of cell-to-cell connections with associated transmissibilities. Coarse models are then constructed by the aggregation of fine-grid cells, and the transmissibilities between adjacent coarse cells are obtained using flow-based upscaling procedures. Through appropriate computation of fracture-matrix transmissibilities, a dual-continuum representation is obtained on the coarse scale in regions with connected fracture networks. The fine and coarse discrete models generated within the framework are compatible with any connectivity-based simulator. The applicability of the methodology is illustrated for several two- and three-dimensional examples. In particular, we consider gas production from naturally fractured low-permeability formations, and transport through complex fracture networks. In all cases, highly accurate solutions are obtained with significant model reduction.

LBMD : a layer-based mesh data structure tailored for generic API infrastructures.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ebeida, Mohamed S.; Knupp, Patrick Michael

2010-11-01

A new mesh data structure is introduced for the purpose of mesh processing in Application Programming Interface (API) infrastructures. This data structure utilizes a reduced mesh representation to increase its ability to handle significantly larger meshes compared to full mesh representation. In spite of the reduced representation, each mesh entity (vertex, edge, face, and region) is represented using a unique handle, with no extra storage cost, which is a crucial requirement in most API libraries. The concept of mesh layers makes the data structure more flexible for mesh generation and mesh modification operations. This flexibility can have a favorable impactmore » in solver based queries of finite volume and multigrid methods. The capabilities of LBMD make it even more attractive for parallel implementations using Message Passing Interface (MPI) or Graphics Processing Units (GPUs). The data structure is associated with a new classification method to relate mesh entities to their corresponding geometrical entities. The classification technique stores the related information at the node level without introducing any ambiguities. Several examples are presented to illustrate the strength of this new data structure.« less

An adaptive moving finite volume scheme for modeling flood inundation over dry and complex topography

NASA Astrophysics Data System (ADS)

Zhou, Feng; Chen, Guoxian; Huang, Yuefei; Yang, Jerry Zhijian; Feng, Hui

2013-04-01

A new geometrical conservative interpolation on unstructured meshes is developed for preserving still water equilibrium and positivity of water depth at each iteration of mesh movement, leading to an adaptive moving finite volume (AMFV) scheme for modeling flood inundation over dry and complex topography. Unlike traditional schemes involving position-fixed meshes, the iteration process of the AFMV scheme moves a fewer number of the meshes adaptively in response to flow variables calculated in prior solutions and then simulates their posterior values on the new meshes. At each time step of the simulation, the AMFV scheme consists of three parts: an adaptive mesh movement to shift the vertices position, a geometrical conservative interpolation to remap the flow variables by summing the total mass over old meshes to avoid the generation of spurious waves, and a partial differential equations(PDEs) discretization to update the flow variables for a new time step. Five different test cases are presented to verify the computational advantages of the proposed scheme over nonadaptive methods. The results reveal three attractive features: (i) the AMFV scheme could preserve still water equilibrium and positivity of water depth within both mesh movement and PDE discretization steps; (ii) it improved the shock-capturing capability for handling topographic source terms and wet-dry interfaces by moving triangular meshes to approximate the spatial distribution of time-variant flood processes; (iii) it was able to solve the shallow water equations with a relatively higher accuracy and spatial-resolution with a lower computational cost.

Comments on the Diffusive Behavior of Two Upwind Schemes

NASA Technical Reports Server (NTRS)

Wood, William A.; Kleb, William L.

1998-01-01

The diffusive characteristics of two upwind schemes, multi-dimensional fluctuation splitting and locally one-dimensional finite volume, are compared for scalar advection-diffusion problems. Algorithms for the two schemes are developed for node-based data representation on median-dual meshes associated with unstructured triangulations in two spatial dimensions. Four model equations are considered: linear advection, non-linear advection, diffusion, and advection-diffusion. Modular coding is employed to isolate the effects of the two approaches for upwind flux evaluation, allowing for head-to-head accuracy and efficiency comparisons. Both the stability of compressive limiters and the amount of artificial diffusion generated by the schemes is found to be grid-orientation dependent, with the fluctuation splitting scheme producing less artificial diffusion than the finite volume scheme. Convergence rates are compared for the combined advection-diffusion problem, with a speedup of 2.5 seen for fluctuation splitting versus finite volume when solved on the same mesh. However, accurate solutions to problems with small diffusion coefficients can be achieved on coarser meshes using fluctuation splitting rather than finite volume, so that when comparing convergence rates to reach a given accuracy, fluctuation splitting shows a speedup of 29 over finite volume.

Diffusion Characteristics of Upwind Schemes on Unstructured Triangulations

NASA Technical Reports Server (NTRS)

Wood, William A.; Kleb, William L.

1998-01-01

The diffusive characteristics of two upwind schemes, multi-dimensional fluctuation splitting and dimensionally-split finite volume, are compared for scalar advection-diffusion problems. Algorithms for the two schemes are developed for node-based data representation on median-dual meshes associated with unstructured triangulations in two spatial dimensions. Four model equations are considered: linear advection, non-linear advection, diffusion, and advection-diffusion. Modular coding is employed to isolate the effects of the two approaches for upwind flux evaluation, allowing for head-to-head accuracy and efficiency comparisons. Both the stability of compressive limiters and the amount of artificial diffusion generated by the schemes is found to be grid-orientation dependent, with the fluctuation splitting scheme producing less artificial diffusion than the dimensionally-split finite volume scheme. Convergence rates are compared for the combined advection-diffusion problem, with a speedup of 2-3 seen for fluctuation splitting versus finite volume when solved on the same mesh. However, accurate solutions to problems with small diffusion coefficients can be achieved on coarser meshes using fluctuation splitting rather than finite volume, so that when comparing convergence rates to reach a given accuracy, fluctuation splitting shows a 20-25 speedup over finite volume.

Development of a hip joint model for finite volume simulations.

PubMed

Cardiff, P; Karač, A; FitzPatrick, D; Ivanković, A

2014-01-01

This paper establishes a procedure for numerical analysis of a hip joint using the finite volume method. Patient-specific hip joint geometry is segmented directly from computed tomography and magnetic resonance imaging datasets and the resulting bone surfaces are processed into a form suitable for volume meshing. A high resolution continuum tetrahedral mesh has been generated, where a sandwich model approach is adopted; the bones are represented as a stiffer cortical shells surrounding more flexible cancellous cores. Cartilage is included as a uniform thickness extruded layer and the effect of layer thickness is investigated. To realistically position the bones, gait analysis has been performed giving the 3D positions of the bones for the full gait cycle. Three phases of the gait cycle are examined using a finite volume based custom structural contact solver implemented in open-source software OpenFOAM.

Aspects of Unstructured Grids and Finite-Volume Solvers for the Euler and Navier-Stokes Equations

NASA Technical Reports Server (NTRS)

Barth, Timothy J.

1992-01-01

One of the major achievements in engineering science has been the development of computer algorithms for solving nonlinear differential equations such as the Navier-Stokes equations. In the past, limited computer resources have motivated the development of efficient numerical schemes in computational fluid dynamics (CFD) utilizing structured meshes. The use of structured meshes greatly simplifies the implementation of CFD algorithms on conventional computers. Unstructured grids on the other hand offer an alternative to modeling complex geometries. Unstructured meshes have irregular connectivity and usually contain combinations of triangles, quadrilaterals, tetrahedra, and hexahedra. The generation and use of unstructured grids poses new challenges in CFD. The purpose of this note is to present recent developments in the unstructured grid generation and flow solution technology.

Dynamic mesh adaptation for front evolution using discontinuous Galerkin based weighted condition number relaxation

DOE PAGES

Greene, Patrick T.; Schofield, Samuel P.; Nourgaliev, Robert

2017-01-27

A new mesh smoothing method designed to cluster cells near a dynamically evolving interface is presented. The method is based on weighted condition number mesh relaxation with the weight function computed from a level set representation of the interface. The weight function is expressed as a Taylor series based discontinuous Galerkin projection, which makes the computation of the derivatives of the weight function needed during the condition number optimization process a trivial matter. For cases when a level set is not available, a fast method for generating a low-order level set from discrete cell-centered fields, such as a volume fractionmore » or index function, is provided. Results show that the low-order level set works equally well as the actual level set for mesh smoothing. Meshes generated for a number of interface geometries are presented, including cases with multiple level sets. Lastly, dynamic cases with moving interfaces show the new method is capable of maintaining a desired resolution near the interface with an acceptable number of relaxation iterations per time step, which demonstrates the method's potential to be used as a mesh relaxer for arbitrary Lagrangian Eulerian (ALE) methods.« less

Computing volume potentials for noninvasive imaging of cardiac excitation.

PubMed

van der Graaf, A W Maurits; Bhagirath, Pranav; van Driel, Vincent J H M; Ramanna, Hemanth; de Hooge, Jacques; de Groot, Natasja M S; Götte, Marco J W

2015-03-01

In noninvasive imaging of cardiac excitation, the use of body surface potentials (BSP) rather than body volume potentials (BVP) has been favored due to enhanced computational efficiency and reduced modeling effort. Nowadays, increased computational power and the availability of open source software enable the calculation of BVP for clinical purposes. In order to illustrate the possible advantages of this approach, the explanatory power of BVP is investigated using a rectangular tank filled with an electrolytic conductor and a patient specific three dimensional model. MRI images of the tank and of a patient were obtained in three orthogonal directions using a turbo spin echo MRI sequence. MRI images were segmented in three dimensional using custom written software. Gmsh software was used for mesh generation. BVP were computed using a transfer matrix and FEniCS software. The solution for 240,000 nodes, corresponding to a resolution of 5 mm throughout the thorax volume, was computed in 3 minutes. The tank experiment revealed that an increased electrode surface renders the position of the 4 V equipotential plane insensitive to mesh cell size and reduces simulated deviations. In the patient-specific model, the impact of assigning a different conductivity to lung tissue on the distribution of volume potentials could be visualized. Generation of high quality volume meshes and computation of BVP with a resolution of 5 mm is feasible using generally available software and hardware. Estimation of BVP may lead to an improved understanding of the genesis of BSP and sources of local inaccuracies. © 2014 Wiley Periodicals, Inc.

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.

Optimization-based mesh correction with volume and convexity constraints

DOE PAGES

D'Elia, Marta; Ridzal, Denis; Peterson, Kara J.; ...

2016-02-24

In this study, we consider the problem of finding a mesh such that 1) it is the closest, with respect to a suitable metric, to a given source mesh having the same connectivity, and 2) the volumes of its cells match a set of prescribed positive values that are not necessarily equal to the cell volumes in the source mesh. This volume correction problem arises in important simulation contexts, such as satisfying a discrete geometric conservation law and solving transport equations by incremental remapping or similar semi-Lagrangian transport schemes. In this paper we formulate volume correction as a constrained optimizationmore » problem in which the distance to the source mesh defines an optimization objective, while the prescribed cell volumes, mesh validity and/or cell convexity specify the constraints. We solve this problem numerically using a sequential quadratic programming (SQP) method whose performance scales with the mesh size. To achieve scalable performance we develop a specialized multigrid-based preconditioner for optimality systems that arise in the application of the SQP method to the volume correction problem. Numerical examples illustrate the importance of volume correction, and showcase the accuracy, robustness and scalability of our approach.« less

Improvements to the Unstructured Mesh Generator MESH3D

NASA Technical Reports Server (NTRS)

Thomas, Scott D.; Baker, Timothy J.; Cliff, Susan E.

1999-01-01

The AIRPLANE process starts with an aircraft geometry stored in a CAD system. The surface is modeled with a mesh of triangles and then the flow solver produces pressures at surface points which may be integrated to find forces and moments. The biggest advantage is that the grid generation bottleneck of the CFD process is eliminated when an unstructured tetrahedral mesh is used. MESH3D is the key to turning around the first analysis of a CAD geometry in days instead of weeks. The flow solver part of AIRPLANE has proven to be robust and accurate over a decade of use at NASA. It has been extensively validated with experimental data and compares well with other Euler flow solvers. AIRPLANE has been applied to all the HSR geometries treated at Ames over the course of the HSR program in order to verify the accuracy of other flow solvers. The unstructured approach makes handling complete and complex geometries very simple because only the surface of the aircraft needs to be discretized, i.e. covered with triangles. The volume mesh is created automatically by MESH3D. AIRPLANE runs well on multiple platforms. Vectorization on the Cray Y-MP is reasonable for a code that uses indirect addressing. Massively parallel computers such as the IBM SP2, SGI Origin 2000, and the Cray T3E have been used with an MPI version of the flow solver and the code scales very well on these systems. AIRPLANE can run on a desktop computer as well. AIRPLANE has a future. The unstructured technologies developed as part of the HSR program are now targeting high Reynolds number viscous flow simulation. The pacing item in this effort is Navier-Stokes mesh generation.

Constrained CVT meshes and a comparison of triangular mesh generators

DOE Office of Scientific and Technical Information (OSTI.GOV)

Nguyen, Hoa; Burkardt, John; Gunzburger, Max

2009-01-01

Mesh generation in regions in Euclidean space is a central task in computational science, and especially for commonly used numerical methods for the solution of partial differential equations, e.g., finite element and finite volume methods. We focus on the uniform Delaunay triangulation of planar regions and, in particular, on how one selects the positions of the vertices of the triangulation. We discuss a recently developed method, based on the centroidal Voronoi tessellation (CVT) concept, for effecting such triangulations and present two algorithms, including one new one, for CVT-based grid generation. We also compare several methods, including CVT-based methods, for triangulatingmore » planar domains. To this end, we define several quantitative measures of the quality of uniform grids. We then generate triangulations of several planar regions, including some having complexities that are representative of what one may encounter in practice. We subject the resulting grids to visual and quantitative comparisons and conclude that all the methods considered produce high-quality uniform grids and that the CVT-based grids are at least as good as any of the others.« less

Development of a Dynamically Configurable, Object-Oriented Framework for Distributed, Multi-modal Computational Aerospace Systems Simulation: Second Year Progress Report

NASA Technical Reports Server (NTRS)

Afjeh, Abdollah A.; Reed, John A.

2003-01-01

Mesh generation has long been recognized as a bottleneck in the CFD process. While much research on automating the volume mesh generation process have been relatively successful,these methods rely on appropriate initial surface triangulation to work properly. Surface discretization has been one of the least automated steps in computational simulation due to its dependence on implicitly defined CAD surfaces and curves. Differences in CAD peometry engines manifest themselves in discrepancies in their interpretation of the same entities. This lack of "good" geometry causes significant problems for mesh generators, requiring users to "repair" the CAD geometry before mesh generation. The problem is exacerbated when CAD geometry is translated to other forms (e.g., IGES )which do not include important topological and construction information in addition to entity geometry. One technique to avoid these problems is to access the CAD geometry directly from the mesh generating software, rather than through files. By accessing the geometry model (not a discretized version) in its native environment, t h s a proach avoids translation to a format which can deplete the model of topological information. Our approach to enable models developed in the Denali software environment to directly access CAD geometry and functions is through an Application Programming Interface (API) known as CAPRI. CAPRI provides a layer of indirection through which CAD-specific data may be accessed by an application program using CAD-system neutral C and FORTRAN language function calls. CAPRI supports a general set of CAD operations such as truth testing, geometry construction and entity queries.

The Role of the Surgeon on Outcomes of Vaginal Prolapse Surgery With Mesh.

PubMed

Eilber, Karyn S; Alperin, Marianna; Khan, Aqsa; Wu, Ning; Pashos, Chris L; Clemens, J Quentin; Anger, Jennifer T

Adverse outcomes after surgery for pelvic organ prolapse (POP) with mesh are often attributed to the mesh material with little attention paid to the influence of surgeon factors. We used a national data set to determine whether surgeon case volume and specialty influenced vaginal prolapse surgery outcomes with mesh. Public Use File data on a 5% random national sample of female Medicare beneficiaries were obtained from the Centers for Medicare and Medicaid Services. Women with a diagnosis of POP who underwent surgery with mesh between 2007 and 2008 were identified by relevant International Classification of Diseases, 9th Revision, Clinical Modification and Current Procedural Terminology, 4th Edition procedure codes. Outcomes were compared by surgeon case volume and specialty. From 2007 to 2008, 1657 surgeries for POP were performed with mesh. Low-, intermediate-, and high-volume surgeons performed 881 (53%), 408 (25%), and 368 (22%) of the cases with mesh, respectively. The cumulative reoperation rates for low-, intermediate-, and high-volume providers were 6%, 2%, and 3%, respectively. The difference in reoperation rates between low and intermediate and low- and high-volume surgeons was statistically significant (P = 0.007 and 0.003, respectively). There was no significant difference in reoperation rates between gynecologists and urologists when vaginal mesh was implanted for POP surgery. Low-volume surgeons performed most of the vaginal prolapse repairs with mesh and had significantly higher reoperation rates. Surgeon experience must be a consideration when reporting mesh-related complications of POP surgery.

Three Dimensional Projection Environment for Molecular Design and Surgical Simulation

DTIC Science & Technology

2011-08-01

bypasses the cumbersome meshing process . The deformation model is only comprised of mass nodes, which are generated by sampling the object volume before...force should minimize the penetration volume, the haptic feedback force is derived directly. Additionally, a post- processing technique is developed to...render distinct physi-cal tissue properties across different interaction areas. The proposed approach does not require any pre- processing and is

Boundary Recovery For Delaunay Tetrahedral Meshes Using Local Topological Transformations

PubMed Central

Ghadyani, Hamid; Sullivan, John; Wu, Ziji

2009-01-01

Numerous high-quality, volume mesh-generation systems exist. However, no strategy can address all geometry situations without some element qualities being compromised. Many 3D mesh generation algorithms are based on Delaunay tetrahedralization which frequently fails to preserve the input boundary surface topology. For biomedical applications, this surface preservation can be critical as they usually contain multiple material regions of interest coherently connected. In this paper we present an algorithm as a post-processing method that optimizes local regions of compromised element quality and recovers the original boundary surface facets (triangles) regardless of the original mesh generation strategy. The algorithm carves out a small sub-volume in the vicinity of the missing boundary facet or compromised element, creating a cavity. If the task is to recover a surface boundary facet, a natural exit hole in the cavity will be present. This hole is patched with the missing boundary surface face first followed by other patches to seal the cavity. If the task was to improve a compromised region, then the cavity is already sealed. Every triangular facet of the cavity shell is classified as an active face and can be connected to another shell node creating a tetrahedron. In the process the base of the tetrahedron is removed from the active face list and potentially 3 new active faces are created. This methodology is the underpinnings of our last resort method. Each active face can be viewed as the trunk of a tree. An exhaustive breath and depth search will identify all possible tetrahedral combinations to uniquely fill the cavity. We have streamlined this recursive process reducing the time complexity by orders of magnitude. The original surfaces boundaries (internal and external) are fully restored and the quality of compromised regions improved. PMID:20305743

Spatial Convergence of Three Dimensional Turbulent Flows

NASA Technical Reports Server (NTRS)

Park, Michael A.; Anderson, W. Kyle

2016-01-01

Finite-volume and finite-element schemes, both implemented within the FUN3D flow solver, are evaluated for several test cases described on the Turbulence-Modeling Resource (TMR) web site. The cases include subsonic flow over a hemisphere cylinder, subsonic flow over a swept bump configuration, and supersonic flow in a square duct. The finite- volume and finite-element schemes are both used to obtain solutions for the first two cases, whereas only the finite-volume scheme is used for the supersonic duct. For the hemisphere cylinder, finite-element solutions obtained on tetrahedral meshes are compared with finite- volume solutions on mixed-element meshes. For the swept bump, finite-volume solutions have been obtained for both hexahedral and tetrahedral meshes and are compared with finite-element solutions obtained on tetrahedral meshes. For the hemisphere cylinder and the swept bump, solutions are obtained on a series of meshes with varying grid density and comparisons are made between drag coefficients, pressure distributions, velocity profiles, and profiles of the turbulence working variable. The square duct shows small variation due to element type or the spatial accuracy of turbulence model convection. It is demonstrated that the finite-element scheme on tetrahedral meshes yields similar accuracy as the finite- volume scheme on mixed-element and hexahedral grids, and demonstrates less sensitivity to the mesh topology (biased tetrahedral grids) than the finite-volume scheme.

TESS: A RELATIVISTIC HYDRODYNAMICS CODE ON A MOVING VORONOI MESH

DOE Office of Scientific and Technical Information (OSTI.GOV)

Duffell, Paul C.; MacFadyen, Andrew I., E-mail: pcd233@nyu.edu, E-mail: macfadyen@nyu.edu

2011-12-01

We have generalized a method for the numerical solution of hyperbolic systems of equations using a dynamic Voronoi tessellation of the computational domain. The Voronoi tessellation is used to generate moving computational meshes for the solution of multidimensional systems of conservation laws in finite-volume form. The mesh-generating points are free to move with arbitrary velocity, with the choice of zero velocity resulting in an Eulerian formulation. Moving the points at the local fluid velocity makes the formulation effectively Lagrangian. We have written the TESS code to solve the equations of compressible hydrodynamics and magnetohydrodynamics for both relativistic and non-relativistic fluidsmore » on a dynamic Voronoi mesh. When run in Lagrangian mode, TESS is significantly less diffusive than fixed mesh codes and thus preserves contact discontinuities to high precision while also accurately capturing strong shock waves. TESS is written for Cartesian, spherical, and cylindrical coordinates and is modular so that auxiliary physics solvers are readily integrated into the TESS framework and so that this can be readily adapted to solve general systems of equations. We present results from a series of test problems to demonstrate the performance of TESS and to highlight some of the advantages of the dynamic tessellation method for solving challenging problems in astrophysical fluid dynamics.« less

Arbitrary-Lagrangian-Eulerian Discontinuous Galerkin schemes with a posteriori subcell finite volume limiting on moving unstructured meshes

NASA Astrophysics Data System (ADS)

Boscheri, Walter; Dumbser, Michael

2017-10-01

We present a new family of high order accurate fully discrete one-step Discontinuous Galerkin (DG) finite element schemes on moving unstructured meshes for the solution of nonlinear hyperbolic PDE in multiple space dimensions, which may also include parabolic terms in order to model dissipative transport processes, like molecular viscosity or heat conduction. High order piecewise polynomials of degree N are adopted to represent the discrete solution at each time level and within each spatial control volume of the computational grid, while high order of accuracy in time is achieved by the ADER approach, making use of an element-local space-time Galerkin finite element predictor. A novel nodal solver algorithm based on the HLL flux is derived to compute the velocity for each nodal degree of freedom that describes the current mesh geometry. In our algorithm the spatial mesh configuration can be defined in two different ways: either by an isoparametric approach that generates curved control volumes, or by a piecewise linear decomposition of each spatial control volume into simplex sub-elements. Each technique generates a corresponding number of geometrical degrees of freedom needed to describe the current mesh configuration and which must be considered by the nodal solver for determining the grid velocity. The connection of the old mesh configuration at time tn with the new one at time t n + 1 provides the space-time control volumes on which the governing equations have to be integrated in order to obtain the time evolution of the discrete solution. Our numerical method belongs to the category of so-called direct Arbitrary-Lagrangian-Eulerian (ALE) schemes, where a space-time conservation formulation of the governing PDE system is considered and which already takes into account the new grid geometry (including a possible rezoning step) directly during the computation of the numerical fluxes. We emphasize that our method is a moving mesh method, as opposed to total Lagrangian formulations that are based on a fixed computational grid and which instead evolve the mapping of the reference configuration to the current one. Our new Lagrangian-type DG scheme adopts the novel a posteriori sub-cell finite volume limiter method recently developed in [62] for fixed unstructured grids. In this approach, the validity of the candidate solution produced in each cell by an unlimited ADER-DG scheme is verified against a set of physical and numerical detection criteria, such as the positivity of pressure and density, the absence of floating point errors (NaN) and the satisfaction of a relaxed discrete maximum principle (DMP) in the sense of polynomials. Those cells which do not satisfy all of the above criteria are flagged as troubled cells and are recomputed at the aid of a more robust second order TVD finite volume scheme. To preserve the subcell resolution capability of the original DG scheme, the FV limiter is run on a sub-grid that is 2 N + 1 times finer compared to the mesh of the original unlimited DG scheme. The new subcell averages are then gathered back into a high order DG polynomial by a usual conservative finite volume reconstruction operator. The numerical convergence rates of the new ALE ADER-DG schemes are studied up to fourth order in space and time and several test problems are simulated in order to check the accuracy and the robustness of the proposed numerical method in the context of the Euler and Navier-Stokes equations for compressible gas dynamics, considering both inviscid and viscous fluids. Finally, an application inspired by Inertial Confinement Fusion (ICF) type flows is considered by solving the Euler equations and the PDE of viscous and resistive magnetohydrodynamics (VRMHD).

Adaptive Multilinear Tensor Product Wavelets

DOE PAGES

Weiss, Kenneth; Lindstrom, Peter

2015-08-12

Many foundational visualization techniques including isosurfacing, direct volume rendering and texture mapping rely on piecewise multilinear interpolation over the cells of a mesh. However, there has not been much focus within the visualization community on techniques that efficiently generate and encode globally continuous functions defined by the union of multilinear cells. Wavelets provide a rich context for analyzing and processing complicated datasets. In this paper, we exploit adaptive regular refinement as a means of representing and evaluating functions described by a subset of their nonzero wavelet coefficients. We analyze the dependencies involved in the wavelet transform and describe how tomore » generate and represent the coarsest adaptive mesh with nodal function values such that the inverse wavelet transform is exactly reproduced via simple interpolation (subdivision) over the mesh elements. This allows for an adaptive, sparse representation of the function with on-demand evaluation at any point in the domain. In conclusion, we focus on the popular wavelets formed by tensor products of linear B-splines, resulting in an adaptive, nonconforming but crack-free quadtree (2D) or octree (3D) mesh that allows reproducing globally continuous functions via multilinear interpolation over its cells.« less

Direct Replacement of Arbitrary Grid-Overlapping by Non-Structured Grid

NASA Technical Reports Server (NTRS)

Kao, Kai-Hsiung; Liou, Meng-Sing

1994-01-01

A new approach that uses nonstructured mesh to replace the arbitrarily overlapped structured regions of embedded grids is presented. The present methodology uses the Chimera composite overlapping mesh system so that the physical domain of the flowfield is subdivided into regions which can accommodate easily-generated grid for complex configuration. In addition, a Delaunay triangulation technique generates nonstructured triangular mesh which wraps over the interconnecting region of embedded grids. It is designed that the present approach, termed DRAGON grid, has three important advantages: eliminating some difficulties of the Chimera scheme, such as the orphan points and/or bad quality of interpolation stencils; making grid communication in a fully conservative way; and implementation into three dimensions is straightforward. A computer code based on a time accurate, finite volume, high resolution scheme for solving the compressible Navier-Stokes equations has been further developed to include both the Chimera overset grid and the nonstructured mesh schemes. For steady state problems, the local time stepping accelerates convergence based on a Courant - Friedrichs - Leury (CFL) number near the local stability limit. Numerical tests on representative steady and unsteady supersonic inviscid flows with strong shock waves are demonstrated.

Advances in Parallelization for Large Scale Oct-Tree Mesh Generation

NASA Technical Reports Server (NTRS)

O'Connell, Matthew; Karman, Steve L.

2015-01-01

Despite great advancements in the parallelization of numerical simulation codes over the last 20 years, it is still common to perform grid generation in serial. Generating large scale grids in serial often requires using special "grid generation" compute machines that can have more than ten times the memory of average machines. While some parallel mesh generation techniques have been proposed, generating very large meshes for LES or aeroacoustic simulations is still a challenging problem. An automated method for the parallel generation of very large scale off-body hierarchical meshes is presented here. This work enables large scale parallel generation of off-body meshes by using a novel combination of parallel grid generation techniques and a hybrid "top down" and "bottom up" oct-tree method. Meshes are generated using hardware commonly found in parallel compute clusters. The capability to generate very large meshes is demonstrated by the generation of off-body meshes surrounding complex aerospace geometries. Results are shown including a one billion cell mesh generated around a Predator Unmanned Aerial Vehicle geometry, which was generated on 64 processors in under 45 minutes.

Orbital and maxillofacial computer aided surgery: patient-specific finite element models to predict surgical outcomes.

PubMed

Luboz, Vincent; Chabanas, Matthieu; Swider, Pascal; Payan, Yohan

2005-08-01

This paper addresses an important issue raised for the clinical relevance of Computer-Assisted Surgical applications, namely the methodology used to automatically build patient-specific finite element (FE) models of anatomical structures. From this perspective, a method is proposed, based on a technique called the mesh-matching method, followed by a process that corrects mesh irregularities. The mesh-matching algorithm generates patient-specific volume meshes from an existing generic model. The mesh regularization process is based on the Jacobian matrix transform related to the FE reference element and the current element. This method for generating patient-specific FE models is first applied to computer-assisted maxillofacial surgery, and more precisely, to the FE elastic modelling of patient facial soft tissues. For each patient, the planned bone osteotomies (mandible, maxilla, chin) are used as boundary conditions to deform the FE face model, in order to predict the aesthetic outcome of the surgery. Seven FE patient-specific models were successfully generated by our method. For one patient, the prediction of the FE model is qualitatively compared with the patient's post-operative appearance, measured from a computer tomography scan. Then, our methodology is applied to computer-assisted orbital surgery. It is, therefore, evaluated for the generation of 11 patient-specific FE poroelastic models of the orbital soft tissues. These models are used to predict the consequences of the surgical decompression of the orbit. More precisely, an average law is extrapolated from the simulations carried out for each patient model. This law links the size of the osteotomy (i.e. the surgical gesture) and the backward displacement of the eyeball (the consequence of the surgical gesture).

A medical software system for volumetric analysis of cerebral pathologies in magnetic resonance imaging (MRI) data.

PubMed

Egger, Jan; Kappus, Christoph; Freisleben, Bernd; Nimsky, Christopher

2012-08-01

In this contribution, a medical software system for volumetric analysis of different cerebral pathologies in magnetic resonance imaging (MRI) data is presented. The software system is based on a semi-automatic segmentation algorithm and helps to overcome the time-consuming process of volume determination during monitoring of a patient. After imaging, the parameter settings-including a seed point-are set up in the system and an automatic segmentation is performed by a novel graph-based approach. Manually reviewing the result leads to reseeding, adding seed points or an automatic surface mesh generation. The mesh is saved for monitoring the patient and for comparisons with follow-up scans. Based on the mesh, the system performs a voxelization and volume calculation, which leads to diagnosis and therefore further treatment decisions. The overall system has been tested with different cerebral pathologies-glioblastoma multiforme, pituitary adenomas and cerebral aneurysms- and evaluated against manual expert segmentations using the Dice Similarity Coefficient (DSC). Additionally, intra-physician segmentations have been performed to provide a quality measure for the presented system.

Optical Breast Shape Capture and Finite Element Mesh Generation for Electrical Impedance Tomography

PubMed Central

Forsyth, J.; Borsic, A.; Halter, R.J.; Hartov, A.; Paulsen, K.D.

2011-01-01

X-Ray mammography is the standard for breast cancer screening. The development of alternative imaging modalities is desirable because Mammograms expose patients to ionizing radiation. Electrical Impedance Tomography (EIT) may be used to determine tissue conductivity, a property which is an indicator of cancer presence. EIT is also a low-cost imaging solution and does not involve ionizing radiation. In breast EIT, impedance measurements are made using electrodes placed on the surface of the patient’s breast. The complex conductivity of the volume of the breast is estimated by a reconstruction algorithm. EIT reconstruction is a severely ill-posed inverse problem. As a result, noisy instrumentation and incorrect modelling of the electrodes and domain shape produce significant image artefacts. In this paper, we propose a method that has the potential to reduce these errors by accurately modelling the patient breast shape. A 3D hand-held optical scanner is used to acquire the breast geometry and electrode positions. We develop methods for processing the data from the scanner and producing volume meshes accurately matching the breast surface and electrode locations, which can be used for image reconstruction. We demonstrate this method for a plaster breast phantom and a human subject. Using this approach will allow patient-specific finite element meshes to be generated which has the potential to improve the clinical value of EIT for breast cancer diagnosis. PMID:21646711

3D numerical simulations of oblique droplet impact onto a deep liquid pool

NASA Astrophysics Data System (ADS)

Gelderblom, Hanneke; Reijers, Sten A.; Gielen, Marise; Sleutel, Pascal; Lohse, Detlef; Xie, Zhihua; Pain, Christopher C.; Matar, Omar K.

2017-11-01

We study the fluid dynamics of three-dimensional oblique droplet impact, which results in phenomena that include splashing and cavity formation. An adaptive, unstructured mesh modelling framework is employed here, which can modify and adapt unstructured meshes to better represent the underlying physics of droplet dynamics, and reduce 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. The framework also features second-order finite-element methods, and a force-balanced algorithm for the surface tension implementation, minimising the spurious velocities often found in many simulations involving capillary-driven flows. The numerical results generated using this framework are compared with high-speed images of the interfacial shapes of the deformed droplet, and the cavity formed upon impact, yielding good agreement. EPSRC, UK, MEMPHIS program Grant (EP/K003976/1), RAEng Research Chair (OKM).

Conservative and bounded volume-of-fluid advection on unstructured grids

NASA Astrophysics Data System (ADS)

Ivey, Christopher B.; Moin, Parviz

2017-12-01

This paper presents a novel Eulerian-Lagrangian piecewise-linear interface calculation (PLIC) volume-of-fluid (VOF) advection method, which is three-dimensional, unsplit, and discretely conservative and bounded. The approach is developed with reference to a collocated node-based finite-volume two-phase flow solver that utilizes the median-dual mesh constructed from non-convex polyhedra. The proposed advection algorithm satisfies conservation and boundedness of the liquid volume fraction irrespective of the underlying flux polyhedron geometry, which differs from contemporary unsplit VOF schemes that prescribe topologically complicated flux polyhedron geometries in efforts to satisfy conservation. Instead of prescribing complicated flux-polyhedron geometries, which are prone to topological failures, our VOF advection scheme, the non-intersecting flux polyhedron advection (NIFPA) method, builds the flux polyhedron iteratively such that its intersection with neighboring flux polyhedra, and any other unavailable volume, is empty and its total volume matches the calculated flux volume. During each iteration, a candidate nominal flux polyhedron is extruded using an iteration dependent scalar. The candidate is subsequently intersected with the volume guaranteed available to it at the time of the flux calculation to generate the candidate flux polyhedron. The difference in the volume of the candidate flux polyhedron and the actual flux volume is used to calculate extrusion during the next iteration. The choice in nominal flux polyhedron impacts the cost and accuracy of the scheme; however, it does not impact the methods underlying conservation and boundedness. As such, various robust nominal flux polyhedron are proposed and tested using canonical periodic kinematic test cases: Zalesak's disk and two- and three-dimensional deformation. The tests are conducted on the median duals of a quadrilateral and triangular primal mesh, in two-dimensions, and on the median duals of a hexahedral, wedge and tetrahedral primal mesh, in three-dimensions. Comparisons are made with the adaptation of a conventional unsplit VOF advection scheme to our collocated node-based flow solver. Depending on the choice in the nominal flux polyhedron, the NIFPA scheme presented accuracies ranging from zeroth to second order and calculation times that differed by orders of magnitude. For the nominal flux polyhedra which demonstrate second-order accuracy on all tests and meshes, the NIFPA method's cost was comparable to the traditional topologically complex second-order accurate VOF advection scheme.

A Numerical Investigation of Two-Different Drosophila Forward Flight Modes

NASA Astrophysics Data System (ADS)

Sahin, Mehmet; Dilek, Ezgi; Erzincanli, Belkis

2016-11-01

The parallel large-scale unstructured finite volume method based on an Arbitrary Lagrangian-Eulerian (ALE) formulation has been applied in order to investigate the near wake structure of Drosophila in forward flight. DISTENE MeshGems-Hexa algorithm based on the octree method is used to generate the all hexahedral mesh for the wing-body combination. The mesh deformation algorithm is based on the indirect radial basis function (RBF) method at each time level while avoiding remeshing in order to enhance numerical robustness. The large-scale numerical simulations are carried out for a flapping Drosophila in forward flight. In the first case, the wing tip-path plane is tilted forward to generate forward force. In the second case, paddling wing motion is used to generate the forward fore. The λ2-criterion proposed by Jeong and Hussain (1995) is used for investigating the time variation of the Eulerian coherent structures in the near wake. The present simulations reveal highly detailed near wake topology for a hovering Drosophila. This is very useful in terms of understanding physics in biological flights which can provide a very useful tool for designing bio-inspired MAVs.

GPU surface extraction using the closest point embedding

NASA Astrophysics Data System (ADS)

Kim, Mark; Hansen, Charles

2015-01-01

Isosurface extraction is a fundamental technique used for both surface reconstruction and mesh generation. One method to extract well-formed isosurfaces is a particle system; unfortunately, particle systems can be slow. In this paper, we introduce an enhanced parallel particle system that uses the closest point embedding as the surface representation to speedup the particle system for isosurface extraction. The closest point embedding is used in the Closest Point Method (CPM), a technique that uses a standard three dimensional numerical PDE solver on two dimensional embedded surfaces. To fully take advantage of the closest point embedding, it is coupled with a Barnes-Hut tree code on the GPU. This new technique produces well-formed, conformal unstructured triangular and tetrahedral meshes from labeled multi-material volume datasets. Further, this new parallel implementation of the particle system is faster than any known methods for conformal multi-material mesh extraction. The resulting speed-ups gained in this implementation can reduce the time from labeled data to mesh from hours to minutes and benefits users, such as bioengineers, who employ triangular and tetrahedral meshes

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.

A voxel-based finite element model for the prediction of bladder deformation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chai Xiangfei; Herk, Marcel van; Hulshof, Maarten C. C. M.

2012-01-15

Purpose: A finite element (FE) bladder model was previously developed to predict bladder deformation caused by bladder filling change. However, two factors prevent a wide application of FE models: (1) the labor required to construct a FE model with high quality mesh and (2) long computation time needed to construct the FE model and solve the FE equations. In this work, we address these issues by constructing a low-resolution voxel-based FE bladder model directly from the binary segmentation images and compare the accuracy and computational efficiency of the voxel-based model used to simulate bladder deformation with those of a classicalmore » FE model with a tetrahedral mesh. Methods: For ten healthy volunteers, a series of MRI scans of the pelvic region was recorded at regular intervals of 10 min over 1 h. For this series of scans, the bladder volume gradually increased while rectal volume remained constant. All pelvic structures were defined from a reference image for each volunteer, including bladder wall, small bowel, prostate (male), uterus (female), rectum, pelvic bone, spine, and the rest of the body. Four separate FE models were constructed from these structures: one with a tetrahedral mesh (used in previous study), one with a uniform hexahedral mesh, one with a nonuniform hexahedral mesh, and one with a low-resolution nonuniform hexahedral mesh. Appropriate material properties were assigned to all structures and uniform pressure was applied to the inner bladder wall to simulate bladder deformation from urine inflow. Performance of the hexahedral meshes was evaluated against the performance of the standard tetrahedral mesh by comparing the accuracy of bladder shape prediction and computational efficiency. Results: FE model with a hexahedral mesh can be quickly and automatically constructed. No substantial differences were observed between the simulation results of the tetrahedral mesh and hexahedral meshes (<1% difference in mean dice similarity coefficient to manual contours and <0.02 cm difference in mean standard deviation of residual errors). The average equation solving time (without manual intervention) for the first two types of hexahedral meshes increased to 2.3 h and 2.6 h compared to the 1.1 h needed for the tetrahedral mesh, however, the low-resolution nonuniform hexahedral mesh dramatically decreased the equation solving time to 3 min without reducing accuracy. Conclusions: Voxel-based mesh generation allows fast, automatic, and robust creation of finite element bladder models directly from binary segmentation images without user intervention. Even the low-resolution voxel-based hexahedral mesh yields comparable accuracy in bladder shape prediction and more than 20 times faster in computational speed compared to the tetrahedral mesh. This approach makes it more feasible and accessible to apply FE method to model bladder deformation in adaptive radiotherapy.« less

Method of generating a surface mesh

DOEpatents

Shepherd, Jason F [Albuquerque, NM; Benzley, Steven [Provo, UT; Grover, Benjamin T [Tracy, CA

2008-03-04

A method and machine-readable medium provide a technique to generate and modify a quadrilateral finite element surface mesh using dual creation and modification. After generating a dual of a surface (mesh), a predetermined algorithm may be followed to generate and modify a surface mesh of quadrilateral elements. The predetermined algorithm may include the steps of generating two-dimensional cell regions in dual space, determining existing nodes in primal space, generating new nodes in the dual space, and connecting nodes to form the quadrilateral elements (faces) for the generated and modifiable surface mesh.

A downloadable meshed human canine tooth model with PDL and bone for finite element simulations.

PubMed

Boryor, Andrew; Hohmann, Ansgar; Geiger, Martin; Wolfram, Uwe; Sander, Christian; Sander, Franz Günter

2009-09-01

The aim of this study is to relieve scientists from the complex and time-consuming task of model generation by providing a model of a canine tooth and its periradicular tissues for Finite Element Method (FEM) simulations. This was achieved with diverse commercial software, based on a micro-computed tomography of the specimen. The Finite Element (FE) Model consists of enamel, dentin, nerve (innervation), periodontal ligament (PDL), and the surrounding cortical bone with trabecular structure. The area and volume meshes are of a very high quality in order to represent the model in a detailed form. Material properties are to be set individually by every user. The tooth model is provided for Abaqus, Ansys, HyperMesh, Nastran and as STL files, in an ASCII format for free download. This can help reduce the cost and effort of generating a tooth model for some research institutions, and may encourage other research groups to provide their high quality models for other researchers. By providing FE models, research results, especially FEM simulations, could be easily verified by others.

An Agent Based Collaborative Simplification of 3D Mesh Model

NASA Astrophysics Data System (ADS)

Wang, Li-Rong; Yu, Bo; Hagiwara, Ichiro

Large-volume mesh model faces the challenge in fast rendering and transmission by Internet. The current mesh models obtained by using three-dimensional (3D) scanning technology are usually very large in data volume. This paper develops a mobile agent based collaborative environment on the development platform of mobile-C. Communication among distributed agents includes grasping image of visualized mesh model, annotation to grasped image and instant message. Remote and collaborative simplification can be efficiently conducted by Internet.

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.

Array-based Hierarchical Mesh Generation in Parallel

DOE PAGES

Ray, Navamita; Grindeanu, Iulian; Zhao, Xinglin; ...

2015-11-03

In this paper, we describe an array-based hierarchical mesh generation capability through uniform refinement of unstructured meshes for efficient solution of PDE's using finite element methods and multigrid solvers. A multi-degree, multi-dimensional and multi-level framework is designed to generate the nested hierarchies from an initial mesh that can be used for a number of purposes such as multi-level methods to generating large meshes. The capability is developed under the parallel mesh framework “Mesh Oriented dAtaBase” a.k.a MOAB. We describe the underlying data structures and algorithms to generate such hierarchies and present numerical results for computational efficiency and mesh quality. Inmore » conclusion, we also present results to demonstrate the applicability of the developed capability to a multigrid finite-element solver.« less

Summary on several key techniques in 3D geological modeling.

PubMed

Mei, Gang

2014-01-01

Several key techniques in 3D geological modeling including planar mesh generation, spatial interpolation, and surface intersection are summarized in this paper. Note that these techniques are generic and widely used in various applications but play a key role in 3D geological modeling. There are two essential procedures in 3D geological modeling: the first is the simulation of geological interfaces using geometric surfaces and the second is the building of geological objects by means of various geometric computations such as the intersection of surfaces. Discrete geometric surfaces that represent geological interfaces can be generated by creating planar meshes first and then spatially interpolating; those surfaces intersect and then form volumes that represent three-dimensional geological objects such as rock bodies. In this paper, the most commonly used algorithms of the key techniques in 3D geological modeling are summarized.

Experimental analysis and numerical modeling of mollusk shells as a three dimensional integrated volume.

PubMed

Faghih Shojaei, M; Mohammadi, V; Rajabi, H; Darvizeh, A

2012-12-01

In this paper, a new numerical technique is presented to accurately model the geometrical and mechanical features of mollusk shells as a three dimensional (3D) integrated volume. For this purpose, the Newton method is used to solve the nonlinear equations of shell surfaces. The points of intersection on the shell surface are identified and the extra interior parts are removed. Meshing process is accomplished with respect to the coordinate of each point of intersection. The final 3D generated mesh models perfectly describe the spatial configuration of the mollusk shells. Moreover, the computational model perfectly matches with the actual interior geometry of the shells as well as their exterior architecture. The direct generation technique is employed to generate a 3D finite element (FE) model in ANSYS 11. X-ray images are taken to show the close similarity of the interior geometry of the models and the actual samples. A scanning electron microscope (SEM) is used to provide information on the microstructure of the shells. In addition, a set of compression tests were performed on gastropod shell specimens to obtain their ultimate compressive strength. A close agreement between experimental data and the relevant numerical results is demonstrated. Copyright © 2012 Elsevier Ltd. All rights reserved.

An unstructured-mesh finite-volume MPDATA for compressible atmospheric dynamics

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kühnlein, Christian, E-mail: christian.kuehnlein@ecmwf.int; Smolarkiewicz, Piotr K., E-mail: piotr.smolarkiewicz@ecmwf.int

An advancement of the unstructured-mesh finite-volume MPDATA (Multidimensional Positive Definite Advection Transport Algorithm) is presented that formulates the error-compensative pseudo-velocity of the scheme to rely only on face-normal advective fluxes to the dual cells, in contrast to the full vector employed in previous implementations. This is essentially achieved by expressing the temporal truncation error underlying the pseudo-velocity in a form consistent with the flux-divergence of the governing conservation law. The development is especially important for integrating fluid dynamics equations on non-rectilinear meshes whenever face-normal advective mass fluxes are employed for transport compatible with mass continuity—the latter being essential for flux-formmore » schemes. In particular, the proposed formulation enables large-time-step semi-implicit finite-volume integration of the compressible Euler equations using MPDATA on arbitrary hybrid computational meshes. Furthermore, it facilitates multiple error-compensative iterations of the finite-volume MPDATA and improved overall accuracy. The advancement combines straightforwardly with earlier developments, such as the nonoscillatory option, the infinite-gauge variant, and moving curvilinear meshes. A comprehensive description of the scheme is provided for a hybrid horizontally-unstructured vertically-structured computational mesh for efficient global atmospheric flow modelling. The proposed finite-volume MPDATA is verified using selected 3D global atmospheric benchmark simulations, representative of hydrostatic and non-hydrostatic flow regimes. Besides the added capabilities, the scheme retains fully the efficacy of established finite-volume MPDATA formulations.« less

Update on Development of Mesh Generation Algorithms in MeshKit

DOE Office of Scientific and Technical Information (OSTI.GOV)

Jain, Rajeev; Vanderzee, Evan; Mahadevan, Vijay

2015-09-30

MeshKit uses a graph-based design for coding all its meshing algorithms, which includes the Reactor Geometry (and mesh) Generation (RGG) algorithms. This report highlights the developmental updates of all the algorithms, results and future work. Parallel versions of algorithms, documentation and performance results are reported. RGG GUI design was updated to incorporate new features requested by the users; boundary layer generation and parallel RGG support were added to the GUI. Key contributions to the release, upgrade and maintenance of other SIGMA1 libraries (CGM and MOAB) were made. Several fundamental meshing algorithms for creating a robust parallel meshing pipeline in MeshKitmore » are under development. Results and current status of automated, open-source and high quality nuclear reactor assembly mesh generation algorithms such as trimesher, quadmesher, interval matching and multi-sweeper are reported.« less

Calculation of Water Entry Problem for Free-falling Bodies Using a Developed Cartesian Cut Cell Mesh

NASA Astrophysics Data System (ADS)

Wenhua, Wang; Yanying, Wang

2010-05-01

This paper describes the development of free surface capturing method on Cartesian cut cell mesh to water entry problem for free-falling bodies with body-fluid interaction. The incompressible Euler equations for a variable density fluid system are presented as governing equations and the free surface is treated as a contact discontinuity by using free surface capturing method. In order to be convenient for dealing with the problem with moving body boundary, the Cartesian cut cell technique is adopted for generating the boundary-fitted mesh around body edge by cutting solid regions out of a background Cartesian mesh. Based on this mesh system, governing equations are discretized by finite volume method, and at each cell edge inviscid flux is evaluated by means of Roe's approximate Riemann solver. Furthermore, for unsteady calculation in time domain, a time accurate solution is achieved by a dual time-stepping technique with artificial compressibility method. For the body-fluid interaction, the projection method of momentum equations and exact Riemann solution are applied in the calculation of fluid pressure on the solid boundary. Finally, the method is validated by test case of water entry for free-falling bodies.

Particle systems for adaptive, isotropic meshing of CAD models

PubMed Central

Levine, Joshua A.; Whitaker, Ross T.

2012-01-01

We present a particle-based approach for generating adaptive triangular surface and tetrahedral volume meshes from computer-aided design models. Input shapes are treated as a collection of smooth, parametric surface patches that can meet non-smoothly on boundaries. Our approach uses a hierarchical sampling scheme that places particles on features in order of increasing dimensionality. These particles reach a good distribution by minimizing an energy computed in 3D world space, with movements occurring in the parametric space of each surface patch. Rather than using a pre-computed measure of feature size, our system automatically adapts to both curvature as well as a notion of topological separation. It also enforces a measure of smoothness on these constraints to construct a sizing field that acts as a proxy to piecewise-smooth feature size. We evaluate our technique with comparisons against other popular triangular meshing techniques for this domain. PMID:23162181

User Manual for the PROTEUS Mesh Tools

DOE Office of Scientific and Technical Information (OSTI.GOV)

Smith, Micheal A.; Shemon, Emily R

2016-09-19

PROTEUS is built around a finite element representation of the geometry for visualization. In addition, the PROTEUS-SN solver was built to solve the even-parity transport equation on a finite element mesh provided as input. Similarly, PROTEUS-MOC and PROTEUS-NEMO were built to apply the method of characteristics on unstructured finite element meshes. Given the complexity of real world problems, experience has shown that using commercial mesh generator to create rather simple input geometries is overly complex and slow. As a consequence, significant effort has been put into place to create multiple codes that help assist in the mesh generation and manipulation.more » There are three input means to create a mesh in PROTEUS: UFMESH, GRID, and NEMESH. At present, the UFMESH is a simple way to generate two-dimensional Cartesian and hexagonal fuel assembly geometries. The UFmesh input allows for simple assembly mesh generation while the GRID input allows the generation of Cartesian, hexagonal, and regular triangular structured grid geometry options. The NEMESH is a way for the user to create their own mesh or convert another mesh file format into a PROTEUS input format. Given that one has an input mesh format acceptable for PROTEUS, we have constructed several tools which allow further mesh and geometry construction (i.e. mesh extrusion and merging). This report describes the various mesh tools that are provided with the PROTEUS code giving both descriptions of the input and output. In many cases the examples are provided with a regression test of the mesh tools. The most important mesh tools for any user to consider using are the MT_MeshToMesh.x and the MT_RadialLattice.x codes. The former allows the conversion between most mesh types handled by PROTEUS while the second allows the merging of multiple (assembly) meshes into a radial structured grid. Note that the mesh generation process is recursive in nature and that each input specific for a given mesh tool (such as .axial or .merge) can be used as “mesh” input for any of the mesh tools discussed in this manual.« less

A Godunov-like point-centered essentially Lagrangian hydrodynamic approach

DOE Office of Scientific and Technical Information (OSTI.GOV)

Morgan, Nathaniel R.; Waltz, Jacob I.; Burton, Donald E.

We present an essentially Lagrangian hydrodynamic scheme suitable for modeling complex compressible flows on tetrahedron meshes. The scheme reduces to a purely Lagrangian approach when the flow is linear or if the mesh size is equal to zero; as a result, we use the term essentially Lagrangian for the proposed approach. The motivation for developing a hydrodynamic method for tetrahedron meshes is because tetrahedron meshes have some advantages over other mesh topologies. Notable advantages include reduced complexity in generating conformal meshes, reduced complexity in mesh reconnection, and preserving tetrahedron cells with automatic mesh refinement. A challenge, however, is tetrahedron meshesmore » do not correctly deform with a lower order (i.e. piecewise constant) staggered-grid hydrodynamic scheme (SGH) or with a cell-centered hydrodynamic (CCH) scheme. The SGH and CCH approaches calculate the strain via the tetrahedron, which can cause artificial stiffness on large deformation problems. To resolve the stiffness problem, we adopt the point-centered hydrodynamic approach (PCH) and calculate the evolution of the flow via an integration path around the node. The PCH approach stores the conserved variables (mass, momentum, and total energy) at the node. The evolution equations for momentum and total energy are discretized using an edge-based finite element (FE) approach with linear basis functions. A multidirectional Riemann-like problem is introduced at the center of the tetrahedron to account for discontinuities in the flow such as a shock. Conservation is enforced at each tetrahedron center. The multidimensional Riemann-like problem used here is based on Lagrangian CCH work [8, 19, 37, 38, 44] and recent Lagrangian SGH work [33-35, 39, 45]. In addition, an approximate 1D Riemann problem is solved on each face of the nodal control volume to advect mass, momentum, and total energy. The 1D Riemann problem produces fluxes [18] that remove a volume error in the PCH discretization. A 2-stage Runge–Kutta method is used to evolve the solution in time. The details of the new hydrodynamic scheme are discussed; likewise, results from numerical test problems are presented.« less

A Godunov-like point-centered essentially Lagrangian hydrodynamic approach

DOE PAGES

Morgan, Nathaniel R.; Waltz, Jacob I.; Burton, Donald E.; ...

2014-10-28

We present an essentially Lagrangian hydrodynamic scheme suitable for modeling complex compressible flows on tetrahedron meshes. The scheme reduces to a purely Lagrangian approach when the flow is linear or if the mesh size is equal to zero; as a result, we use the term essentially Lagrangian for the proposed approach. The motivation for developing a hydrodynamic method for tetrahedron meshes is because tetrahedron meshes have some advantages over other mesh topologies. Notable advantages include reduced complexity in generating conformal meshes, reduced complexity in mesh reconnection, and preserving tetrahedron cells with automatic mesh refinement. A challenge, however, is tetrahedron meshesmore » do not correctly deform with a lower order (i.e. piecewise constant) staggered-grid hydrodynamic scheme (SGH) or with a cell-centered hydrodynamic (CCH) scheme. The SGH and CCH approaches calculate the strain via the tetrahedron, which can cause artificial stiffness on large deformation problems. To resolve the stiffness problem, we adopt the point-centered hydrodynamic approach (PCH) and calculate the evolution of the flow via an integration path around the node. The PCH approach stores the conserved variables (mass, momentum, and total energy) at the node. The evolution equations for momentum and total energy are discretized using an edge-based finite element (FE) approach with linear basis functions. A multidirectional Riemann-like problem is introduced at the center of the tetrahedron to account for discontinuities in the flow such as a shock. Conservation is enforced at each tetrahedron center. The multidimensional Riemann-like problem used here is based on Lagrangian CCH work [8, 19, 37, 38, 44] and recent Lagrangian SGH work [33-35, 39, 45]. In addition, an approximate 1D Riemann problem is solved on each face of the nodal control volume to advect mass, momentum, and total energy. The 1D Riemann problem produces fluxes [18] that remove a volume error in the PCH discretization. A 2-stage Runge–Kutta method is used to evolve the solution in time. The details of the new hydrodynamic scheme are discussed; likewise, results from numerical test problems are presented.« less

Segmentation of brain volume based on 3D region growing by integrating intensity and edge for image-guided surgery

NASA Astrophysics Data System (ADS)

Tsagaan, Baigalmaa; Abe, Keiichi; Goto, Masahiro; Yamamoto, Seiji; Terakawa, Susumu

2006-03-01

This paper presents a segmentation method of brain tissues from MR images, invented for our image-guided neurosurgery system under development. Our goal is to segment brain tissues for creating biomechanical model. The proposed segmentation method is based on 3-D region growing and outperforms conventional approaches by stepwise usage of intensity similarities between voxels in conjunction with edge information. Since the intensity and the edge information are complementary to each other in the region-based segmentation, we use them twice by performing a coarse-to-fine extraction. First, the edge information in an appropriate neighborhood of the voxel being considered is examined to constrain the region growing. The expanded region of the first extraction result is then used as the domain for the next processing. The intensity and the edge information of the current voxel only are utilized in the final extraction. Before segmentation, the intensity parameters of the brain tissues as well as partial volume effect are estimated by using expectation-maximization (EM) algorithm in order to provide an accurate data interpretation into the extraction. We tested the proposed method on T1-weighted MR images of brain and evaluated the segmentation effectiveness comparing the results with ground truths. Also, the generated meshes from the segmented brain volume by using mesh generating software are shown in this paper.

An eFTD-VP framework for efficiently generating patient-specific anatomically detailed facial soft tissue FE mesh for craniomaxillofacial surgery simulation

PubMed Central

Zhang, Xiaoyan; Kim, Daeseung; Shen, Shunyao; Yuan, Peng; Liu, Siting; Tang, Zhen; Zhang, Guangming; Zhou, Xiaobo; Gateno, Jaime

2017-01-01

Accurate surgical planning and prediction of craniomaxillofacial surgery outcome requires simulation of soft tissue changes following osteotomy. This can only be achieved by using an anatomically detailed facial soft tissue model. The current state-of-the-art of model generation is not appropriate to clinical applications due to the time-intensive nature of manual segmentation and volumetric mesh generation. The conventional patient-specific finite element (FE) mesh generation methods are to deform a template FE mesh to match the shape of a patient based on registration. However, these methods commonly produce element distortion. Additionally, the mesh density for patients depends on that of the template model. It could not be adjusted to conduct mesh density sensitivity analysis. In this study, we propose a new framework of patient-specific facial soft tissue FE mesh generation. The goal of the developed method is to efficiently generate a high-quality patient-specific hexahedral FE mesh with adjustable mesh density while preserving the accuracy in anatomical structure correspondence. Our FE mesh is generated by eFace template deformation followed by volumetric parametrization. First, the patient-specific anatomically detailed facial soft tissue model (including skin, mucosa, and muscles) is generated by deforming an eFace template model. The adaptation of the eFace template model is achieved by using a hybrid landmark-based morphing and dense surface fitting approach followed by a thin-plate spline interpolation. Then, high-quality hexahedral mesh is constructed by using volumetric parameterization. The user can control the resolution of hexahedron mesh to best reflect clinicians’ need. Our approach was validated using 30 patient models and 4 visible human datasets. The generated patient-specific FE mesh showed high surface matching accuracy, element quality, and internal structure matching accuracy. They can be directly and effectively used for clinical simulation of facial soft tissue change. PMID:29027022

An eFTD-VP framework for efficiently generating patient-specific anatomically detailed facial soft tissue FE mesh for craniomaxillofacial surgery simulation.

PubMed

Zhang, Xiaoyan; Kim, Daeseung; Shen, Shunyao; Yuan, Peng; Liu, Siting; Tang, Zhen; Zhang, Guangming; Zhou, Xiaobo; Gateno, Jaime; Liebschner, Michael A K; Xia, James J

2018-04-01

Accurate surgical planning and prediction of craniomaxillofacial surgery outcome requires simulation of soft tissue changes following osteotomy. This can only be achieved by using an anatomically detailed facial soft tissue model. The current state-of-the-art of model generation is not appropriate to clinical applications due to the time-intensive nature of manual segmentation and volumetric mesh generation. The conventional patient-specific finite element (FE) mesh generation methods are to deform a template FE mesh to match the shape of a patient based on registration. However, these methods commonly produce element distortion. Additionally, the mesh density for patients depends on that of the template model. It could not be adjusted to conduct mesh density sensitivity analysis. In this study, we propose a new framework of patient-specific facial soft tissue FE mesh generation. The goal of the developed method is to efficiently generate a high-quality patient-specific hexahedral FE mesh with adjustable mesh density while preserving the accuracy in anatomical structure correspondence. Our FE mesh is generated by eFace template deformation followed by volumetric parametrization. First, the patient-specific anatomically detailed facial soft tissue model (including skin, mucosa, and muscles) is generated by deforming an eFace template model. The adaptation of the eFace template model is achieved by using a hybrid landmark-based morphing and dense surface fitting approach followed by a thin-plate spline interpolation. Then, high-quality hexahedral mesh is constructed by using volumetric parameterization. The user can control the resolution of hexahedron mesh to best reflect clinicians' need. Our approach was validated using 30 patient models and 4 visible human datasets. The generated patient-specific FE mesh showed high surface matching accuracy, element quality, and internal structure matching accuracy. They can be directly and effectively used for clinical simulation of facial soft tissue change.

Finite element analysis of human joints

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bossart, P.L.; Hollerbach, K.

1996-09-01

Our work focuses on the development of finite element models (FEMs) that describe the biomechanics of human joints. Finite element modeling is becoming a standard tool in industrial applications. In highly complex problems such as those found in biomechanics research, however, the full potential of FEMs is just beginning to be explored, due to the absence of precise, high resolution medical data and the difficulties encountered in converting these enormous datasets into a form that is usable in FEMs. With increasing computing speed and memory available, it is now feasible to address these challenges. We address the first by acquiringmore » data with a high resolution C-ray CT scanner and the latter by developing semi-automated method for generating the volumetric meshes used in the FEM. Issues related to tomographic reconstruction, volume segmentation, the use of extracted surfaces to generate volumetric hexahedral meshes, and applications of the FEM are described.« less

A Cartesian grid approach with hierarchical refinement for compressible flows

NASA Technical Reports Server (NTRS)

Quirk, James J.

1994-01-01

Many numerical studies of flows that involve complex geometries are limited by the difficulties in generating suitable grids. We present a Cartesian boundary scheme for two-dimensional, compressible flows that is unfettered by the need to generate a computational grid and so it may be used, routinely, even for the most awkward of geometries. In essence, an arbitrary-shaped body is allowed to blank out some region of a background Cartesian mesh and the resultant cut-cells are singled out for special treatment. This is done within a finite-volume framework and so, in principle, any explicit flux-based integration scheme can take advantage of this method for enforcing solid boundary conditions. For best effect, the present Cartesian boundary scheme has been combined with a sophisticated, local mesh refinement scheme, and a number of examples are shown in order to demonstrate the efficacy of the combined algorithm for simulations of shock interaction phenomena.

Summary on Several Key Techniques in 3D Geological Modeling

PubMed Central

2014-01-01

Several key techniques in 3D geological modeling including planar mesh generation, spatial interpolation, and surface intersection are summarized in this paper. Note that these techniques are generic and widely used in various applications but play a key role in 3D geological modeling. There are two essential procedures in 3D geological modeling: the first is the simulation of geological interfaces using geometric surfaces and the second is the building of geological objects by means of various geometric computations such as the intersection of surfaces. Discrete geometric surfaces that represent geological interfaces can be generated by creating planar meshes first and then spatially interpolating; those surfaces intersect and then form volumes that represent three-dimensional geological objects such as rock bodies. In this paper, the most commonly used algorithms of the key techniques in 3D geological modeling are summarized. PMID:24772029

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 showing the potential of adaptive mesh refinement when applied to melt migration. Our model of magma dynamics provides a framework for modelling processes on different scales and investigating links between processes occurring in the deep mantle and melt generation and migration. This approach could prove particularly useful applied to modelling the generation of komatiites or other melts originating in greater depths. Keller, T., D. A. May, and B. J. P. Kaus (2013), Numerical modelling of magma dynamics coupled to tectonic deformation of lithosphere and crust, Geophysical Journal International, 195 (3), 1406-1442. Kronbichler, M., T. Heister, and W. Bangerth (2012), High accuracy mantle convection simulation through modern numerical methods, Geophysical Journal International, 191 (1), 12-29.

A Deep Penetration Problem Calculation Using AETIUS:An Easy Modeling Discrete Ordinates Transport Code UsIng Unstructured Tetrahedral Mesh, Shared Memory Parallel

NASA Astrophysics Data System (ADS)

KIM, Jong Woon; LEE, Young-Ouk

2017-09-01

As computing power gets better and better, computer codes that use a deterministic method seem to be less useful than those using the Monte Carlo method. In addition, users do not like to think about space, angles, and energy discretization for deterministic codes. However, a deterministic method is still powerful in that we can obtain a solution of the flux throughout the problem, particularly as when particles can barely penetrate, such as in a deep penetration problem with small detection volumes. Recently, a new state-of-the-art discrete-ordinates code, ATTILA, was developed and has been widely used in several applications. ATTILA provides the capabilities to solve geometrically complex 3-D transport problems by using an unstructured tetrahedral mesh. Since 2009, we have been developing our own code by benchmarking ATTILA. AETIUS is a discrete ordinates code that uses an unstructured tetrahedral mesh such as ATTILA. For pre- and post- processing, Gmsh is used to generate an unstructured tetrahedral mesh by importing a CAD file (*.step) and visualizing the calculation results of AETIUS. Using a CAD tool, the geometry can be modeled very easily. In this paper, we describe a brief overview of AETIUS and provide numerical results from both AETIUS and a Monte Carlo code, MCNP5, in a deep penetration problem with small detection volumes. The results demonstrate the effectiveness and efficiency of AETIUS for such calculations.

DRACO-STEM: An Automatic Tool to Generate High-Quality 3D Meshes of Shoot Apical Meristem Tissue at Cell Resolution

PubMed Central

Cerutti, Guillaume; Ali, Olivier; Godin, Christophe

2017-01-01

Context: The shoot apical meristem (SAM), origin of all aerial organs of the plant, is a restricted niche of stem cells whose growth is regulated by a complex network of genetic, hormonal and mechanical interactions. Studying the development of this area at cell level using 3D microscopy time-lapse imaging is a newly emerging key to understand the processes controlling plant morphogenesis. Computational models have been proposed to simulate those mechanisms, however their validation on real-life data is an essential step that requires an adequate representation of the growing tissue to be carried out. Achievements: The tool we introduce is a two-stage computational pipeline that generates a complete 3D triangular mesh of the tissue volume based on a segmented tissue image stack. DRACO (Dual Reconstruction by Adjacency Complex Optimization) is designed to retrieve the underlying 3D topological structure of the tissue and compute its dual geometry, while STEM (SAM Tissue Enhanced Mesh) returns a faithful triangular mesh optimized along several quality criteria (intrinsic quality, tissue reconstruction, visual adequacy). Quantitative evaluation tools measuring the performance of the method along those different dimensions are also provided. The resulting meshes can be used as input and validation for biomechanical simulations. Availability: DRACO-STEM is supplied as a package of the open-source multi-platform plant modeling library OpenAlea (http://openalea.github.io/) implemented in Python, and is freely distributed on GitHub (https://github.com/VirtualPlants/draco-stem) along with guidelines for installation and use. PMID:28424704

Tetrahedral and polyhedral mesh evaluation for cerebral hemodynamic simulation--a comparison.

PubMed

Spiegel, Martin; Redel, Thomas; Zhang, Y; Struffert, Tobias; Hornegger, Joachim; Grossman, Robert G; Doerfler, Arnd; Karmonik, Christof

2009-01-01

Computational fluid dynamic (CFD) based on patient-specific medical imaging data has found widespread use for visualizing and quantifying hemodynamics in cerebrovascular disease such as cerebral aneurysms or stenotic vessels. This paper focuses on optimizing mesh parameters for CFD simulation of cerebral aneurysms. Valid blood flow simulations strongly depend on the mesh quality. Meshes with a coarse spatial resolution may lead to an inaccurate flow pattern. Meshes with a large number of elements will result in unnecessarily high computation time which is undesirable should CFD be used for planning in the interventional setting. Most CFD simulations reported for these vascular pathologies have used tetrahedral meshes. We illustrate the use of polyhedral volume elements in comparison to tetrahedral meshing on two different geometries, a sidewall aneurysm of the internal carotid artery and a basilar bifurcation aneurysm. The spatial mesh resolution ranges between 5,119 and 228,118 volume elements. The evaluation of the different meshes was based on the wall shear stress previously identified as a one possible parameter for assessing aneurysm growth. Polyhedral meshes showed better accuracy, lower memory demand, shorter computational speed and faster convergence behavior (on average 369 iterations less).

A tuned mesh-generation strategy for image representation based on data-dependent triangulation.

PubMed

Li, Ping; Adams, Michael D

2013-05-01

A mesh-generation framework for image representation based on data-dependent triangulation is proposed. The proposed framework is a modified version of the frameworks of Rippa and Garland and Heckbert that facilitates the development of more effective mesh-generation methods. As the proposed framework has several free parameters, the effects of different choices of these parameters on mesh quality are studied, leading to the recommendation of a particular set of choices for these parameters. A mesh-generation method is then introduced that employs the proposed framework with these best parameter choices. This method is demonstrated to produce meshes of higher quality (both in terms of squared error and subjectively) than those generated by several competing approaches, at a relatively modest computational and memory cost.

Fast segmentation and high-quality three-dimensional volume mesh creation from medical images for diffuse optical tomography

NASA Astrophysics Data System (ADS)

Jermyn, Michael; Ghadyani, Hamid; Mastanduno, Michael A.; Turner, Wes; Davis, Scott C.; Dehghani, Hamid; Pogue, Brian W.

2013-08-01

Multimodal approaches that combine near-infrared (NIR) and conventional imaging modalities have been shown to improve optical parameter estimation dramatically and thus represent a prevailing trend in NIR imaging. These approaches typically involve applying anatomical templates from magnetic resonance imaging/computed tomography/ultrasound images to guide the recovery of optical parameters. However, merging these data sets using current technology requires multiple software packages, substantial expertise, significant time-commitment, and often results in unacceptably poor mesh quality for optical image reconstruction, a reality that represents a significant roadblock for translational research of multimodal NIR imaging. This work addresses these challenges directly by introducing automated digital imaging and communications in medicine image stack segmentation and a new one-click three-dimensional mesh generator optimized for multimodal NIR imaging, and combining these capabilities into a single software package (available for free download) with a streamlined workflow. Image processing time and mesh quality benchmarks were examined for four common multimodal NIR use-cases (breast, brain, pancreas, and small animal) and were compared to a commercial image processing package. Applying these tools resulted in a fivefold decrease in image processing time and 62% improvement in minimum mesh quality, in the absence of extra mesh postprocessing. These capabilities represent a significant step toward enabling translational multimodal NIR research for both expert and nonexpert users in an open-source platform.

A mesh regeneration method using quadrilateral and triangular elements for compressible flows

NASA Technical Reports Server (NTRS)

Vemaganti, G. R.; Thornton, E. A.

1989-01-01

An adaptive remeshing method using both triangular and quadrilateral elements suitable for high-speed viscous flows is presented. For inviscid flows, the method generates completely unstructured meshes. For viscous flows, structured meshes are generated for boundary layers, and unstructured meshes are generated for inviscid flow regions. Examples of inviscid and viscous adaptations for high-speed flows are presented.

Gaussian curvature analysis allows for automatic block placement in multi-block hexahedral meshing.

PubMed

Ramme, Austin J; Shivanna, Kiran H; Magnotta, Vincent A; Grosland, Nicole M

2011-10-01

Musculoskeletal finite element analysis (FEA) has been essential to research in orthopaedic biomechanics. The generation of a volumetric mesh is often the most challenging step in a FEA. Hexahedral meshing tools that are based on a multi-block approach rely on the manual placement of building blocks for their mesh generation scheme. We hypothesise that Gaussian curvature analysis could be used to automatically develop a building block structure for multi-block hexahedral mesh generation. The Automated Building Block Algorithm incorporates principles from differential geometry, combinatorics, statistical analysis and computer science to automatically generate a building block structure to represent a given surface without prior information. We have applied this algorithm to 29 bones of varying geometries and successfully generated a usable mesh in all cases. This work represents a significant advancement in automating the definition of building blocks.

DOE Office of Scientific and Technical Information (OSTI.GOV)

OWEN,STEVEN J.

A method for decomposing a volume with a prescribed quadrilateral surface mesh, into a hexahedral-dominated mesh is proposed. With this method, known as Hex-Morphing (H-Morph), an initial tetrahedral mesh is provided. Tetrahedral are transformed and combined starting from the boundary and working towards the interior of the volume. The quadrilateral faces of the hexahedra are treated as internal surfaces, which can be recovered using constrained triangulation techniques. Implementation details of the edge and face recovery process are included. Examples and performance of the H-Morph algorithm are also presented.

The application of finite volume methods for modelling three-dimensional incompressible flow on an unstructured mesh

NASA Astrophysics Data System (ADS)

Lonsdale, R. D.; Webster, R.

This paper demonstrates the application of a simple finite volume approach to a finite element mesh, combining the economy of the former with the geometrical flexibility of the latter. The procedure is used to model a three-dimensional flow on a mesh of linear eight-node brick (hexahedra). Simulations are performed for a wide range of flow problems, some in excess of 94,000 nodes. The resulting computer code ASTEC that incorporates these procedures is described.

Critically safe volume vacuum pickup for use in wet or dry cleanup of radioactive enclosures

DOEpatents

Zeren, J.D.

1993-12-28

A physical compact vacuum pickup device of critically safe volume and geometric shape is provided for use in radioactive enclosures, such as a small glove box, to facilitate manual cleanup of either wet or dry radioactive material. The device is constructed and arranged so as to remain safe when filled to capacity with plutonium-239 oxide. Two fine mesh filter bags are supported on the exterior of a rigid fine mesh stainless steel cup. This assembly is sealed within, and spaced from, the interior walls of a stainless steel canister. An air inlet communicates with the interior of the canister. A modified conventional vacuum head is physically connected to, and associated with, the interior of the mesh cup. The volume of the canister, as defined by the space between the mesh cup and the interior walls of the canister, forms a critically safe volume and geometric shape for dry radioactive particles that are gathered within the canister. A critically safe liquid volume is maintained by operation of a suction terminating float valve, and/or by operation of redundant vacuum check/liquid drain valves and placement of the air inlet. 5 figures.

Critically safe volume vacuum pickup for use in wet or dry cleanup of radioactive enclosures

DOEpatents

Zeren, Joseph D.

1993-12-28

A physical compact vacuum pickup device of critically safe volume and geometric shape is provided for use in radioactive enclosures, such as a small glove box, to facilitate manual cleanup of either wet or dry radioactive material. The device is constructed and arranged so as to remain safe when filled to capacity with plutonium-239 oxide. Two fine mesh filter bags are supported on the exterior of a rigid fine mesh stainless steel cup. This assembly is sealed within, and spaced from, the interior walls of a stainless steel canister. An air inlet communicates with the interior of the canister. A modified conventional vacuum head is physically connected to, and associated with, the interior of the mesh cup. The volume of the canister, as defined by the space between the mesh cup and the interior walls of the canister, forms a critically safe volume and geometric shape for dry radioactive particles that are gathered within the canister. A critically safe liquid volume is maintained by operation of a suction terminating float valve, and/or by operation of redundant vacuum check/liquid drain valves and placement of the air inlet.

Adjoint Sensitivity Computations for an Embedded-Boundary Cartesian Mesh Method and CAD Geometry

NASA Technical Reports Server (NTRS)

Nemec, Marian; Aftosmis,Michael J.

2006-01-01

Cartesian-mesh methods are perhaps the most promising approach for addressing the issues of flow solution automation for aerodynamic design problems. In these methods, the discretization of the wetted surface is decoupled from that of the volume mesh. This not only enables fast and robust mesh generation for geometry of arbitrary complexity, but also facilitates access to geometry modeling and manipulation using parametric Computer-Aided Design (CAD) tools. Our goal is to combine the automation capabilities of Cartesian methods with an eficient computation of design sensitivities. We address this issue using the adjoint method, where the computational cost of the design sensitivities, or objective function gradients, is esseutially indepeudent of the number of design variables. In previous work, we presented an accurate and efficient algorithm for the solution of the adjoint Euler equations discretized on Cartesian meshes with embedded, cut-cell boundaries. Novel aspects of the algorithm included the computation of surface shape sensitivities for triangulations based on parametric-CAD models and the linearization of the coupling between the surface triangulation and the cut-cells. The objective of the present work is to extend our adjoint formulation to problems involving general shape changes. Central to this development is the computation of volume-mesh sensitivities to obtain a reliable approximation of the objective finction gradient. Motivated by the success of mesh-perturbation schemes commonly used in body-fitted unstructured formulations, we propose an approach based on a local linearization of a mesh-perturbation scheme similar to the spring analogy. This approach circumvents most of the difficulties that arise due to non-smooth changes in the cut-cell layer as the boundary shape evolves and provides a consistent approximation tot he exact gradient of the discretized abjective function. A detailed gradient accurace study is presented to verify our approach. Thereafter, we focus on a shape optimization problem for an Apollo-like reentry capsule. The optimization seeks to enhance the lift-to-drag ratio of the capsule by modifyjing the shape of its heat-shield in conjunction with a center-of-gravity (c.g.) offset. This multipoint and multi-objective optimization problem is used to demonstrate the overall effectiveness of the Cartesian adjoint method for addressing the issues of complex aerodynamic design. This abstract presents only a brief outline of the numerical method and results; full details will be given in the final paper.

Effects of Mesh Irregularities on Accuracy of Finite-Volume Discretization Schemes

NASA Technical Reports Server (NTRS)

Diskin, Boris; Thomas, James L.

2012-01-01

The effects of mesh irregularities on accuracy of unstructured node-centered finite-volume discretizations are considered. The focus is on an edge-based approach that uses unweighted least-squares gradient reconstruction with a quadratic fit. For inviscid fluxes, the discretization is nominally third order accurate on general triangular meshes. For viscous fluxes, the scheme is an average-least-squares formulation that is nominally second order accurate and contrasted with a common Green-Gauss discretization scheme. Gradient errors, truncation errors, and discretization errors are separately studied according to a previously introduced comprehensive methodology. The methodology considers three classes of grids: isotropic grids in a rectangular geometry, anisotropic grids typical of adapted grids, and anisotropic grids over a curved surface typical of advancing layer grids. The meshes within the classes range from regular to extremely irregular including meshes with random perturbation of nodes. Recommendations are made concerning the discretization schemes that are expected to be least sensitive to mesh irregularities in applications to turbulent flows in complex geometries.

High-Fidelity Geometric Modeling and Mesh Generation for Mechanics Characterization of Polycrystalline Materials

DTIC Science & Technology

2014-10-26

From the parameterization results, we extract adaptive and anisotropic T-meshes for the further T- spline surface construction. Finally, a gradient flow...field-based method [7, 12] to generate adaptive and anisotropic quadrilateral meshes, which can be used as the control mesh for high-order T- spline ...parameterization results, we extract adaptive and anisotropic T-meshes for the further T- spline surface construction. Finally, a gradient flow-based

Highly Symmetric and Congruently Tiled Meshes for Shells and Domes

PubMed Central

Rasheed, Muhibur; Bajaj, Chandrajit

2016-01-01

We describe the generation of all possible shell and dome shapes that can be uniquely meshed (tiled) using a single type of mesh face (tile), and following a single meshing (tiling) rule that governs the mesh (tile) arrangement with maximal vertex, edge and face symmetries. Such tiling arrangements or congruently tiled meshed shapes, are frequently found in chemical forms (fullerenes or Bucky balls, crystals, quasi-crystals, virus nano shells or capsids), and synthetic shapes (cages, sports domes, modern architectural facades). Congruently tiled meshes are both aesthetic and complete, as they support maximal mesh symmetries with minimal complexity and possess simple generation rules. Here, we generate congruent tilings and meshed shape layouts that satisfy these optimality conditions. Further, the congruent meshes are uniquely mappable to an almost regular 3D polyhedron (or its dual polyhedron) and which exhibits face-transitive (and edge-transitive) congruency with at most two types of vertices (each type transitive to the other). The family of all such congruently meshed polyhedra create a new class of meshed shapes, beyond the well-studied regular, semi-regular and quasi-regular classes, and their duals (platonic, Catalan and Johnson). While our new mesh class is infinite, we prove that there exists a unique mesh parametrization, where each member of the class can be represented by two integer lattice variables, and moreover efficiently constructable. PMID:27563368

Extended bounds limiter for high-order finite-volume schemes on unstructured meshes

NASA Astrophysics Data System (ADS)

Tsoutsanis, Panagiotis

2018-06-01

This paper explores the impact of the definition of the bounds of the limiter proposed by Michalak and Ollivier-Gooch in [56] (2009), for higher-order Monotone-Upstream Central Scheme for Conservation Laws (MUSCL) numerical schemes on unstructured meshes in the finite-volume (FV) framework. A new modification of the limiter is proposed where the bounds are redefined by utilising all the spatial information provided by all the elements in the reconstruction stencil. Numerical results obtained on smooth and discontinuous test problems of the Euler equations on unstructured meshes, highlight that the newly proposed extended bounds limiter exhibits superior performance in terms of accuracy and mesh sensitivity compared to the cell-based or vertex-based bounds implementations.

Finite element analysis in fluids; Proceedings of the Seventh International Conference on Finite Element Methods in Flow Problems, University of Alabama, Huntsville, Apr. 3-7, 1989

NASA Technical Reports Server (NTRS)

Chung, T. J. (Editor); Karr, Gerald R. (Editor)

1989-01-01

Recent advances in computational fluid dynamics are examined in reviews and reports, with an emphasis on finite-element methods. Sections are devoted to adaptive meshes, atmospheric dynamics, combustion, compressible flows, control-volume finite elements, crystal growth, domain decomposition, EM-field problems, FDM/FEM, and fluid-structure interactions. Consideration is given to free-boundary problems with heat transfer, free surface flow, geophysical flow problems, heat and mass transfer, high-speed flow, incompressible flow, inverse design methods, MHD problems, the mathematics of finite elements, and mesh generation. Also discussed are mixed finite elements, multigrid methods, non-Newtonian fluids, numerical dissipation, parallel vector processing, reservoir simulation, seepage, shallow-water problems, spectral methods, supercomputer architectures, three-dimensional problems, and turbulent flows.

User's guide to PMESH: A grid-generation program for single-rotation and counterrotation advanced turboprops

NASA Technical Reports Server (NTRS)

Warsi, Saif A.

1989-01-01

A detailed operating manual is presented for a grid generating program that produces 3-D meshes for advanced turboprops. The code uses both algebraic and elliptic partial differential equation methods to generate single rotation and counterrotation, H or C type meshes for the z - r planes and H type for the z - theta planes. The code allows easy specification of geometrical constraints (such as blade angle, location of bounding surfaces, etc.), mesh control parameters (point distribution near blades and nacelle, number of grid points desired, etc.), and it has good runtime diagnostics. An overview is provided of the mesh generation procedure, sample input dataset with detailed explanation of all input, and example meshes.

A Generalized Framework for Constrained Design Optimization of General Supersonic Configurations Using Adjoint Based Sensitivity Derivatives

NASA Technical Reports Server (NTRS)

Karman, Steve L., Jr.

2011-01-01

The Aeronautics Research Mission Directorate (ARMD) sent out an NASA Research Announcement (NRA) for proposals soliciting research and technical development. The proposed research program was aimed at addressing the desired milestones and outcomes of ROA (ROA-2006) Subtopic A.4.1.1 Advanced Computational Methods. The second milestone, SUP.1.06.02 Robust, validated mesh adaptation and error quantification for near field Computational Fluid Dynamics (CFD), was addressed by the proposed research. Additional research utilizing the direct links to geometry through a CAD interface enabled by this work will allow for geometric constraints to be applied and address the final milestone, SUP2.07.06 Constrained low-drag supersonic aerodynamic design capability. The original product of the proposed research program was an integrated system of tools that can be used for the mesh mechanics required for rapid high fidelity analysis and for design of supersonic cruise vehicles. These Euler and Navier-Stokes volume grid manipulation tools were proposed to efficiently use parallel processing. The mesh adaptation provides a systematic approach for achieving demonstrated levels of accuracy in the solutions. NASA chose to fund only the mesh generation/adaptation portion of the proposal. So this report describes the completion of the proposed tasks for mesh creation, manipulation and adaptation as it pertains to sonic boom prediction of supersonic configurations.

A finite-volume module for all-scale Earth-system modelling at ECMWF

NASA Astrophysics Data System (ADS)

Kühnlein, Christian; Malardel, Sylvie; Smolarkiewicz, Piotr

2017-04-01

We highlight recent advancements in the development of the finite-volume module (FVM) (Smolarkiewicz et al., 2016) for the IFS at ECMWF. FVM represents an alternative dynamical core that complements the operational spectral dynamical core of the IFS with new capabilities. Most notably, these include a compact-stencil finite-volume discretisation, flexible meshes, conservative non-oscillatory transport and all-scale governing equations. As a default, FVM solves the compressible Euler equations in a geospherical framework (Szmelter and Smolarkiewicz, 2010). The formulation incorporates a generalised terrain-following vertical coordinate. A hybrid computational mesh, fully unstructured in the horizontal and structured in the vertical, enables efficient global atmospheric modelling. Moreover, a centred two-time-level semi-implicit integration scheme is employed with 3D implicit treatment of acoustic, buoyant, and rotational modes. The associated 3D elliptic Helmholtz problem is solved using a preconditioned Generalised Conjugate Residual approach. The solution procedure employs the non-oscillatory finite-volume MPDATA advection scheme that is bespoke for the compressible dynamics on the hybrid mesh (Kühnlein and Smolarkiewicz, 2017). The recent progress of FVM is illustrated with results of benchmark simulations of intermediate complexity, and comparison to the operational spectral dynamical core of the IFS. C. Kühnlein, P.K. Smolarkiewicz: An unstructured-mesh finite-volume MPDATA for compressible atmospheric dynamics, J. Comput. Phys. (2017), in press. P.K. Smolarkiewicz, W. Deconinck, M. Hamrud, C. Kühnlein, G. Mozdzynski, J. Szmelter, N.P. Wedi: A finite-volume module for simulating global all-scale atmospheric flows, J. Comput. Phys. 314 (2016) 287-304. J. Szmelter, P.K. Smolarkiewicz: An edge-based unstructured mesh discretisation in geospherical framework, J. Comput. Phys. 229 (2010) 4980-4995.

Automated hexahedral mesh generation from biomedical image data: applications in limb prosthetics.

PubMed

Zachariah, S G; Sanders, J E; Turkiyyah, G M

1996-06-01

A general method to generate hexahedral meshes for finite element analysis of residual limbs and similar biomedical geometries is presented. The method utilizes skeleton-based subdivision of cross-sectional domains to produce simple subdomains in which structured meshes are easily generated. Application to a below-knee residual limb and external prosthetic socket is described. The residual limb was modeled as consisting of bones, soft tissue, and skin. The prosthetic socket model comprised a socket wall with an inner liner. The geometries of these structures were defined using axial cross-sectional contour data from X-ray computed tomography, optical scanning, and mechanical surface digitization. A tubular surface representation, using B-splines to define the directrix and generator, is shown to be convenient for definition of the structure geometries. Conversion of cross-sectional data to the compact tubular surface representation is direct, and the analytical representation simplifies geometric querying and numerical optimization within the mesh generation algorithms. The element meshes remain geometrically accurate since boundary nodes are constrained to lie on the tubular surfaces. Several element meshes of increasing mesh density were generated for two residual limbs and prosthetic sockets. Convergence testing demonstrated that approximately 19 elements are required along a circumference of the residual limb surface for a simple linear elastic model. A model with the fibula absent compared with the same geometry with the fibula present showed differences suggesting higher distal stresses in the absence of the fibula. Automated hexahedral mesh generation algorithms for sliced data represent an advancement in prosthetic stress analysis since they allow rapid modeling of any given residual limb and optimization of mesh parameters.

Brain segmentation and the generation of cortical surfaces

NASA Technical Reports Server (NTRS)

Joshi, M.; Cui, J.; Doolittle, K.; Joshi, S.; Van Essen, D.; Wang, L.; Miller, M. I.

1999-01-01

This paper describes methods for white matter segmentation in brain images and the generation of cortical surfaces from the segmentations. We have developed a system that allows a user to start with a brain volume, obtained by modalities such as MRI or cryosection, and constructs a complete digital representation of the cortical surface. The methodology consists of three basic components: local parametric modeling and Bayesian segmentation; surface generation and local quadratic coordinate fitting; and surface editing. Segmentations are computed by parametrically fitting known density functions to the histogram of the image using the expectation maximization algorithm [DLR77]. The parametric fits are obtained locally rather than globally over the whole volume to overcome local variations in gray levels. To represent the boundary of the gray and white matter we use triangulated meshes generated using isosurface generation algorithms [GH95]. A complete system of local parametric quadratic charts [JWM+95] is superimposed on the triangulated graph to facilitate smoothing and geodesic curve tracking. Algorithms for surface editing include extraction of the largest closed surface. Results for several macaque brains are presented comparing automated and hand surface generation. Copyright 1999 Academic Press.

Grain Boundary Conformed Volumetric Mesh Generation from a Three-Dimensional Voxellated Polycrystalline Microstructure

NASA Astrophysics Data System (ADS)

Lee, Myeong-Jin; Jeon, Young-Ju; Son, Ga-Eun; Sung, Sihwa; Kim, Ju-Young; Han, Heung Nam; Cho, Soo Gyeong; Jung, Sang-Hyun; Lee, Sukbin

2018-07-01

We present a new comprehensive scheme for generating grain boundary conformed, volumetric mesh elements from a three-dimensional voxellated polycrystalline microstructure. From the voxellated image of a polycrystalline microstructure obtained from the Monte Carlo Potts model in the context of isotropic normal grain growth simulation, its grain boundary network is approximated as a curvature-maintained conformal triangular surface mesh using a set of in-house codes. In order to improve the surface mesh quality and to adjust mesh resolution, various re-meshing techniques in a commercial software are applied to the approximated grain boundary mesh. It is found that the aspect ratio, the minimum angle and the Jacobian value of the re-meshed surface triangular mesh are successfully improved. Using such an enhanced surface mesh, conformal volumetric tetrahedral elements of the polycrystalline microstructure are created using a commercial software, again. The resultant mesh seamlessly retains the short- and long-range curvature of grain boundaries and junctions as well as the realistic morphology of the grains inside the polycrystal. It is noted that the proposed scheme is the first to successfully generate three-dimensional mesh elements for polycrystals with high enough quality to be used for the microstructure-based finite element analysis, while the realistic characteristics of grain boundaries and grains are maintained from the corresponding voxellated microstructure image.

Grain Boundary Conformed Volumetric Mesh Generation from a Three-Dimensional Voxellated Polycrystalline Microstructure

NASA Astrophysics Data System (ADS)

Lee, Myeong-Jin; Jeon, Young-Ju; Son, Ga-Eun; Sung, Sihwa; Kim, Ju-Young; Han, Heung Nam; Cho, Soo Gyeong; Jung, Sang-Hyun; Lee, Sukbin

2018-03-01

We present a new comprehensive scheme for generating grain boundary conformed, volumetric mesh elements from a three-dimensional voxellated polycrystalline microstructure. From the voxellated image of a polycrystalline microstructure obtained from the Monte Carlo Potts model in the context of isotropic normal grain growth simulation, its grain boundary network is approximated as a curvature-maintained conformal triangular surface mesh using a set of in-house codes. In order to improve the surface mesh quality and to adjust mesh resolution, various re-meshing techniques in a commercial software are applied to the approximated grain boundary mesh. It is found that the aspect ratio, the minimum angle and the Jacobian value of the re-meshed surface triangular mesh are successfully improved. Using such an enhanced surface mesh, conformal volumetric tetrahedral elements of the polycrystalline microstructure are created using a commercial software, again. The resultant mesh seamlessly retains the short- and long-range curvature of grain boundaries and junctions as well as the realistic morphology of the grains inside the polycrystal. It is noted that the proposed scheme is the first to successfully generate three-dimensional mesh elements for polycrystals with high enough quality to be used for the microstructure-based finite element analysis, while the realistic characteristics of grain boundaries and grains are maintained from the corresponding voxellated microstructure image.

The performance of a wire mesh collimator SPECT camera for different breast volumes in prone position

NASA Astrophysics Data System (ADS)

Roslan, R. E.; Saad, W. H. Mohd; Saripan, M. I.; Hashim, S.; Choong, W.-S.

2010-07-01

The multihole collimator is the most commonly used collimator in conventional SPECT cameras for general purpose imaging. However, there are some limitations with this collimator, which includes the lack of sensitivity as a trade-off for obtaining better spatial resolution. This paper looks at the performance of a wire mesh collimator that was introduced recently in order to improve the ability of SPECT cameras in mapping breast cancer cells, utilizing the Technetium-99 m 140 keV radiotracer. In this work, various volumes of breast are modelled and simulated using Monte Carlo N-Particle (MCNP5) code, derived based on the real cup sizes and volumes in prone position. The size of tumour is 1 cm in diameter with tumour to background ratios (TBRs) ranging between TBR from 1:1 to TBR 20:1, and located 2 cm inside breast skin. The results show that wire mesh collimator 1 (WM-1) has the highest sensitivity and signal to noise ratio (SNR) in comparison with wire mesh collimator 2 (WM-2) and the multihole collimator (MHC). This indicates the potential of using a wire mesh collimator for early mapping of breast cancer cells.

An engineering closure for heavily under-resolved coarse-grid CFD in large applications

NASA Astrophysics Data System (ADS)

Class, Andreas G.; Yu, Fujiang; Jordan, Thomas

2016-11-01

Even though high performance computation allows very detailed description of a wide range of scales in scientific computations, engineering simulations used for design studies commonly merely resolve the large scales thus speeding up simulation time. The coarse-grid CFD (CGCFD) methodology is developed for flows with repeated flow patterns as often observed in heat exchangers or porous structures. It is proposed to use inviscid Euler equations on a very coarse numerical mesh. This coarse mesh needs not to conform to the geometry in all details. To reinstall physics on all smaller scales cheap subgrid models are employed. Subgrid models are systematically constructed by analyzing well-resolved generic representative simulations. By varying the flow conditions in these simulations correlations are obtained. These comprehend for each individual coarse mesh cell a volume force vector and volume porosity. Moreover, for all vertices, surface porosities are derived. CGCFD is related to the immersed boundary method as both exploit volume forces and non-body conformal meshes. Yet, CGCFD differs with respect to the coarser mesh and the use of Euler equations. We will describe the methodology based on a simple test case and the application of the method to a 127 pin wire-wrap fuel bundle.

Large-scale subject-specific cerebral arterial tree modeling using automated parametric mesh generation for blood flow simulation.

PubMed

Ghaffari, Mahsa; Tangen, Kevin; Alaraj, Ali; Du, Xinjian; Charbel, Fady T; Linninger, Andreas A

2017-12-01

In this paper, we present a novel technique for automatic parametric mesh generation of subject-specific cerebral arterial trees. This technique generates high-quality and anatomically accurate computational meshes for fast blood flow simulations extending the scope of 3D vascular modeling to a large portion of cerebral arterial trees. For this purpose, a parametric meshing procedure was developed to automatically decompose the vascular skeleton, extract geometric features and generate hexahedral meshes using a body-fitted coordinate system that optimally follows the vascular network topology. To validate the anatomical accuracy of the reconstructed vasculature, we performed statistical analysis to quantify the alignment between parametric meshes and raw vascular images using receiver operating characteristic curve. Geometric accuracy evaluation showed an agreement with area under the curves value of 0.87 between the constructed mesh and raw MRA data sets. Parametric meshing yielded on-average, 36.6% and 21.7% orthogonal and equiangular skew quality improvement over the unstructured tetrahedral meshes. The parametric meshing and processing pipeline constitutes an automated technique to reconstruct and simulate blood flow throughout a large portion of the cerebral arterial tree down to the level of pial vessels. This study is the first step towards fast large-scale subject-specific hemodynamic analysis for clinical applications. Copyright © 2017 Elsevier Ltd. All rights reserved.

New Software Developments for Quality Mesh Generation and Optimization from Biomedical Imaging Data

PubMed Central

Yu, Zeyun; Wang, Jun; Gao, Zhanheng; Xu, Ming; Hoshijima, Masahiko

2013-01-01

In this paper we present a new software toolkit for generating and optimizing surface and volumetric meshes from three-dimensional (3D) biomedical imaging data, targeted at image-based finite element analysis of some biomedical activities in a single material domain. Our toolkit includes a series of geometric processing algorithms including surface re-meshing and quality-guaranteed tetrahedral mesh generation and optimization. All methods described have been encapsulated into a user-friendly graphical interface for easy manipulation and informative visualization of biomedical images and mesh models. Numerous examples are presented to demonstrate the effectiveness and efficiency of the described methods and toolkit. PMID:24252469

Sensitivity analysis on the effective stiffness properties of 3-D orthotropic honeycomb cores

NASA Astrophysics Data System (ADS)

Karakoç, Alp

2018-01-01

The present study investigates the influences of representative volume element RVE mesh and material parameters, here cell wall elastic moduli, on the effective stiffness properties of three dimensional orthotropic honeycomb cores through strain driven computational homogenization in the finite element framework. For this purpose, case studies were carried out, for which hexagonal cellular RVEs were generated, meshed with eight node linear brick finite elements of varying numbers. Periodic boundary conditions were then implemented on the RVE boundaries by using one-to-one nodal match for the corresponding corners, edges and surfaces for the imposed macroscopic strains. As a novelty, orthotropic material properties were assigned for each cell wall by means of the transformation matrices following the cell wall orientations. Thereafter, simulations were conducted and volume averaged macroscopic stresses were obtained. Eventually, effective stiffness properties were obtained, through which RVE sensitivity analysis was carried out. The investigations indicate that there is a strong relation between number of finite elements and most of the effective stiffness parameters. In addition to this, cell wall elastic moduli also play critical role on the effective properties of the investigated materials.

Meshless Method for Simulation of Compressible Flow

NASA Astrophysics Data System (ADS)

Nabizadeh Shahrebabak, Ebrahim

In the present age, rapid development in computing technology and high speed supercomputers has made numerical analysis and computational simulation more practical than ever before for large and complex cases. Numerical simulations have also become an essential means for analyzing the engineering problems and the cases that experimental analysis is not practical. There are so many sophisticated and accurate numerical schemes, which do these simulations. The finite difference method (FDM) has been used to solve differential equation systems for decades. Additional numerical methods based on finite volume and finite element techniques are widely used in solving problems with complex geometry. All of these methods are mesh-based techniques. Mesh generation is an essential preprocessing part to discretize the computation domain for these conventional methods. However, when dealing with mesh-based complex geometries these conventional mesh-based techniques can become troublesome, difficult to implement, and prone to inaccuracies. In this study, a more robust, yet simple numerical approach is used to simulate problems in an easier manner for even complex problem. The meshless, or meshfree, method is one such development that is becoming the focus of much research in the recent years. The biggest advantage of meshfree methods is to circumvent mesh generation. Many algorithms have now been developed to help make this method more popular and understandable for everyone. These algorithms have been employed over a wide range of problems in computational analysis with various levels of success. Since there is no connectivity between the nodes in this method, the challenge was considerable. The most fundamental issue is lack of conservation, which can be a source of unpredictable errors in the solution process. This problem is particularly evident in the presence of steep gradient regions and discontinuities, such as shocks that frequently occur in high speed compressible flow problems. To solve this discontinuity problem, this research study deals with the implementation of a conservative meshless method and its applications in computational fluid dynamics (CFD). One of the most common types of collocating meshless method the RBF-DQ, is used to approximate the spatial derivatives. The issue with meshless methods when dealing with highly convective cases is that they cannot distinguish the influence of fluid flow from upstream or downstream and some methodology is needed to make the scheme stable. Therefore, an upwinding scheme similar to one used in the finite volume method is added to capture steep gradient or shocks. This scheme creates a flexible algorithm within which a wide range of numerical flux schemes, such as those commonly used in the finite volume method, can be employed. In addition, a blended RBF is used to decrease the dissipation ensuing from the use of a low shape parameter. All of these steps are formulated for the Euler equation and a series of test problems used to confirm convergence of the algorithm. The present scheme was first employed on several incompressible benchmarks to validate the framework. The application of this algorithm is illustrated by solving a set of incompressible Navier-Stokes problems. Results from the compressible problem are compared with the exact solution for the flow over a ramp and compared with solutions of finite volume discretization and the discontinuous Galerkin method, both requiring a mesh. The applicability of the algorithm and its robustness are shown to be applied to complex problems.

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 the spectrum as well as active device simulations that model charge transport and Maxwell's equations will be presented.

A computational method for sharp interface advection.

PubMed

Roenby, Johan; Bredmose, Henrik; Jasak, Hrvoje

2016-11-01

We devise a numerical method for passive advection of a surface, such as the interface between two incompressible fluids, across a computational mesh. The method is called isoAdvector, and is developed for general meshes consisting of arbitrary polyhedral cells. The algorithm is based on the volume of fluid (VOF) idea of calculating the volume of one of the fluids transported across the mesh faces during a time step. The novelty of the isoAdvector concept consists of two parts. First, we exploit an isosurface concept for modelling the interface inside cells in a geometric surface reconstruction step. Second, from the reconstructed surface, we model the motion of the face-interface intersection line for a general polygonal face to obtain the time evolution within a time step of the submerged face area. Integrating this submerged area over the time step leads to an accurate estimate for the total volume of fluid transported across the face. The method was tested on simple two-dimensional and three-dimensional interface advection problems on both structured and unstructured meshes. The results are very satisfactory in terms of volume conservation, boundedness, surface sharpness and efficiency. The isoAdvector method was implemented as an OpenFOAM ® extension and is published as open source.

Microstructure and mesh sensitivities of mesoscale surrogate driving force measures for transgranular fatigue cracks in polycrystals

DOE Office of Scientific and Technical Information (OSTI.GOV)

Castelluccio, Gustavo M.; McDowell, David L.

The number of cycles required to form and grow microstructurally small fatigue cracks in metals exhibits substantial variability, particularly for low applied strain amplitudes. This variability is commonly attributed to the heterogeneity of cyclic plastic deformation within the microstructure, and presents a challenge to minimum life design of fatigue resistant components. Our paper analyzes sources of variability that contribute to the driving force of transgranular fatigue cracks within nucleant grains. We also employ crystal plasticity finite element simulations that explicitly render the polycrystalline microstructure and Fatigue Indicator Parameters (FIPs) averaged over different volume sizes and shapes relative to the anticipatedmore » fatigue damage process zone. Volume averaging is necessary to both achieve description of a finite fatigue damage process zone and to regularize mesh dependence in simulations. Furthermore, results from constant amplitude remote applied straining are characterized in terms of the extreme value distributions of volume averaged FIPs. Grain averaged FIP values effectively mitigate mesh sensitivity, but they smear out variability within grains. Furthermore, volume averaging over bands that encompass critical transgranular slip planes appear to present the most attractive approach to mitigate mesh sensitivity while preserving variability within grains.« less

Microstructure and mesh sensitivities of mesoscale surrogate driving force measures for transgranular fatigue cracks in polycrystals

DOE PAGES

Castelluccio, Gustavo M.; McDowell, David L.

2015-05-22

The number of cycles required to form and grow microstructurally small fatigue cracks in metals exhibits substantial variability, particularly for low applied strain amplitudes. This variability is commonly attributed to the heterogeneity of cyclic plastic deformation within the microstructure, and presents a challenge to minimum life design of fatigue resistant components. Our paper analyzes sources of variability that contribute to the driving force of transgranular fatigue cracks within nucleant grains. We also employ crystal plasticity finite element simulations that explicitly render the polycrystalline microstructure and Fatigue Indicator Parameters (FIPs) averaged over different volume sizes and shapes relative to the anticipatedmore » fatigue damage process zone. Volume averaging is necessary to both achieve description of a finite fatigue damage process zone and to regularize mesh dependence in simulations. Furthermore, results from constant amplitude remote applied straining are characterized in terms of the extreme value distributions of volume averaged FIPs. Grain averaged FIP values effectively mitigate mesh sensitivity, but they smear out variability within grains. Furthermore, volume averaging over bands that encompass critical transgranular slip planes appear to present the most attractive approach to mitigate mesh sensitivity while preserving variability within grains.« less

In-memory integration of existing software components for parallel adaptive unstructured mesh workflows

DOE Office of Scientific and Technical Information (OSTI.GOV)

Smith, Cameron W.; Granzow, Brian; Diamond, Gerrett

Unstructured mesh methods, like finite elements and finite volumes, support the effective analysis of complex physical behaviors modeled by partial differential equations over general threedimensional domains. The most reliable and efficient methods apply adaptive procedures with a-posteriori error estimators that indicate where and how the mesh is to be modified. Although adaptive meshes can have two to three orders of magnitude fewer elements than a more uniform mesh for the same level of accuracy, there are many complex simulations where the meshes required are so large that they can only be solved on massively parallel systems.

In-memory integration of existing software components for parallel adaptive unstructured mesh workflows

DOE PAGES

Smith, Cameron W.; Granzow, Brian; Diamond, Gerrett; ...

2017-01-01

Unstructured mesh methods, like finite elements and finite volumes, support the effective analysis of complex physical behaviors modeled by partial differential equations over general threedimensional domains. The most reliable and efficient methods apply adaptive procedures with a-posteriori error estimators that indicate where and how the mesh is to be modified. Although adaptive meshes can have two to three orders of magnitude fewer elements than a more uniform mesh for the same level of accuracy, there are many complex simulations where the meshes required are so large that they can only be solved on massively parallel systems.

Towards hybrid mesh generation for realistic design environments

NASA Astrophysics Data System (ADS)

McMorris, Harlan Tom

Two different techniques that allow hybrid mesh generation to be easily used in the design environment are presented. The purpose of this research is to allow for hybrid meshes to be used during the design process where the geometry is being varied. The first technique, modular hybrid mesh generation, allows for the replacement of portions of a geometry with a new design shape. The mesh is maintained for the portions of that have not changed during the design process. A new mesh is generated for the new part of the geometry and this piece is added to the existing mesh. The new mesh must match the remaining portions of the geometry plus the element sizes must match exactly across the interfaces. The second technique, hybrid mesh movement, is used when the basic geometry remains the same with only small variations to portions of the geometry. These small variations include changing the cross-section of a wing, twisting a blade or changing the length of some portion of the geometry. The mesh for the original geometry is moved onto the new geometry one step at a time beginning with the curves of the surface, continuing with the surface mesh geometry and ending with the interior points of the mesh. The validity of the hybrid mesh is maintained by applying corrections to the motion of the points. Finally, the quality of the new hybrid mesh is improved to ensure that the new mesh maintains the quality of the original hybrid mesh. Applications of both design techniques are applied to typical example cases from the fields of turbomachinery, aerospace and offshore technology. The example test cases demonstrate the ability of the two techniques to reuse the majority of an existing hybrid mesh for typical design changes. Modular mesh generation is used to change the shape of piece of a seafloor pipeline geometry to a completely different configuration. The hybrid mesh movement technique is used to change the twist of a turbomachinery blade, the tip clearance of a rotor blade and to simulate the aeroelastic bending of a wing. Finally, the movement technique is applied to an offshore application where the solution for the original configuration is used as a starting point for solution for a new configuration. The application of both techniques show that the methods can be a powerful addition to the design environment and will facilitate a rapid turnaround when the design geometry changes.

Adaptively Refined Euler and Navier-Stokes Solutions with a Cartesian-Cell Based Scheme

NASA Technical Reports Server (NTRS)

Coirier, William J.; Powell, Kenneth G.

1995-01-01

A Cartesian-cell based scheme with adaptive mesh refinement for solving the Euler and Navier-Stokes equations in two dimensions has been developed and tested. Grids about geometrically complicated bodies were generated automatically, by recursive subdivision of a single Cartesian cell encompassing the entire flow domain. Where the resulting cells intersect bodies, N-sided 'cut' cells were created using polygon-clipping algorithms. The grid was stored in a binary-tree data structure which provided a natural means of obtaining cell-to-cell connectivity and of carrying out solution-adaptive mesh refinement. The Euler and Navier-Stokes equations were solved on the resulting grids using an upwind, finite-volume formulation. The inviscid fluxes were found in an upwinded manner using a linear reconstruction of the cell primitives, providing the input states to an approximate Riemann solver. The viscous fluxes were formed using a Green-Gauss type of reconstruction upon a co-volume surrounding the cell interface. Data at the vertices of this co-volume were found in a linearly K-exact manner, which ensured linear K-exactness of the gradients. Adaptively-refined solutions for the inviscid flow about a four-element airfoil (test case 3) were compared to theory. Laminar, adaptively-refined solutions were compared to accepted computational, experimental and theoretical results.

Nanowire mesh solar fuels generator

DOEpatents

Yang, Peidong; Chan, Candace; Sun, Jianwei; Liu, Bin

2016-05-24

This disclosure provides systems, methods, and apparatus related to a nanowire mesh solar fuels generator. In one aspect, a nanowire mesh solar fuels generator includes (1) a photoanode configured to perform water oxidation and (2) a photocathode configured to perform water reduction. The photocathode is in electrical contact with the photoanode. The photoanode may include a high surface area network of photoanode nanowires. The photocathode may include a high surface area network of photocathode nanowires. In some embodiments, the nanowire mesh solar fuels generator may include an ion conductive polymer infiltrating the photoanode and the photocathode in the region where the photocathode is in electrical contact with the photoanode.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bakosi, Jozsef; Christon, Mark A.; Francois, Marianne M.

Progress is reported on computational capabilities for the grid-to-rod-fretting (GTRF) problem of pressurized water reactors. Numeca's Hexpress/Hybrid mesh generator is demonstrated as an excellent alternative to generating computational meshes for complex flow geometries, such as in GTRF. Mesh assessment is carried out using standard industrial computational fluid dynamics practices. Hydra-TH, a simulation code developed at LANL for reactor thermal-hydraulics, is demonstrated on hybrid meshes, containing different element types. A series of new Hydra-TH calculations has been carried out collecting turbulence statistics. Preliminary results on the newly generated meshes are discussed; full analysis will be documented in the L3 milestone, THM.CFD.P5.05,more » Sept. 2012.« less

New software developments for quality mesh generation and optimization from biomedical imaging data.

PubMed

Yu, Zeyun; Wang, Jun; Gao, Zhanheng; Xu, Ming; Hoshijima, Masahiko

2014-01-01

In this paper we present a new software toolkit for generating and optimizing surface and volumetric meshes from three-dimensional (3D) biomedical imaging data, targeted at image-based finite element analysis of some biomedical activities in a single material domain. Our toolkit includes a series of geometric processing algorithms including surface re-meshing and quality-guaranteed tetrahedral mesh generation and optimization. All methods described have been encapsulated into a user-friendly graphical interface for easy manipulation and informative visualization of biomedical images and mesh models. Numerous examples are presented to demonstrate the effectiveness and efficiency of the described methods and toolkit. Copyright © 2013 Elsevier Ireland Ltd. All rights reserved.

Radial cold trap

DOEpatents

Grundy, Brian R.

1981-01-01

The radial cold trap comprises a housing having a plurality of mesh bands disposed therein. The mesh bands comprise concentrically arranged bands of mesh with the mesh specific surface area of each band increasing from the outermost mesh band to the innermost mesh band. An inlet nozzle is attached to the outside section of the housing while an outlet nozzle is attached to the inner portion of the housing so as to be concentrically connected to the innermost mesh band. An inlet baffle having orifices therein may be disposed around the outermost mesh band and within the housing for directing the flow of the fluid from the inlet nozzle to the outermost mesh band in a uniform manner. The flow of fluid passes through each consecutive mesh band and into the outlet nozzle. The circular pattern of the symmetrically arranged mesh packing allows for better utilization of the entire cold trap volume.

Radial cold trap

DOEpatents

Grundy, B.R.

1981-09-29

The radial cold trap comprises a housing having a plurality of mesh bands disposed therein. The mesh bands comprise concentrically arranged bands of mesh with the mesh specific surface area of each band increasing from the outermost mesh band to the innermost mesh band. An inlet nozzle is attached to the outside section of the housing while an outlet nozzle is attached to the inner portion of the housing so as to be concentrically connected to the innermost mesh band. An inlet baffle having orifices therein may be disposed around the outermost mesh band and within the housing for directing the flow of the fluid from the inlet nozzle to the outermost mesh band in a uniform manner. The flow of fluid passes through each consecutive mesh band and into the outlet nozzle. The circular pattern of the symmetrically arranged mesh packing allows for better utilization of the entire cold trap volume. 2 figs.

Unstructured Mesh Methods for the Simulation of Hypersonic Flows

NASA Technical Reports Server (NTRS)

Peraire, Jaime; Bibb, K. L. (Technical Monitor)

2001-01-01

This report describes the research work undertaken at the Massachusetts Institute of Technology. The aim of this research is to identify effective algorithms and methodologies for the efficient and routine solution of hypersonic viscous flows about re-entry vehicles. For over ten years we have received support from NASA to develop unstructured mesh methods for Computational Fluid Dynamics. As a result of this effort a methodology based on the use, of unstructured adapted meshes of tetrahedra and finite volume flow solvers has been developed. A number of gridding algorithms flow solvers, and adaptive strategies have been proposed. The most successful algorithms developed from the basis of the unstructured mesh system FELISA. The FELISA system has been extensively for the analysis of transonic and hypersonic flows about complete vehicle configurations. The system is highly automatic and allows for the routine aerodynamic analysis of complex configurations starting from CAD data. The code has been parallelized and utilizes efficient solution algorithms. For hypersonic flows, a version of the, code which incorporates real gas effects, has been produced. One of the latest developments before the start of this grant was to extend the system to include viscous effects. This required the development of viscous generators, capable of generating the anisotropic grids required to represent boundary layers, and viscous flow solvers. In figures I and 2, we show some sample hypersonic viscous computations using the developed viscous generators and solvers. Although these initial results were encouraging, it became apparent that in order to develop a fully functional capability for viscous flows, several advances in gridding, solution accuracy, robustness and efficiency were required. As part of this research we have developed: 1) automatic meshing techniques and the corresponding computer codes have been delivered to NASA and implemented into the GridEx system, 2) a finite element algorithm for the solution of the viscous compressible flow equations which can solve flows all the way down to the incompressible limit and that can use higher order (quadratic) approximations leading to highly accurate answers, and 3) and iterative algebraic multigrid solution techniques.

NeuroTessMesh: A Tool for the Generation and Visualization of Neuron Meshes and Adaptive On-the-Fly Refinement.

PubMed

Garcia-Cantero, Juan J; Brito, Juan P; Mata, Susana; Bayona, Sofia; Pastor, Luis

2017-01-01

Gaining a better understanding of the human brain continues to be one of the greatest challenges for science, largely because of the overwhelming complexity of the brain and the difficulty of analyzing the features and behavior of dense neural networks. Regarding analysis, 3D visualization has proven to be a useful tool for the evaluation of complex systems. However, the large number of neurons in non-trivial circuits, together with their intricate geometry, makes the visualization of a neuronal scenario an extremely challenging computational problem. Previous work in this area dealt with the generation of 3D polygonal meshes that approximated the cells' overall anatomy but did not attempt to deal with the extremely high storage and computational cost required to manage a complex scene. This paper presents NeuroTessMesh, a tool specifically designed to cope with many of the problems associated with the visualization of neural circuits that are comprised of large numbers of cells. In addition, this method facilitates the recovery and visualization of the 3D geometry of cells included in databases, such as NeuroMorpho, and provides the tools needed to approximate missing information such as the soma's morphology. This method takes as its only input the available compact, yet incomplete, morphological tracings of the cells as acquired by neuroscientists. It uses a multiresolution approach that combines an initial, coarse mesh generation with subsequent on-the-fly adaptive mesh refinement stages using tessellation shaders. For the coarse mesh generation, a novel approach, based on the Finite Element Method, allows approximation of the 3D shape of the soma from its incomplete description. Subsequently, the adaptive refinement process performed in the graphic card generates meshes that provide good visual quality geometries at a reasonable computational cost, both in terms of memory and rendering time. All the described techniques have been integrated into NeuroTessMesh, available to the scientific community, to generate, visualize, and save the adaptive resolution meshes.

2D Automatic body-fitted structured mesh generation using advancing extraction method

USDA-ARS?s Scientific Manuscript database

This paper presents an automatic mesh generation algorithm for body-fitted structured meshes in Computational Fluids Dynamics (CFD) analysis using the Advancing Extraction Method (AEM). The method is applicable to two-dimensional domains with complex geometries, which have the hierarchical tree-like...

2D automatic body-fitted structured mesh generation using advancing extraction method

USDA-ARS?s Scientific Manuscript database

This paper presents an automatic mesh generation algorithm for body-fitted structured meshes in Computational Fluids Dynamics (CFD) analysis using the Advancing Extraction Method (AEM). The method is applicable to two-dimensional domains with complex geometries, which have the hierarchical tree-like...

A Survey of Solver-Related Geometry and Meshing Issues

NASA Technical Reports Server (NTRS)

Masters, James; Daniel, Derick; Gudenkauf, Jared; Hine, David; Sideroff, Chris

2016-01-01

There is a concern in the computational fluid dynamics community that mesh generation is a significant bottleneck in the CFD workflow. This is one of several papers that will help set the stage for a moderated panel discussion addressing this issue. Although certain general "rules of thumb" and a priori mesh metrics can be used to ensure that some base level of mesh quality is achieved, inadequate consideration is often given to the type of solver or particular flow regime on which the mesh will be utilized. This paper explores how an analyst may want to think differently about a mesh based on considerations such as if a flow is compressible vs. incompressible or hypersonic vs. subsonic or if the solver is node-centered vs. cell-centered. This paper is a high-level investigation intended to provide general insight into how considering the nature of the solver or flow when performing mesh generation has the potential to increase the accuracy and/or robustness of the solution and drive the mesh generation process to a state where it is no longer a hindrance to the analysis process.

A new third order finite volume weighted essentially non-oscillatory scheme on tetrahedral meshes

NASA Astrophysics Data System (ADS)

Zhu, Jun; Qiu, Jianxian

2017-11-01

In this paper a third order finite volume weighted essentially non-oscillatory scheme is designed for solving hyperbolic conservation laws on tetrahedral meshes. Comparing with other finite volume WENO schemes designed on tetrahedral meshes, the crucial advantages of such new WENO scheme are its simplicity and compactness with the application of only six unequal size spatial stencils for reconstructing unequal degree polynomials in the WENO type spatial procedures, and easy choice of the positive linear weights without considering the topology of the meshes. The original innovation of such scheme is to use a quadratic polynomial defined on a big central spatial stencil for obtaining third order numerical approximation at any points inside the target tetrahedral cell in smooth region and switch to at least one of five linear polynomials defined on small biased/central spatial stencils for sustaining sharp shock transitions and keeping essentially non-oscillatory property simultaneously. By performing such new procedures in spatial reconstructions and adopting a third order TVD Runge-Kutta time discretization method for solving the ordinary differential equation (ODE), the new scheme's memory occupancy is decreased and the computing efficiency is increased. So it is suitable for large scale engineering requirements on tetrahedral meshes. Some numerical results are provided to illustrate the good performance of such scheme.

New Computer Simulations of Macular Neural Functioning

NASA Technical Reports Server (NTRS)

Ross, Muriel D.; Doshay, D.; Linton, S.; Parnas, B.; Montgomery, K.; Chimento, T.

1994-01-01

We use high performance graphics workstations and supercomputers to study the functional significance of the three-dimensional (3-D) organization of gravity sensors. These sensors have a prototypic architecture foreshadowing more complex systems. Scaled-down simulations run on a Silicon Graphics workstation and scaled-up, 3-D versions run on a Cray Y-MP supercomputer. A semi-automated method of reconstruction of neural tissue from serial sections studied in a transmission electron microscope has been developed to eliminate tedious conventional photography. The reconstructions use a mesh as a step in generating a neural surface for visualization. Two meshes are required to model calyx surfaces. The meshes are connected and the resulting prisms represent the cytoplasm and the bounding membranes. A finite volume analysis method is employed to simulate voltage changes along the calyx in response to synapse activation on the calyx or on calyceal processes. The finite volume method insures that charge is conserved at the calyx-process junction. These and other models indicate that efferent processes act as voltage followers, and that the morphology of some afferent processes affects their functioning. In a final application, morphological information is symbolically represented in three dimensions in a computer. The possible functioning of the connectivities is tested using mathematical interpretations of physiological parameters taken from the literature. Symbolic, 3-D simulations are in progress to probe the functional significance of the connectivities. This research is expected to advance computer-based studies of macular functioning and of synaptic plasticity.

ESCHER: An interactive mesh-generating editor for preparing finite-element input

NASA Technical Reports Server (NTRS)

Oakes, W. R., Jr.

1984-01-01

ESCHER is an interactive mesh generation and editing program designed to help the user create a finite-element mesh, create additional input for finite-element analysis, including initial conditions, boundary conditions, and slidelines, and generate a NEUTRAL FILE that can be postprocessed for input into several finite-element codes, including ADINA, ADINAT, DYNA, NIKE, TSAAS, and ABUQUS. Two important ESCHER capabilities, interactive geometry creation and mesh archival storge are described in detail. Also described is the interactive command language and the use of interactive graphics. The archival storage and restart file is a modular, entity-based mesh data file. Modules of this file correspond to separate editing modes in the mesh editor, with data definition syntax preserved between the interactive commands and the archival storage file. Because ESCHER was expected to be highly interactive, extensive user documentation was provided in the form of an interactive HELP package.

Loft: An Automated Mesh Generator for Stiffened Shell Aerospace Vehicles

NASA Technical Reports Server (NTRS)

Eldred, Lloyd B.

2011-01-01

Loft is an automated mesh generation code that is designed for aerospace vehicle structures. From user input, Loft generates meshes for wings, noses, tanks, fuselage sections, thrust structures, and so on. As a mesh is generated, each element is assigned properties to mark the part of the vehicle with which it is associated. This property assignment is an extremely powerful feature that enables detailed analysis tasks, such as load application and structural sizing. This report is presented in two parts. The first part is an overview of the code and its applications. The modeling approach that was used to create the finite element meshes is described. Several applications of the code are demonstrated, including a Next Generation Launch Technology (NGLT) wing-sizing study, a lunar lander stage study, a launch vehicle shroud shape study, and a two-stage-to-orbit (TSTO) orbiter. Part two of the report is the program user manual. The manual includes in-depth tutorials and a complete command reference.

Numerical Experiments on Advective Transport in Large Three-Dimensional Discrete Fracture Networks

NASA Astrophysics Data System (ADS)

Makedonska, N.; Painter, S. L.; Karra, S.; Gable, C. W.

2013-12-01

Modeling of flow and solute transport in discrete fracture networks is an important approach for understanding the migration of contaminants in impermeable hard rocks such as granite, where fractures provide dominant flow and transport pathways. The discrete fracture network (DFN) model attempts to mimic discrete pathways for fluid flow through a fractured low-permeable rock mass, and may be combined with particle tracking simulations to address solute transport. However, experience has shown that it is challenging to obtain accurate transport results in three-dimensional DFNs because of the high computational burden and difficulty in constructing a high-quality unstructured computational mesh on simulated fractures. An integrated DFN meshing [1], flow, and particle tracking [2] simulation capability that enables accurate flow and particle tracking simulation on large DFNs has recently been developed. The new capability has been used in numerical experiments on advective transport in large DFNs with tens of thousands of fractures and millions of computational cells. The modeling procedure starts from the fracture network generation using a stochastic model derived from site data. A high-quality computational mesh is then generated [1]. Flow is then solved using the highly parallel PFLOTRAN [3] code. PFLOTRAN uses the finite volume approach, which is locally mass conserving and thus eliminates mass balance problems during particle tracking. The flow solver provides the scalar fluxes on each control volume face. From the obtained fluxes the Darcy velocity is reconstructed for each node in the network [4]. Velocities can then be continuously interpolated to any point in the domain of interest, thus enabling random walk particle tracking. In order to describe the flow field on fractures intersections, the control volume cells on intersections are split into four planar polygons, where each polygon corresponds to a piece of a fracture near the intersection line. Thus, computational nodes lying on fracture intersections have four associated velocities, one on each side of the intersection in each fracture plane [2]. This information is used to route particles arriving at the fracture intersection to the appropriate downstream fracture segment. Verified for small DFNs, the new simulation capability allows accurate particle tracking on more realistic representations of fractured rock sites. In the current work we focus on travel time statistics and spatial dispersion and show numerical results in DFNs of different sizes, fracture densities, and transmissivity distributions. [1] Hyman J.D., Gable C.W., Painter S.L., Automated meshing of stochastically generated discrete fracture networks, Abstract H33G-1403, 2011 AGU, San Francisco, CA, 5-9 Dec. [2] N. Makedonska, S. L. Painter, T.-L. Hsieh, Q.M. Bui, and C. W. Gable., Development and verification of a new particle tracking capability for modeling radionuclide transport in discrete fracture networks, Abstract, 2013 IHLRWM, Albuquerque, NM, Apr. 28 - May 3. [3] Lichtner, P.C., Hammond, G.E., Bisht, G., Karra, S., Mills, R.T., and Kumar, J. (2013) PFLOTRAN User's Manual: A Massively Parallel Reactive Flow Code. [4] Painter S.L., Gable C.W., Kelkar S., Pathline tracing on fully unstructured control-volume grids, Computational Geosciences, 16 (4), 2012, 1125-1134.

A novel finite volume discretization method for advection-diffusion systems on stretched meshes

NASA Astrophysics Data System (ADS)

Merrick, D. G.; Malan, A. G.; van Rooyen, J. A.

2018-06-01

This work is concerned with spatial advection and diffusion discretization technology within the field of Computational Fluid Dynamics (CFD). In this context, a novel method is proposed, which is dubbed the Enhanced Taylor Advection-Diffusion (ETAD) scheme. The model equation employed for design of the scheme is the scalar advection-diffusion equation, the industrial application being incompressible laminar and turbulent flow. Developed to be implementable into finite volume codes, ETAD places specific emphasis on improving accuracy on stretched structured and unstructured meshes while considering both advection and diffusion aspects in a holistic manner. A vertex-centered structured and unstructured finite volume scheme is used, and only data available on either side of the volume face is employed. This includes the addition of a so-called mesh stretching metric. Additionally, non-linear blending with the existing NVSF scheme was performed in the interest of robustness and stability, particularly on equispaced meshes. The developed scheme is assessed in terms of accuracy - this is done analytically and numerically, via comparison to upwind methods which include the popular QUICK and CUI techniques. Numerical tests involved the 1D scalar advection-diffusion equation, a 2D lid driven cavity and turbulent flow case. Significant improvements in accuracy were achieved, with L2 error reductions of up to 75%.

A computational method for sharp interface advection

PubMed Central

Bredmose, Henrik; Jasak, Hrvoje

2016-01-01

We devise a numerical method for passive advection of a surface, such as the interface between two incompressible fluids, across a computational mesh. The method is called isoAdvector, and is developed for general meshes consisting of arbitrary polyhedral cells. The algorithm is based on the volume of fluid (VOF) idea of calculating the volume of one of the fluids transported across the mesh faces during a time step. The novelty of the isoAdvector concept consists of two parts. First, we exploit an isosurface concept for modelling the interface inside cells in a geometric surface reconstruction step. Second, from the reconstructed surface, we model the motion of the face–interface intersection line for a general polygonal face to obtain the time evolution within a time step of the submerged face area. Integrating this submerged area over the time step leads to an accurate estimate for the total volume of fluid transported across the face. The method was tested on simple two-dimensional and three-dimensional interface advection problems on both structured and unstructured meshes. The results are very satisfactory in terms of volume conservation, boundedness, surface sharpness and efficiency. The isoAdvector method was implemented as an OpenFOAM® extension and is published as open source. PMID:28018619

JIGSAW-GEO (1.0): Locally Orthogonal Staggered Unstructured Grid Generation for General Circulation Modelling on the Sphere

NASA Technical Reports Server (NTRS)

Engwirda, Darren

2017-01-01

An algorithm for the generation of non-uniform, locally orthogonal staggered unstructured spheroidal grids is described. This technique is designed to generate very high-quality staggered VoronoiDelaunay meshes appropriate for general circulation modelling on the sphere, including applications to atmospheric simulation, ocean-modelling and numerical weather prediction. Using a recently developed Frontal-Delaunay refinement technique, a method for the construction of high-quality unstructured spheroidal Delaunay triangulations is introduced. A locally orthogonal polygonal grid, derived from the associated Voronoi diagram, is computed as the staggered dual. It is shown that use of the Frontal-Delaunay refinement technique allows for the generation of very high-quality unstructured triangulations, satisfying a priori bounds on element size and shape. Grid quality is further improved through the application of hill-climbing-type optimisation techniques. Overall, the algorithm is shown to produce grids with very high element quality and smooth grading characteristics, while imposing relatively low computational expense. A selection of uniform and non-uniform spheroidal grids appropriate for high-resolution, multi-scale general circulation modelling are presented. These grids are shown to satisfy the geometric constraints associated with contemporary unstructured C-grid-type finite-volume models, including the Model for Prediction Across Scales (MPAS-O). The use of user-defined mesh-spacing functions to generate smoothly graded, non-uniform grids for multi-resolution-type studies is discussed in detail.

JIGSAW-GEO (1.0): locally orthogonal staggered unstructured grid generation for general circulation modelling on the sphere

NASA Astrophysics Data System (ADS)

Engwirda, Darren

2017-06-01

An algorithm for the generation of non-uniform, locally orthogonal staggered unstructured spheroidal grids is described. This technique is designed to generate very high-quality staggered Voronoi-Delaunay meshes appropriate for general circulation modelling on the sphere, including applications to atmospheric simulation, ocean-modelling and numerical weather prediction. Using a recently developed Frontal-Delaunay refinement technique, a method for the construction of high-quality unstructured spheroidal Delaunay triangulations is introduced. A locally orthogonal polygonal grid, derived from the associated Voronoi diagram, is computed as the staggered dual. It is shown that use of the Frontal-Delaunay refinement technique allows for the generation of very high-quality unstructured triangulations, satisfying a priori bounds on element size and shape. Grid quality is further improved through the application of hill-climbing-type optimisation techniques. Overall, the algorithm is shown to produce grids with very high element quality and smooth grading characteristics, while imposing relatively low computational expense. A selection of uniform and non-uniform spheroidal grids appropriate for high-resolution, multi-scale general circulation modelling are presented. These grids are shown to satisfy the geometric constraints associated with contemporary unstructured C-grid-type finite-volume models, including the Model for Prediction Across Scales (MPAS-O). The use of user-defined mesh-spacing functions to generate smoothly graded, non-uniform grids for multi-resolution-type studies is discussed in detail.

Three-dimensional structural analysis using interactive graphics

NASA Technical Reports Server (NTRS)

Biffle, J.; Sumlin, H. A.

1975-01-01

The application of computer interactive graphics to three-dimensional structural analysis was described, with emphasis on the following aspects: (1) structural analysis, and (2) generation and checking of input data and examination of the large volume of output data (stresses, displacements, velocities, accelerations). Handling of three-dimensional input processing with a special MESH3D computer program was explained. Similarly, a special code PLTZ may be used to perform all the needed tasks for output processing from a finite element code. Examples were illustrated.

Development of an Unstructured Mesh Code for Flows About Complete Vehicles

NASA Technical Reports Server (NTRS)

Peraire, Jaime; Gupta, K. K. (Technical Monitor)

2001-01-01

This report describes the research work undertaken at the Massachusetts Institute of Technology, under NASA Research Grant NAG4-157. The aim of this research is to identify effective algorithms and methodologies for the efficient and routine solution of flow simulations about complete vehicle configurations. For over ten years we have received support from NASA to develop unstructured mesh methods for Computational Fluid Dynamics. As a result of this effort a methodology based on the use of unstructured adapted meshes of tetrahedra and finite volume flow solvers has been developed. A number of gridding algorithms, flow solvers, and adaptive strategies have been proposed. The most successful algorithms developed from the basis of the unstructured mesh system FELISA. The FELISA system has been extensively for the analysis of transonic and hypersonic flows about complete vehicle configurations. The system is highly automatic and allows for the routine aerodynamic analysis of complex configurations starting from CAD data. The code has been parallelized and utilizes efficient solution algorithms. For hypersonic flows, a version of the code which incorporates real gas effects, has been produced. The FELISA system is also a component of the STARS aeroservoelastic system developed at NASA Dryden. One of the latest developments before the start of this grant was to extend the system to include viscous effects. This required the development of viscous generators, capable of generating the anisotropic grids required to represent boundary layers, and viscous flow solvers. We show some sample hypersonic viscous computations using the developed viscous generators and solvers. Although this initial results were encouraging it became apparent that in order to develop a fully functional capability for viscous flows, several advances in solution accuracy, robustness and efficiency were required. In this grant we set out to investigate some novel methodologies that could lead to the required improvements. In particular we focused on two fronts: (1) finite element methods and (2) iterative algebraic multigrid solution techniques.

Outcomes of Orbital Floor Reconstruction After Extensive Maxillectomy Using the Computer-Assisted Fabricated Individual Titanium Mesh Technique.

PubMed

Zhang, Wen-Bo; Mao, Chi; Liu, Xiao-Jing; Guo, Chuan-Bin; Yu, Guang-Yan; Peng, Xin

2015-10-01

Orbital floor defects after extensive maxillectomy can cause severe esthetic and functional deformities. Orbital floor reconstruction using the computer-assisted fabricated individual titanium mesh technique is a promising method. This study evaluated the application and clinical outcomes of this technique. This retrospective study included 10 patients with orbital floor defects after maxillectomy performed from 2012 through 2014. A 3-dimensional individual stereo model based on mirror images of the unaffected orbit was obtained to fabricate an anatomically adapted titanium mesh using computer-assisted design and manufacturing. The titanium mesh was inserted into the defect using computer navigation. The postoperative globe projection and orbital volume were measured and the incidence of postoperative complications was evaluated. The average postoperative globe projection was 15.91 ± 1.80 mm on the affected side and 16.24 ± 2.24 mm on the unaffected side (P = .505), and the average postoperative orbital volume was 26.01 ± 1.28 and 25.57 ± 1.89 mL, respectively (P = .312). The mean mesh depth was 25.11 ± 2.13 mm. The mean follow-up period was 23.4 ± 7.7 months (12 to 34 months). Of the 10 patients, 9 did not develop diplopia or a decrease in visual acuity and ocular motility. Titanium mesh exposure was not observed in any patient. All patients were satisfied with their postoperative facial symmetry. Orbital floor reconstruction after extensive maxillectomy with an individual titanium mesh fabricated using computer-assisted techniques can preserve globe projection and orbital volume, resulting in successful clinical outcomes. Copyright © 2015 American Association of Oral and Maxillofacial Surgeons. Published by Elsevier Inc. All rights reserved.

Meshing of a Spiral Bevel Gearset with 3D Finite Element Analysis

NASA Technical Reports Server (NTRS)

Bibel, George D.; Handschuh, Robert

1996-01-01

Recent advances in spiral bevel gear geometry and finite element technology make it practical to conduct a structural analysis and analytically roll the gearset through mesh. With the advent of user specific programming linked to 3D solid modelers and mesh generators, model generation has become greatly automated. Contact algorithms available in general purpose finite element codes eliminate the need for the use and alignment of gap elements. Once the gearset is placed in mesh, user subroutines attached to the FE code easily roll the gearset through mesh. The method is described in detail. Preliminary results for a gearset segment showing the progression of the contact lineload is given as the gears roll through mesh.

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.

Domain Decomposition By the Advancing-Partition Method for Parallel Unstructured Grid Generation

NASA Technical Reports Server (NTRS)

Pirzadeh, Shahyar Z.; Zagaris, George

2009-01-01

A new method of domain decomposition has been developed for generating unstructured grids in subdomains either sequentially or using multiple computers in parallel. Domain decomposition is a crucial and challenging step for parallel grid generation. Prior methods are generally based on auxiliary, complex, and computationally intensive operations for defining partition interfaces and usually produce grids of lower quality than those generated in single domains. The new technique, referred to as "Advancing Partition," is based on the Advancing-Front method, which partitions a domain as part of the volume mesh generation in a consistent and "natural" way. The benefits of this approach are: 1) the process of domain decomposition is highly automated, 2) partitioning of domain does not compromise the quality of the generated grids, and 3) the computational overhead for domain decomposition is minimal. The new method has been implemented in NASA's unstructured grid generation code VGRID.

A new multiscale air quality transport model (Fluidity, 4.1.9) using fully unstructured anisotropic adaptive mesh technology

NASA Astrophysics Data System (ADS)

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

2015-06-01

A new anisotropic hr-adaptive mesh technique has been applied to modelling of multiscale transport phenomena, 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 setup for two-dimensional (2-D) transport phenomena. Comparisons have been made between the results obtained using uniform resolution meshes and anisotropic adaptive resolution meshes.

Automatic generation of endocardial surface meshes with 1-to-1 correspondence from cine-MR images

NASA Astrophysics Data System (ADS)

Su, Yi; Teo, S.-K.; Lim, C. W.; Zhong, L.; Tan, R. S.

2015-03-01

In this work, we develop an automatic method to generate a set of 4D 1-to-1 corresponding surface meshes of the left ventricle (LV) endocardial surface which are motion registered over the whole cardiac cycle. These 4D meshes have 1- to-1 point correspondence over the entire set, and is suitable for advanced computational processing, such as shape analysis, motion analysis and finite element modelling. The inputs to the method are the set of 3D LV endocardial surface meshes of the different frames/phases of the cardiac cycle. Each of these meshes is reconstructed independently from border-delineated MR images and they have no correspondence in terms of number of vertices/points and mesh connectivity. To generate point correspondence, the first frame of the LV mesh model is used as a template to be matched to the shape of the meshes in the subsequent phases. There are two stages in the mesh correspondence process: (1) a coarse matching phase, and (2) a fine matching phase. In the coarse matching phase, an initial rough matching between the template and the target is achieved using a radial basis function (RBF) morphing process. The feature points on the template and target meshes are automatically identified using a 16-segment nomenclature of the LV. In the fine matching phase, a progressive mesh projection process is used to conform the rough estimate to fit the exact shape of the target. In addition, an optimization-based smoothing process is used to achieve superior mesh quality and continuous point motion.

A mixed volume grid approach for the Euler and Navier-Stokes equations

NASA Technical Reports Server (NTRS)

Coirier, William J.; Jorgenson, Philip C. E.

1996-01-01

An approach for solving the compressible Euler and Navier-Stokes equations upon meshes composed of nearly arbitrary polyhedra is described. Each polyhedron is constructed from an arbitrary number of triangular and quadrilateral face elements, allowing the unified treatment of tetrahedral, prismatic, pyramidal, and hexahedral cells, as well the general cut cells produced by Cartesian mesh approaches. The basics behind the numerical approach and the resulting data structures are described. The accuracy of the mixed volume grid approach is assessed by performing a grid refinement study upon a series of hexahedral, tetrahedral, prismatic, and Cartesian meshes for an analytic inviscid problem. A series of laminar validation cases are made, comparing the results upon differing grid topologies to each other, to theory, and experimental data. A computation upon a prismatic/tetrahedral mesh is made simulating the laminar flow over a wall/cylinder combination.

NeuroTessMesh: A Tool for the Generation and Visualization of Neuron Meshes and Adaptive On-the-Fly Refinement

PubMed Central

Garcia-Cantero, Juan J.; Brito, Juan P.; Mata, Susana; Bayona, Sofia; Pastor, Luis

2017-01-01

Gaining a better understanding of the human brain continues to be one of the greatest challenges for science, largely because of the overwhelming complexity of the brain and the difficulty of analyzing the features and behavior of dense neural networks. Regarding analysis, 3D visualization has proven to be a useful tool for the evaluation of complex systems. However, the large number of neurons in non-trivial circuits, together with their intricate geometry, makes the visualization of a neuronal scenario an extremely challenging computational problem. Previous work in this area dealt with the generation of 3D polygonal meshes that approximated the cells’ overall anatomy but did not attempt to deal with the extremely high storage and computational cost required to manage a complex scene. This paper presents NeuroTessMesh, a tool specifically designed to cope with many of the problems associated with the visualization of neural circuits that are comprised of large numbers of cells. In addition, this method facilitates the recovery and visualization of the 3D geometry of cells included in databases, such as NeuroMorpho, and provides the tools needed to approximate missing information such as the soma’s morphology. This method takes as its only input the available compact, yet incomplete, morphological tracings of the cells as acquired by neuroscientists. It uses a multiresolution approach that combines an initial, coarse mesh generation with subsequent on-the-fly adaptive mesh refinement stages using tessellation shaders. For the coarse mesh generation, a novel approach, based on the Finite Element Method, allows approximation of the 3D shape of the soma from its incomplete description. Subsequently, the adaptive refinement process performed in the graphic card generates meshes that provide good visual quality geometries at a reasonable computational cost, both in terms of memory and rendering time. All the described techniques have been integrated into NeuroTessMesh, available to the scientific community, to generate, visualize, and save the adaptive resolution meshes. PMID:28690511

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.

Documentation for MeshKit - Reactor Geometry (&mesh) Generator

DOE Office of Scientific and Technical Information (OSTI.GOV)

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.more » 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.« less

CAPRI (Computational Analysis PRogramming Interface): A Solid Modeling Based Infra-Structure for Engineering Analysis and Design Simulations

NASA Technical Reports Server (NTRS)

Haimes, Robert; Follen, Gregory J.

1998-01-01

CAPRI is a CAD-vendor neutral application programming interface designed for the construction of analysis and design systems. By allowing access to the geometry from within all modules (grid generators, solvers and post-processors) such tasks as meshing on the actual surfaces, node enrichment by solvers and defining which mesh faces are boundaries (for the solver and visualization system) become simpler. The overall reliance on file 'standards' is minimized. This 'Geometry Centric' approach makes multi-physics (multi-disciplinary) analysis codes much easier to build. By using the shared (coupled) surface as the foundation, CAPRI provides a single call to interpolate grid-node based data from the surface discretization in one volume to another. Finally, design systems are possible where the results can be brought back into the CAD system (and therefore manufactured) because all geometry construction and modification are performed using the CAD system's geometry kernel.

LIMSI @ 2014 Clinical Decision Support Track

DTIC Science & Technology

2014-11-01

MeSH and BoW runs) was based on the automatic generation of disease hypotheses for which we used data from OrphaNet [4] and the Disease Symptom Knowledge...with the MeSH terms of the top 5 disease hypotheses generated for the case reports. Compared to the other participants we achieved low scores...clinical question types. Query expansion (for both MeSH and BoW runs) was based on the automatic generation of disease hypotheses for which we used data

Simulation of geothermal water extraction in heterogeneous reservoirs using dynamic unstructured mesh optimisation

NASA Astrophysics Data System (ADS)

Salinas, P.; Pavlidis, D.; Jacquemyn, C.; Lei, Q.; Xie, Z.; Pain, C.; Jackson, M.

2017-12-01

It is well known that the pressure gradient into a production well increases with decreasing distance to the well. To properly capture the local pressure drawdown into the well a high grid or mesh resolution is required; moreover, the location of the well must be captured accurately. In conventional simulation models, the user must interact with the model to modify grid resolution around wells of interest, and the well location is approximated on a grid defined early in the modelling process.We report a new approach for improved simulation of near wellbore flow in reservoir scale models through the use of dynamic mesh optimisation and the recently presented double control volume finite element method. Time is discretized using an adaptive, implicit approach. Heterogeneous geologic features are represented as volumes bounded by surfaces. Within these volumes, termed geologic domains, the material properties are constant. Up-, cross- or down-scaling of material properties during dynamic mesh optimization is not required, as the properties are uniform within each geologic domain. A given model typically contains numerous such geologic domains. Wells are implicitly coupled with the domain, and the fluid flows is modelled inside the wells. The method is novel for two reasons. First, a fully unstructured tetrahedral mesh is used to discretize space, and the spatial location of the well is specified via a line vector, ensuring its location even if the mesh is modified during the simulation. The well location is therefore accurately captured, the approach allows complex well trajectories and wells with many laterals to be modelled. Second, computational efficiency is increased by use of dynamic mesh optimization, in which an unstructured mesh adapts in space and time to key solution fields (preserving the geometry of the geologic domains), such as pressure, velocity or temperature, this also increases the quality of the solutions by placing higher resolution where required to reduce an error metric based on the Hessian of the field. This allows the local pressure drawdown to be captured without user¬ driven modification of the mesh. We demonstrate that the method has wide application in reservoir ¬scale models of geothermal fields, and regional models of groundwater resources.

Generating unstructured nuclear reactor core meshes in parallel

DOE PAGES

Jain, Rajeev; Tautges, Timothy J.

2014-10-24

Recent advances in supercomputers and parallel solver techniques have enabled users to run large simulations problems using millions of processors. Techniques for multiphysics nuclear reactor core simulations are under active development in several countries. Most of these techniques require large unstructured meshes that can be hard to generate in a standalone desktop computers because of high memory requirements, limited processing power, and other complexities. We have previously reported on a hierarchical lattice-based approach for generating reactor core meshes. Here, we describe efforts to exploit coarse-grained parallelism during reactor assembly and reactor core mesh generation processes. We highlight several reactor coremore » examples including a very high temperature reactor, a full-core model of the Korean MONJU reactor, a ¼ pressurized water reactor core, the fast reactor Experimental Breeder Reactor-II core with a XX09 assembly, and an advanced breeder test reactor core. The times required to generate large mesh models, along with speedups obtained from running these problems in parallel, are reported. A graphical user interface to the tools described here has also been developed.« less

Domain Decomposition By the Advancing-Partition Method

NASA Technical Reports Server (NTRS)

Pirzadeh, Shahyar Z.

2008-01-01

A new method of domain decomposition has been developed for generating unstructured grids in subdomains either sequentially or using multiple computers in parallel. Domain decomposition is a crucial and challenging step for parallel grid generation. Prior methods are generally based on auxiliary, complex, and computationally intensive operations for defining partition interfaces and usually produce grids of lower quality than those generated in single domains. The new technique, referred to as "Advancing Partition," is based on the Advancing-Front method, which partitions a domain as part of the volume mesh generation in a consistent and "natural" way. The benefits of this approach are: 1) the process of domain decomposition is highly automated, 2) partitioning of domain does not compromise the quality of the generated grids, and 3) the computational overhead for domain decomposition is minimal. The new method has been implemented in NASA's unstructured grid generation code VGRID.

High-fidelity simulations of blast loadings in urban environments using an overset meshing strategy

NASA Astrophysics Data System (ADS)

Wang, X.; Remotigue, M.; Arnoldus, Q.; Janus, M.; Luke, E.; Thompson, D.; Weed, R.; Bessette, G.

2017-05-01

Detailed blast propagation and evolution through multiple structures representing an urban environment were simulated using the code Loci/BLAST, which employs an overset meshing strategy. The use of overset meshes simplifies mesh generation by allowing meshes for individual component geometries to be generated independently. Detailed blast propagation and evolution through multiple structures, wave reflection and interaction between structures, and blast loadings on structures were simulated and analyzed. Predicted results showed good agreement with experimental data generated by the US Army Engineer Research and Development Center. Loci/BLAST results were also found to compare favorably to simulations obtained using the Second-Order Hydrodynamic Automatic Mesh Refinement Code (SHAMRC). The results obtained demonstrated that blast reflections in an urban setting significantly increased the blast loads on adjacent buildings. Correlations of computational results with experimental data yielded valuable insights into the physics of blast propagation, reflection, and interaction under an urban setting and verified the use of Loci/BLAST as a viable tool for urban blast analysis.

Scalable hierarchical PDE sampler for generating spatially correlated random fields using nonmatching meshes: Scalable hierarchical PDE sampler using nonmatching meshes

DOE PAGES

Osborn, Sarah; Zulian, Patrick; Benson, Thomas; ...

2018-01-30

This work describes a domain embedding technique between two nonmatching meshes used for generating realizations of spatially correlated random fields with applications to large-scale sampling-based uncertainty quantification. The goal is to apply the multilevel Monte Carlo (MLMC) method for the quantification of output uncertainties of PDEs with random input coefficients on general and unstructured computational domains. We propose a highly scalable, hierarchical sampling method to generate realizations of a Gaussian random field on a given unstructured mesh by solving a reaction–diffusion PDE with a stochastic right-hand side. The stochastic PDE is discretized using the mixed finite element method on anmore » embedded domain with a structured mesh, and then, the solution is projected onto the unstructured mesh. This work describes implementation details on how to efficiently transfer data from the structured and unstructured meshes at coarse levels, assuming that this can be done efficiently on the finest level. We investigate the efficiency and parallel scalability of the technique for the scalable generation of Gaussian random fields in three dimensions. An application of the MLMC method is presented for quantifying uncertainties of subsurface flow problems. Here, we demonstrate the scalability of the sampling method with nonmatching mesh embedding, coupled with a parallel forward model problem solver, for large-scale 3D MLMC simulations with up to 1.9·109 unknowns.« less

Scalable hierarchical PDE sampler for generating spatially correlated random fields using nonmatching meshes: Scalable hierarchical PDE sampler using nonmatching meshes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Osborn, Sarah; Zulian, Patrick; Benson, Thomas

This work describes a domain embedding technique between two nonmatching meshes used for generating realizations of spatially correlated random fields with applications to large-scale sampling-based uncertainty quantification. The goal is to apply the multilevel Monte Carlo (MLMC) method for the quantification of output uncertainties of PDEs with random input coefficients on general and unstructured computational domains. We propose a highly scalable, hierarchical sampling method to generate realizations of a Gaussian random field on a given unstructured mesh by solving a reaction–diffusion PDE with a stochastic right-hand side. The stochastic PDE is discretized using the mixed finite element method on anmore » embedded domain with a structured mesh, and then, the solution is projected onto the unstructured mesh. This work describes implementation details on how to efficiently transfer data from the structured and unstructured meshes at coarse levels, assuming that this can be done efficiently on the finest level. We investigate the efficiency and parallel scalability of the technique for the scalable generation of Gaussian random fields in three dimensions. An application of the MLMC method is presented for quantifying uncertainties of subsurface flow problems. Here, we demonstrate the scalability of the sampling method with nonmatching mesh embedding, coupled with a parallel forward model problem solver, for large-scale 3D MLMC simulations with up to 1.9·109 unknowns.« less

MESHMAKER (MM) V1.5

DOE Office of Scientific and Technical Information (OSTI.GOV)

MORIDIS, GEORGE

2016-05-02

MeshMaker v1.5 is a code that describes the system geometry and discretizes the domain in problems of flow and transport through porous and fractured media that are simulated using the TOUGH+ [Moridis and Pruess, 2014] or TOUGH2 [Pruess et al., 1999; 2012] families of codes. It is a significantly modified and drastically enhanced version of an earlier simpler facility that was embedded in the TOUGH2 codes [Pruess et al., 1999; 2012], from which it could not be separated. The code (MeshMaker.f90) is a stand-alone product written in FORTRAN 95/2003, is written according to the tenets of Object-Oriented Programming, has amore » modular structure and can perform a number of mesh generation and processing operations. It can generate two-dimensional radially symmetric (r,z) meshes, and one-, two-, and three-dimensional rectilinear (Cartesian) grids in (x,y,z). The code generates the file MESH, which includes all the elements and connections that describe the discretized simulation domain and conforming to the requirements of the TOUGH+ and TOUGH2 codes. Multiple-porosity processing for simulation of flow in naturally fractured reservoirs can be invoked by means of a keyword MINC, which stands for Multiple INteracting Continua. The MINC process operates on the data of the primary (porous medium) mesh as provided on disk file MESH, and generates a secondary mesh containing fracture and matrix elements with identical data formats on file MINC.« less

An unstructured mesh arbitrary Lagrangian-Eulerian unsteady incompressible flow solver and its application to insect flight aerodynamics

NASA Astrophysics Data System (ADS)

Su, Xiaohui; Cao, Yuanwei; Zhao, Yong

2016-06-01

In this paper, an unstructured mesh Arbitrary Lagrangian-Eulerian (ALE) incompressible flow solver is developed to investigate the aerodynamics of insect hovering flight. The proposed finite-volume ALE Navier-Stokes solver is based on the artificial compressibility method (ACM) with a high-resolution method of characteristics-based scheme on unstructured grids. The present ALE model is validated and assessed through flow passing over an oscillating cylinder. Good agreements with experimental results and other numerical solutions are obtained, which demonstrates the accuracy and the capability of the present model. The lift generation mechanisms of 2D wing in hovering motion, including wake capture, delayed stall, rapid pitch, as well as clap and fling are then studied and illustrated using the current ALE model. Moreover, the optimized angular amplitude in symmetry model, 45°, is firstly reported in details using averaged lift and the energy power method. Besides, the lift generation of complete cyclic clap and fling motion, which is simulated by few researchers using the ALE method due to large deformation, is studied and clarified for the first time. The present ALE model is found to be a useful tool to investigate lift force generation mechanism for insect wing flight.

A multigrid method for steady Euler equations on unstructured adaptive grids

NASA Technical Reports Server (NTRS)

Riemslagh, Kris; Dick, Erik

1993-01-01

A flux-difference splitting type algorithm is formulated for the steady Euler equations on unstructured grids. The polynomial flux-difference splitting technique is used. A vertex-centered finite volume method is employed on a triangular mesh. The multigrid method is in defect-correction form. A relaxation procedure with a first order accurate inner iteration and a second-order correction performed only on the finest grid, is used. A multi-stage Jacobi relaxation method is employed as a smoother. Since the grid is unstructured a Jacobi type is chosen. The multi-staging is necessary to provide sufficient smoothing properties. The domain is discretized using a Delaunay triangular mesh generator. Three grids with more or less uniform distribution of nodes but with different resolution are generated by successive refinement of the coarsest grid. Nodes of coarser grids appear in the finer grids. The multigrid method is started on these grids. As soon as the residual drops below a threshold value, an adaptive refinement is started. The solution on the adaptively refined grid is accelerated by a multigrid procedure. The coarser multigrid grids are generated by successive coarsening through point removement. The adaption cycle is repeated a few times. Results are given for the transonic flow over a NACA-0012 airfoil.

A novel concept of dielectrophoretic engine oil filter

NASA Astrophysics Data System (ADS)

Khusid, Boris; Shen, Yueyang; Elele, Ezinwa

2011-11-01

A novel concept of an alternating current (AC) dielectrophoretic filter with a three-dimensional electrode array is presented. A filter is constructed by winding into layers around the core tube two sheets of woven metal wire-mesh with several sheets of woven insulating wire-mesh sandwiched in between. Contrary to conventional dielectrophoretic devices, the proposed design of electrodes generates a high-gradient field over a large working volume by applying several hundred volts at a standard frequency of 60 Hz. The operating principle of filtration is based on our recently developed method of AC dielectrophoretic gating for microfluidics. The filtration efficiency is expressed in terms of two non-dimensional parameters which describe the combined influence of the particle polarizability and size, the oil viscosity and flow rate, and the field gradient on the particle captivity. The proof-of-concept is tested by measuring the single-pass performance of two filters on positively polarized particles dispersed in engine oil: spherical glass beads, fused aluminum oxide powder, and silicon metal powder, all smaller than the mesh opening. The results obtained provide critical design guidelines for the development of a filter based on the retention capability of challenge particles. The work was supported in part by ONR and NSF.

Adaptive finite-volume WENO schemes on dynamically redistributed grids for compressible Euler equations

NASA Astrophysics Data System (ADS)

Pathak, Harshavardhana S.; Shukla, Ratnesh K.

2016-08-01

A high-order adaptive finite-volume method is presented for simulating inviscid compressible flows on time-dependent redistributed grids. The method achieves dynamic adaptation through a combination of time-dependent mesh node clustering in regions characterized by strong solution gradients and an optimal selection of the order of accuracy and the associated reconstruction stencil in a conservative finite-volume framework. This combined approach maximizes spatial resolution in discontinuous regions that require low-order approximations for oscillation-free shock capturing. Over smooth regions, high-order discretization through finite-volume WENO schemes minimizes numerical dissipation and provides excellent resolution of intricate flow features. The method including the moving mesh equations and the compressible flow solver is formulated entirely on a transformed time-independent computational domain discretized using a simple uniform Cartesian mesh. Approximations for the metric terms that enforce discrete geometric conservation law while preserving the fourth-order accuracy of the two-point Gaussian quadrature rule are developed. Spurious Cartesian grid induced shock instabilities such as carbuncles that feature in a local one-dimensional contact capturing treatment along the cell face normals are effectively eliminated through upwind flux calculation using a rotated Hartex-Lax-van Leer contact resolving (HLLC) approximate Riemann solver for the Euler equations in generalized coordinates. Numerical experiments with the fifth and ninth-order WENO reconstructions at the two-point Gaussian quadrature nodes, over a range of challenging test cases, indicate that the redistributed mesh effectively adapts to the dynamic flow gradients thereby improving the solution accuracy substantially even when the initial starting mesh is non-adaptive. The high adaptivity combined with the fifth and especially the ninth-order WENO reconstruction allows remarkably sharp capture of discontinuous propagating shocks with simultaneous resolution of smooth yet complex small scale unsteady flow features to an exceptional detail.

Quality assessment of two- and three-dimensional unstructured meshes and validation of an upwind Euler flow solver

NASA Technical Reports Server (NTRS)

Woodard, Paul R.; Batina, John T.; Yang, Henry T. Y.

1992-01-01

Quality assessment procedures are described for two-dimensional unstructured meshes. The procedures include measurement of minimum angles, element aspect ratios, stretching, and element skewness. Meshes about the ONERA M6 wing and the Boeing 747 transport configuration are generated using an advancing front method grid generation package of programs. Solutions of Euler's equations for these meshes are obtained at low angle-of-attack, transonic conditions. Results for these cases, obtained as part of a validation study demonstrate accuracy of an implicit upwind Euler solution algorithm.

Accuracy and predictability in use of AO three-dimensionally preformed titanium mesh plates for posttraumatic orbital reconstruction: a pilot study.

PubMed

Scolozzi, Paolo; Momjian, Armen; Heuberger, Joris; Andersen, Elene; Broome, Martin; Terzic, Andrej; Jaques, Bertrand

2009-07-01

The aim of this study was to prospectively evaluate the accuracy and predictability of new three-dimensionally preformed AO titanium mesh plates for posttraumatic orbital wall reconstruction.We analyzed the preoperative and postoperative clinical and radiologic data of 10 patients with isolated blow-out orbital fractures. Fracture locations were as follows: floor (N = 7; 70%), medial wall (N = 1; 1%), and floor/medial wall (N = 2; 2%). The floor fractures were exposed by a standard transconjunctival approach, whereas a combined transcaruncular transconjunctival approach was used in patients with medial wall fractures. A three-dimensional preformed AO titanium mesh plate (0.4 mm in thickness) was selected according to the size of the defect previously measured on the preoperative computed tomographic (CT) scan examination and fixed at the inferior orbital rim with 1 or 2 screws. The accuracy of plate positioning of the reconstructed orbit was assessed on the postoperative CT scan. Coronal CT scan slices were used to measure bony orbital volume using OsiriX Medical Image software. Reconstructed versus uninjured orbital volume were statistically correlated.Nine patients (90%) had a successful treatment outcome without complications. One patient (10%) developed a mechanical limitation of upward gaze with a resulting handicapping diplopia requiring hardware removal. Postoperative orbital CT scan showed an anatomic three-dimensional placement of the orbital mesh plates in all of the patients. Volume data of the reconstructed orbit fitted that of the contralateral uninjured orbit with accuracy to within 2.5 cm(3). There was no significant difference in volume between the reconstructed and uninjured orbits.This preliminary study has demonstrated that three-dimensionally preformed AO titanium mesh plates for posttraumatic orbital wall reconstruction results in (1) a high rate of success with an acceptable rate of major clinical complications (10%) and (2) an anatomic restoration of the bony orbital contour and volume that closely approximates that of the contralateral uninjured orbit.

PBSM3D: A finite volume, scalar-transport blowing snow model for use with variable resolution meshes

NASA Astrophysics Data System (ADS)

Marsh, C.; Wayand, N. E.; Pomeroy, J. W.; Wheater, H. S.; Spiteri, R. J.

2017-12-01

Blowing snow redistribution results in heterogeneous snowcovers that are ubiquitous in cold, windswept environments. Capturing this spatial and temporal variability is important for melt and runoff simulations. Point scale blowing snow transport models are difficult to apply in fully distributed hydrological models due to landscape heterogeneity and complex wind fields. Many existing distributed snow transport models have empirical wind flow and/or simplified wind direction algorithms that perform poorly in calculating snow redistribution where there are divergent wind flows, sharp topography, and over large spatial extents. Herein, a steady-state scalar transport model is discretized using the finite volume method (FVM), using parameterizations from the Prairie Blowing Snow Model (PBSM). PBSM has been applied in hydrological response units and grids to prairie, arctic, glacier, and alpine terrain and shows a good capability to represent snow redistribution over complex terrain. The FVM discretization takes advantage of the variable resolution mesh in the Canadian Hydrological Model (CHM) to ensure efficient calculations over small and large spatial extents. Variable resolution unstructured meshes preserve surface heterogeneity but result in fewer computational elements versus high-resolution structured (raster) grids. Snowpack, soil moisture, and streamflow observations were used to evaluate CHM-modelled outputs in a sub-arctic and an alpine basin. Newly developed remotely sensed snowcover indices allowed for validation over large basins. CHM simulations of snow hydrology were improved by inclusion of the blowing snow model. The results demonstrate the key role of snow transport processes in creating pre-melt snowcover heterogeneity and therefore governing post-melt soil moisture and runoff generation dynamics.

SemVisM: semantic visualizer for medical image

NASA Astrophysics Data System (ADS)

Landaeta, Luis; La Cruz, Alexandra; Baranya, Alexander; Vidal, María.-Esther

2015-01-01

SemVisM is a toolbox that combines medical informatics and computer graphics tools for reducing the semantic gap between low-level features and high-level semantic concepts/terms in the images. This paper presents a novel strategy for visualizing medical data annotated semantically, combining rendering techniques, and segmentation algorithms. SemVisM comprises two main components: i) AMORE (A Modest vOlume REgister) to handle input data (RAW, DAT or DICOM) and to initially annotate the images using terms defined on medical ontologies (e.g., MesH, FMA or RadLex), and ii) VOLPROB (VOlume PRObability Builder) for generating the annotated volumetric data containing the classified voxels that belong to a particular tissue. SemVisM is built on top of the semantic visualizer ANISE.1

Method and system for progressive mesh storage and reconstruction using wavelet-encoded height fields

NASA Technical Reports Server (NTRS)

Baxes, Gregory A. (Inventor); Linger, Timothy C. (Inventor)

2011-01-01

Systems and methods are provided for progressive mesh storage and reconstruction using wavelet-encoded height fields. A method for progressive mesh storage includes reading raster height field data, and processing the raster height field data with a discrete wavelet transform to generate wavelet-encoded height fields. In another embodiment, a method for progressive mesh storage includes reading texture map data, and processing the texture map data with a discrete wavelet transform to generate wavelet-encoded texture map fields. A method for reconstructing a progressive mesh from wavelet-encoded height field data includes determining terrain blocks, and a level of detail required for each terrain block, based upon a viewpoint. Triangle strip constructs are generated from vertices of the terrain blocks, and an image is rendered utilizing the triangle strip constructs. Software products that implement these methods are provided.

Method and system for progressive mesh storage and reconstruction using wavelet-encoded height fields

NASA Technical Reports Server (NTRS)

Baxes, Gregory A. (Inventor)

2010-01-01

Systems and methods are provided for progressive mesh storage and reconstruction using wavelet-encoded height fields. A method for progressive mesh storage includes reading raster height field data, and processing the raster height field data with a discrete wavelet transform to generate wavelet-encoded height fields. In another embodiment, a method for progressive mesh storage includes reading texture map data, and processing the texture map data with a discrete wavelet transform to generate wavelet-encoded texture map fields. A method for reconstructing a progressive mesh from wavelet-encoded height field data includes determining terrain blocks, and a level of detail required for each terrain block, based upon a viewpoint. Triangle strip constructs are generated from vertices of the terrain blocks, and an image is rendered utilizing the triangle strip constructs. Software products that implement these methods are provided.

2D automatic body-fitted structured mesh generation using advancing extraction method

NASA Astrophysics Data System (ADS)

Zhang, Yaoxin; Jia, Yafei

2018-01-01

This paper presents an automatic mesh generation algorithm for body-fitted structured meshes in Computational Fluids Dynamics (CFD) analysis using the Advancing Extraction Method (AEM). The method is applicable to two-dimensional domains with complex geometries, which have the hierarchical tree-like topography with extrusion-like structures (i.e., branches or tributaries) and intrusion-like structures (i.e., peninsula or dikes). With the AEM, the hierarchical levels of sub-domains can be identified, and the block boundary of each sub-domain in convex polygon shape in each level can be extracted in an advancing scheme. In this paper, several examples were used to illustrate the effectiveness and applicability of the proposed algorithm for automatic structured mesh generation, and the implementation of the method.

Divergence-free MHD on unstructured meshes using high order finite volume schemes based on multidimensional Riemann solvers

NASA Astrophysics Data System (ADS)

Balsara, Dinshaw S.; Dumbser, Michael

2015-10-01

Several advances have been reported in the recent literature on divergence-free finite volume schemes for Magnetohydrodynamics (MHD). Almost all of these advances are restricted to structured meshes. To retain full geometric versatility, however, it is also very important to make analogous advances in divergence-free schemes for MHD on unstructured meshes. Such schemes utilize a staggered Yee-type mesh, where all hydrodynamic quantities (mass, momentum and energy density) are cell-centered, while the magnetic fields are face-centered and the electric fields, which are so useful for the time update of the magnetic field, are centered at the edges. Three important advances are brought together in this paper in order to make it possible to have high order accurate finite volume schemes for the MHD equations on unstructured meshes. First, it is shown that a divergence-free WENO reconstruction of the magnetic field can be developed for unstructured meshes in two and three space dimensions using a classical cell-centered WENO algorithm, without the need to do a WENO reconstruction for the magnetic field on the faces. This is achieved via a novel constrained L2-projection operator that is used in each time step as a postprocessor of the cell-centered WENO reconstruction so that the magnetic field becomes locally and globally divergence free. Second, it is shown that recently-developed genuinely multidimensional Riemann solvers (called MuSIC Riemann solvers) can be used on unstructured meshes to obtain a multidimensionally upwinded representation of the electric field at each edge. Third, the above two innovations work well together with a high order accurate one-step ADER time stepping strategy, which requires the divergence-free nonlinear WENO reconstruction procedure to be carried out only once per time step. The resulting divergence-free ADER-WENO schemes with MuSIC Riemann solvers give us an efficient and easily-implemented strategy for divergence-free MHD on unstructured meshes. Several stringent two- and three-dimensional problems are shown to work well with the methods presented here.

The optimization of high resolution topographic data for 1D hydrodynamic models

NASA Astrophysics Data System (ADS)

Ales, Ronovsky; Michal, Podhoranyi

2016-06-01

The main focus of our research presented in this paper is to optimize and use high resolution topographical data (HRTD) for hydrological modelling. Optimization of HRTD is done by generating adaptive mesh by measuring distance of coarse mesh and the surface of the dataset and adapting the mesh from the perspective of keeping the geometry as close to initial resolution as possible. Technique described in this paper enables computation of very accurate 1-D hydrodynamic models. In the paper, we use HEC-RAS software as a solver. For comparison, we have chosen the amount of generated cells/grid elements (in whole discretization domain and selected cross sections) with respect to preservation of the accuracy of the computational domain. Generation of the mesh for hydrodynamic modelling is strongly reliant on domain size and domain resolution. Topographical dataset used in this paper was created using LiDAR method and it captures 5.9km long section of a catchment of the river Olše. We studied crucial changes in topography for generated mesh. Assessment was done by commonly used statistical and visualization methods.

Automated quadrilateral surface discretization method and apparatus usable to generate mesh in a finite element analysis system

DOEpatents

Blacker, Teddy D.

1994-01-01

An automatic quadrilateral surface discretization method and apparatus is provided for automatically discretizing a geometric region without decomposing the region. The automated quadrilateral surface discretization method and apparatus automatically generates a mesh of all quadrilateral elements which is particularly useful in finite element analysis. The generated mesh of all quadrilateral elements is boundary sensitive, orientation insensitive and has few irregular nodes on the boundary. A permanent boundary of the geometric region is input and rows are iteratively layered toward the interior of the geometric region. Also, an exterior permanent boundary and an interior permanent boundary for a geometric region may be input and the rows are iteratively layered inward from the exterior boundary in a first counter clockwise direction while the rows are iteratively layered from the interior permanent boundary toward the exterior of the region in a second clockwise direction. As a result, a high quality mesh for an arbitrary geometry may be generated with a technique that is robust and fast for complex geometric regions and extreme mesh gradations.

The optimization of high resolution topographic data for 1D hydrodynamic models

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ales, Ronovsky, E-mail: ales.ronovsky@vsb.cz; Michal, Podhoranyi

2016-06-08

The main focus of our research presented in this paper is to optimize and use high resolution topographical data (HRTD) for hydrological modelling. Optimization of HRTD is done by generating adaptive mesh by measuring distance of coarse mesh and the surface of the dataset and adapting the mesh from the perspective of keeping the geometry as close to initial resolution as possible. Technique described in this paper enables computation of very accurate 1-D hydrodynamic models. In the paper, we use HEC-RAS software as a solver. For comparison, we have chosen the amount of generated cells/grid elements (in whole discretization domainmore » and selected cross sections) with respect to preservation of the accuracy of the computational domain. Generation of the mesh for hydrodynamic modelling is strongly reliant on domain size and domain resolution. Topographical dataset used in this paper was created using LiDAR method and it captures 5.9km long section of a catchment of the river Olše. We studied crucial changes in topography for generated mesh. Assessment was done by commonly used statistical and visualization methods.« less

Mesh Generation via Local Bisection Refinement of Triangulated Grids

DTIC Science & Technology

2015-06-01

Science and Technology Organisation DSTO–TR–3095 ABSTRACT This report provides a comprehensive implementation of an unstructured mesh generation method...and Technology Organisation 506 Lorimer St, Fishermans Bend, Victoria 3207, Australia Telephone: 1300 333 362 Facsimile: (03) 9626 7999 c© Commonwealth...their behaviour is critically linked to Maubach’s method and the data structures N and T . The top- level mesh refinement algorithm is also presented

A spring system method for a mesh generation problem

NASA Astrophysics Data System (ADS)

Romanov, A.

2018-04-01

A new direct method for the 2d-mesh generation for a simply-connected domain using a spring system is observed. The method can be used with other methods to modify a mesh for growing solid problems. Advantages and disadvantages of the method are shown. Different types of boundary conditions are explored. The results of modelling for different target domains are given. Some applications for composite materials are studied.

Unstructured mesh methods for CFD

NASA Technical Reports Server (NTRS)

Peraire, J.; Morgan, K.; Peiro, J.

1990-01-01

Mesh generation methods for Computational Fluid Dynamics (CFD) are outlined. Geometric modeling is discussed. An advancing front method is described. Flow past a two engine Falcon aeroplane is studied. An algorithm and associated data structure called the alternating digital tree, which efficiently solves the geometric searching problem is described. The computation of an initial approximation to the steady state solution of a given poblem is described. Mesh generation for transient flows is described.

Quality assessment of two- and three-dimensional unstructured meshes and validation of an upwind Euler flow solver

NASA Technical Reports Server (NTRS)

Woodard, Paul R.; Yang, Henry T. Y.; Batina, John T.

1992-01-01

Quality assessment procedures are described for two-dimensional and three-dimensional unstructured meshes. The procedures include measurement of minimum angles, element aspect ratios, stretching, and element skewness. Meshes about the ONERA M6 wing and the Boeing 747 transport configuration are generated using an advancing front method grid generation package of programs. Solutions of Euler's equations for these meshes are obtained at low angle-of-attack, transonic conditions. Results for these cases, obtained as part of a validation study demonstrate the accuracy of an implicit upwind Euler solution algorithm.

An efficient predictor-corrector-based dynamic mesh method for multi-block structured grid with extremely large deformation and its applications

NASA Astrophysics Data System (ADS)

Guo, Tongqing; Chen, Hao; Lu, Zhiliang

2018-05-01

Aiming at extremely large deformation, a novel predictor-corrector-based dynamic mesh method for multi-block structured grid is proposed. In this work, the dynamic mesh generation is completed in three steps. At first, some typical dynamic positions are selected and high-quality multi-block grids with the same topology are generated at those positions. Then, Lagrange interpolation method is adopted to predict the dynamic mesh at any dynamic position. Finally, a rapid elastic deforming technique is used to correct the small deviation between the interpolated geometric configuration and the actual instantaneous one. Compared with the traditional methods, the results demonstrate that the present method shows stronger deformation ability and higher dynamic mesh quality.

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.

Finite-element 3D simulation tools for high-current relativistic electron beams

NASA Astrophysics Data System (ADS)

Humphries, Stanley; Ekdahl, Carl

2002-08-01

The DARHT second-axis injector is a challenge for computer simulations. Electrons are subject to strong beam-generated forces. The fields are fully three-dimensional and accurate calculations at surfaces are critical. We describe methods applied in OmniTrak, a 3D finite-element code suite that can address DARHT and the full range of charged-particle devices. The system handles mesh generation, electrostatics, magnetostatics and self-consistent particle orbits. The MetaMesh program generates meshes of conformal hexahedrons to fit any user geometry. The code has the unique ability to create structured conformal meshes with cubic logic. Organized meshes offer advantages in speed and memory utilization in the orbit and field solutions. OmniTrak is a versatile charged-particle code that handles 3D electric and magnetic field solutions on independent meshes. The program can update both 3D field solutions from the calculated beam space-charge and current-density. We shall describe numerical methods for orbit tracking on a hexahedron mesh. Topics include: 1) identification of elements along the particle trajectory, 2) fast searches and adaptive field calculations, 3) interpolation methods to terminate orbits on material surfaces, 4) automatic particle generation on multiple emission surfaces to model space-charge-limited emission and field emission, 5) flexible Child law algorithms, 6) implementation of the dual potential model for 3D magnetostatics, and 7) assignment of charge and current from model particle orbits for self-consistent fields.

On the effect of standard PFEM remeshing on volume conservation in free-surface fluid flow problems

NASA Astrophysics Data System (ADS)

Franci, Alessandro; Cremonesi, Massimiliano

2017-07-01

The aim of this work is to analyze the remeshing procedure used in the particle finite element method (PFEM) and to investigate how this operation may affect the numerical results. The PFEM remeshing algorithm combines the Delaunay triangulation and the Alpha Shape method to guarantee a good quality of the Lagrangian mesh also in large deformation processes. However, this strategy may lead to local variations of the topology that may cause an artificial change of the global volume. The issue of volume conservation is here studied in detail. An accurate description of all the situations that may induce a volume variation during the PFEM regeneration of the mesh is provided. Moreover, the crucial role of the parameter α used in the Alpha Shape method is highlighted and a range of values of α for which the differences between the numerical results are negligible, is found. Furthermore, it is shown that the variation of volume induced by the remeshing reduces by refining the mesh. This check of convergence is of paramount importance for the reliability of the PFEM. The study is carried out for 2D free-surface fluid dynamics problems, however the conclusions can be extended to 3D and to all those problems characterized by significant variations of internal and external boundaries.

Stress adapted embroidered meshes with a graded pattern design for abdominal wall hernia repair

NASA Astrophysics Data System (ADS)

Hahn, J.; Bittrich, L.; Breier, A.; Spickenheuer, A.

2017-10-01

Abdominal wall hernias are one of the most relevant injuries of the digestive system with 25 million patients in 2013. Surgery is recommended primarily using allogenic non-absorbable wrap-knitted meshes. These meshes have in common that their stress-strain behaviour is not adapted to the anisotropic behaviour of native abdominal wall tissue. The ideal mesh should possess an adequate mechanical behaviour and a suitable porosity at the same time. An alternative fabrication method to wrap-knitting is the embroidery technology with a high flexibility in pattern design and adaption of mechanical properties. In this study, a pattern generator was created for pattern designs consisting of a base and a reinforcement pattern. The embroidered mesh structures demonstrated different structural and mechanical characteristics. Additionally, the investigation of the mechanical properties exhibited an anisotropic mechanical behaviour for the embroidered meshes. As a result, the investigated pattern generator and the embroidery technology allow the production of stress adapted mesh structures that are a promising approach for hernia reconstruction.

LayTracks3D: A new approach for meshing general solids using medial axis transform

DOE PAGES

Quadros, William Roshan

2015-08-22

This study presents an extension of the all-quad meshing algorithm called LayTracks to generate high quality hex-dominant meshes of general solids. LayTracks3D uses the mapping between the Medial Axis (MA) and the boundary of the 3D domain to decompose complex 3D domains into simpler domains called Tracks. Tracks in 3D have no branches and are symmetric, non-intersecting, orthogonal to the boundary, and the shortest path from the MA to the boundary. These properties of tracks result in desired meshes with near cube shape elements at the boundary, structured mesh along the boundary normal with any irregular nodes restricted to themore » MA, and sharp boundary feature preservation. The algorithm has been tested on a few industrial CAD models and hex-dominant meshes are shown in the Results section. Work is underway to extend LayTracks3D to generate all-hex meshes.« less

Tensile behaviors of three-dimensionally free-formable titanium mesh plates for bone graft applications

NASA Astrophysics Data System (ADS)

He, Jianmei

2017-11-01

Present metal artificial bones for bone grafts have the problems like too heavy and excessive elastic modulus compared with natural bones. In this study, three-dimensionally (3D) free-formable titanium mesh plates for bone graft applications was introduced to improve these problems. Fundamental mesh shapes and patterns were designed under different base shapes and design parameters through three dimensional CAD tools from higher flexibility and strength points of view. Based on the designed mesh shape and patterns, sample specimens of titanium mesh plates with different base shapes and design variables were manufactured through laser processing. Tensile properties of the sample titanium mesh plates like volume density, tensile elastic modulus were experimentally and analytically evaluated. Experimental results showed that such titanium mesh plates had much higher flexibility and their mechanical properties could be controlled to close to the natural bones. More details on the mechanical properties of titanium mesh plates including compression, bending, torsion and durability will be carried out in future study.

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.

Third-order accurate conservative method on unstructured meshes for gasdynamic simulations

NASA Astrophysics Data System (ADS)

Shirobokov, D. A.

2017-04-01

A third-order accurate finite-volume method on unstructured meshes is proposed for solving viscous gasdynamic problems. The method is described as applied to the advection equation. The accuracy of the method is verified by computing the evolution of a vortex on meshes of various degrees of detail with variously shaped cells. Additionally, unsteady flows around a cylinder and a symmetric airfoil are computed. The numerical results are presented in the form of plots and tables.

Box truss analysis and technology development. Task 1: Mesh analysis and control

NASA Technical Reports Server (NTRS)

Bachtell, E. E.; Bettadapur, S. S.; Coyner, J. V.

1985-01-01

An analytical tool was developed to model, analyze and predict RF performance of box truss antennas with reflective mesh surfaces. The analysis system is unique in that it integrates custom written programs for cord tied mesh surfaces, thereby drastically reducing the cost of analysis. The analysis system is capable of determining the RF performance of antennas under any type of manufacturing or operating environment by integrating together the various disciplines of design, finite element analysis, surface best fit analysis and RF analysis. The Integrated Mesh Analysis System consists of six separate programs: The Mesh Tie System Model Generator, The Loadcase Generator, The Model Optimizer, The Model Solver, The Surface Topography Solver and The RF Performance Solver. Additionally, a study using the mesh analysis system was performed to determine the effect of on orbit calibration, i.e., surface adjustment, on a typical box truss antenna.

Anisotropic adaptive mesh generation in two dimensions for CFD

DOE Office of Scientific and Technical Information (OSTI.GOV)

Borouchaki, H.; Castro-Diaz, M.J.; George, P.L.

This paper describes the extension of the classical Delaunay method in the case where anisotropic meshes are required such as in CFD when the modelized physic is strongly directional. The way in which such a mesh generation method can be incorporated in an adaptative loop of CFD as well as the case of multicriterium adaptation are discussed. Several concrete application examples are provided to illustrate the capabilities of the proposed method.

Grid generation for the solution of partial differential equations

NASA Technical Reports Server (NTRS)

Eiseman, Peter R.; Erlebacher, Gordon

1989-01-01

A general survey of grid generators is presented with a concern for understanding why grids are necessary, how they are applied, and how they are generated. After an examination of the need for meshes, the overall applications setting is established with a categorization of the various connectivity patterns. This is split between structured grids and unstructured meshes. Altogether, the categorization establishes the foundation upon which grid generation techniques are developed. The two primary categories are algebraic techniques and partial differential equation techniques. These are each split into basic parts, and accordingly are individually examined in some detail. In the process, the interrelations between the various parts are accented. From the established background in the primary techniques, consideration is shifted to the topic of interactive grid generation and then to adaptive meshes. The setting for adaptivity is established with a suitable means to monitor severe solution behavior. Adaptive grids are considered first and are followed by adaptive triangular meshes. Then the consideration shifts to the temporal coupling between grid generators and PDE-solvers. To conclude, a reflection upon the discussion, herein, is given.

Grid generation for the solution of partial differential equations

NASA Technical Reports Server (NTRS)

Eiseman, Peter R.; Erlebacher, Gordon

1987-01-01

A general survey of grid generators is presented with a concern for understanding why grids are necessary, how they are applied, and how they are generated. After an examination of the need for meshes, the overall applications setting is established with a categorization of the various connectivity patterns. This is split between structured grids and unstructured meshes. Altogether, the categorization establishes the foundation upon which grid generation techniques are developed. The two primary categories are algebraic techniques and partial differential equation techniques. These are each split into basic parts, and accordingly are individually examined in some detail. In the process, the interrelations between the various parts are accented. From the established background in the primary techniques, consideration is shifted to the topic of interactive grid generation and then to adaptive meshes. The setting for adaptivity is established with a suitable means to monitor severe solution behavior. Adaptive grids are considered first and are followed by adaptive triangular meshes. Then the consideration shifts to the temporal coupling between grid generators and PDE-solvers. To conclude, a reflection upon the discussion, herein, is given.

Reference Computational Meshing Strategy for Computational Fluid Dynamics Simulation of Departure from Nucleate BoilingReference Computational Meshing Strategy for Computational Fluid Dynamics Simulation of Departure from Nucleate Boiling

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pointer, William David

The objective of this effort is to establish a strategy and process for generation of suitable computational mesh for computational fluid dynamics simulations of departure from nucleate boiling in a 5 by 5 fuel rod assembly held in place by PWR mixing vane spacer grids. This mesh generation process will support ongoing efforts to develop, demonstrate and validate advanced multi-phase computational fluid dynamics methods that enable more robust identification of dryout conditions and DNB occurrence.Building upon prior efforts and experience, multiple computational meshes were developed using the native mesh generation capabilities of the commercial CFD code STAR-CCM+. These meshes weremore » used to simulate two test cases from the Westinghouse 5 by 5 rod bundle facility. The sensitivity of predicted quantities of interest to the mesh resolution was then established using two evaluation methods, the Grid Convergence Index method and the Least Squares method. This evaluation suggests that the Least Squares method can reliably establish the uncertainty associated with local parameters such as vector velocity components at a point in the domain or surface averaged quantities such as outlet velocity magnitude. However, neither method is suitable for characterization of uncertainty in global extrema such as peak fuel surface temperature, primarily because such parameters are not necessarily associated with a fixed point in space. This shortcoming is significant because the current generation algorithm for identification of DNB event conditions relies on identification of such global extrema. Ongoing efforts to identify DNB based on local surface conditions will address this challenge« less

Mesh control information of windmill designed by Solidwork program

NASA Astrophysics Data System (ADS)

Mulyana, T.; Sebayang, D.; Rafsanjani, A. M. D.; Adani, J. H. D.; Muhyiddin, Y. S.

2017-12-01

This paper presents the mesh control information imposed on the windmill already designed. The accuracy of Simulation results is influenced by the quality of the created mesh. However, compared to the quality of the mesh is made, the simulation time running will be done software also increases. The smaller the size of the elements created when making the mesh, the better the mesh quality will be generated. When adjusting the mesh size, there is a slider that acts as the density regulator of the element. SolidWorks Simulation also has Mesh Control facility. Features that can adjust mesh density only in the desired part. The best results of mesh control obtained for both static and thermal simulation have ratio 1.5.

Patterning of polymer nanofiber meshes by electrospinning for biomedical applications

PubMed Central

Neves, Nuno M; Campos, Rui; Pedro, Adriano; Cunha, José; Macedo, Francisco; Reis, Rui L

2007-01-01

The end-product of the electrospinning process is typically a randomly aligned fiber mesh or membrane. This is a result of the electric field generated between the drop of polymer solution at the needle and the collector. The developed electric field causes the stretching of the fibers and their random deposition. By judicious selection of the collector architecture, it is thus possible to develop other morphologies on the nanofiber meshes. The aim of this work is to prepare fiber meshes using various patterned collectors with specific dimensions and designs and to evaluate how those patterns can affect the properties of the meshes relevant to biomedical applications. This study aims at verifying whether it is possible to control the architecture of the fiber meshes by tailoring the geometry of the collector. Three different metallic collector topographies are used to test this hypothesis. Electrospun nonwoven patterned meshes of polyethylene oxide (PEO) and poly(ε-capro-lactone) (PCL) were successfully prepared. Those fiber meshes were analyzed by scanning electron microscopy (SEM). Both mechanical properties of the meshes and cell contacting experiments were performed to test the effect of the produced patterns over the properties of the meshes relevant for biomedical applications. The present study will evaluate cell adhesion sensitivity to the patterns generated and the effect of those patterns on the tensile properties of the fiber meshes. PMID:18019842

MeshVoro: A Three-Dimensional Voronoi Mesh Building Tool for the TOUGH Family of Codes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Freeman, C. M.; Boyle, K. L.; Reagan, M.

2013-09-30

Few tools exist for creating and visualizing complex three-dimensional simulation meshes, and these have limitations that restrict their application to particular geometries and circumstances. Mesh generation needs to trend toward ever more general applications. To that end, we have developed MeshVoro, a tool that is based on the Voro (Rycroft 2009) library and is capable of generating complex threedimensional Voronoi tessellation-based (unstructured) meshes for the solution of problems of flow and transport in subsurface geologic media that are addressed by the TOUGH (Pruess et al. 1999) family of codes. MeshVoro, which includes built-in data visualization routines, is a particularly usefulmore » tool because it extends the applicability of the TOUGH family of codes by enabling the scientifically robust and relatively easy discretization of systems with challenging 3D geometries. We describe several applications of MeshVoro. We illustrate the ability of the tool to straightforwardly transform a complex geological grid into a simulation mesh that conforms to the specifications of the TOUGH family of codes. We demonstrate how MeshVoro can describe complex system geometries with a relatively small number of grid blocks, and we construct meshes for geometries that would have been practically intractable with a standard Cartesian grid approach. We also discuss the limitations and appropriate applications of this new technology.« less

Wire-Mesh-Based Sorber for Removing Contaminants from Air

NASA Technical Reports Server (NTRS)

Perry, Jay; Roychoudhury, Subir; Walsh, Dennis

2006-01-01

A paper discusses an experimental regenerable sorber for removing CO2 and trace components principally, volatile organic compounds, halocarbons, and NH3 from spacecraft cabin air. This regenerable sorber is a prototype of what is intended to be a lightweight alternative to activated-carbon and zeolite-pellet sorbent beds now in use. The regenerable sorber consists mainly of an assembly of commercially available meshes that have been coated with a specially-formulated washcoat containing zeolites. The zeolites act as the sorbents while the meshes support the zeolite-containing washcoat in a configuration that affords highly effective surface area for exposing the sorbents to flowing air. The meshes also define flow paths characterized by short channel lengths to prevent excessive buildup of flow boundary layers. Flow boundary layer resistance is undesired because it can impede mass and heat transfer. The total weight and volume comparison versus the atmosphere revitalization equipment used onboard the International Space Station for CO2 and trace-component removal will depend upon the design details of the final embodiment. However, the integrated mesh-based CO2 and trace-contaminant removal system is expected to provide overall weight and volume savings by eliminating most of the trace-contaminant control equipment presently used in parallel processing schemes traditionally used for spacecraft. The mesh-based sorbent media enables integrating the two processes within a compact package. For the purpose of regeneration, the sorber can be heated by passing electric currents through the metallic meshes combined with exposure to space vacuum. The minimal thermal mass of the meshes offers the potential for reduced regeneration-power requirements and cycle time required for regeneration compared to regenerable sorption processes now in use.

Particle transport in the human respiratory tract: formulation of a nodal inverse distance weighted Eulerian-Lagrangian transport and implementation of the Wind-Kessel algorithm for an oral delivery.

PubMed

Kannan, Ravishekar; Guo, Peng; Przekwas, Andrzej

2016-06-01

This paper is the first in a series wherein efficient computational methods are developed and implemented to accurately quantify the transport, deposition, and clearance of the microsized particles (range of interest: 2 to 10 µm) in the human respiratory tract. In particular, this paper (part I) deals with (i) development of a detailed 3D computational finite volume mesh comprising of the NOPL (nasal, oral, pharyngeal and larynx), trachea and several airway generations; (ii) use of CFD Research Corporation's finite volume Computational Biology (CoBi) flow solver to obtain the flow physics for an oral inhalation simulation; (iii) implement a novel and accurate nodal inverse distance weighted Eulerian-Lagrangian formulation to accurately obtain the deposition, and (iv) development of Wind-Kessel boundary condition algorithm. This new Wind-Kessel boundary condition algorithm allows the 'escaped' particles to reenter the airway through the outlets, thereby to an extent accounting for the drawbacks of having a finite number of lung generations in the computational mesh. The deposition rates in the NOPL, trachea, the first and second bifurcation were computed, and they were in reasonable accord with the Typical Path Length model. The quantitatively validated results indicate that these developments will be useful for (i) obtaining depositions in diseased lungs (because of asthma and COPD), for which there are no empirical models, and (ii) obtaining the secondary clearance (mucociliary clearance) of the deposited particles. Copyright © 2015 John Wiley & Sons, Ltd. Copyright © 2015 John Wiley & Sons, Ltd.

Generating Inviscid and Viscous Fluid-Flow Simulations over an Aircraft Surface Using a Fluid-Flow Mesh

NASA Technical Reports Server (NTRS)

Rodriguez, David L. (Inventor); Sturdza, Peter (Inventor)

2013-01-01

Fluid-flow simulation over a computer-generated aircraft surface is generated using inviscid and viscous simulations. A fluid-flow mesh of fluid cells is obtained. At least one inviscid fluid property for the fluid cells is determined using an inviscid fluid simulation that does not simulate fluid viscous effects. A set of intersecting fluid cells that intersects the aircraft surface are identified. One surface mesh polygon of the surface mesh is identified for each intersecting fluid cell. A boundary-layer prediction point for each identified surface mesh polygon is determined. At least one boundary-layer fluid property for each boundary-layer prediction point is determined using the at least one inviscid fluid property of the corresponding intersecting fluid cell and a boundary-layer simulation that simulates fluid viscous effects. At least one updated fluid property for at least one fluid cell is determined using the at least one boundary-layer fluid property and the inviscid fluid simulation.

Edge gradients evaluation for 2D hybrid finite volume method model

USDA-ARS?s Scientific Manuscript database

In this study, a two-dimensional depth-integrated hydrodynamic model was developed using FVM on a hybrid unstructured collocated mesh system. To alleviate the negative effects of mesh irregularity and non-uniformity, a conservative evaluation method for edge gradients based on the second-order Tayl...

User Manual for the PROTEUS Mesh Tools

DOE Office of Scientific and Technical Information (OSTI.GOV)

Smith, Micheal A.; Shemon, Emily R.

2015-06-01

This report describes the various mesh tools that are provided with the PROTEUS code giving both descriptions of the input and output. In many cases the examples are provided with a regression test of the mesh tools. The most important mesh tools for any user to consider using are the MT_MeshToMesh.x and the MT_RadialLattice.x codes. The former allows the conversion between most mesh types handled by PROTEUS while the second allows the merging of multiple (assembly) meshes into a radial structured grid. Note that the mesh generation process is recursive in nature and that each input specific for a givenmore » mesh tool (such as .axial or .merge) can be used as “mesh” input for any of the mesh tools discussed in this manual.« less

High-Fidelity Geometric Modeling and Mesh Generation for Mechanics Characterization of Polycrystalline Materials

DTIC Science & Technology

2015-01-07

and anisotropic quadrilateral meshes, which can be used as the control mesh for high-order T- spline surface modeling. Archival publications (published...anisotropic T-meshes for the further T- spline surface construction. Finally, a gradient flow-based method is developed to improve the T-mesh quality...shade-off. Halos are bright or dark thin regions around the boundary of the sample. These false edges around the object make many segmentation

A comparative study on different methods of automatic mesh generation of human femurs.

PubMed

Viceconti, M; Bellingeri, L; Cristofolini, L; Toni, A

1998-01-01

The aim of this study was to evaluate comparatively five methods for automating mesh generation (AMG) when used to mesh a human femur. The five AMG methods considered were: mapped mesh, which provides hexahedral elements through a direct mapping of the element onto the geometry; tetra mesh, which generates tetrahedral elements from a solid model of the object geometry; voxel mesh which builds cubic 8-node elements directly from CT images; and hexa mesh that automatically generated hexahedral elements from a surface definition of the femur geometry. The various methods were tested against two reference models: a simplified geometric model and a proximal femur model. The first model was useful to assess the inherent accuracy of the meshes created by the AMG methods, since an analytical solution was available for the elastic problem of the simplified geometric model. The femur model was used to test the AMG methods in a more realistic condition. The femoral geometry was derived from a reference model (the "standardized femur") and the finite element analyses predictions were compared to experimental measurements. All methods were evaluated in terms of human and computer effort needed to carry out the complete analysis, and in terms of accuracy. The comparison demonstrated that each tested method deserves attention and may be the best for specific situations. The mapped AMG method requires a significant human effort but is very accurate and it allows a tight control of the mesh structure. The tetra AMG method requires a solid model of the object to be analysed but is widely available and accurate. The hexa AMG method requires a significant computer effort but can also be used on polygonal models and is very accurate. The voxel AMG method requires a huge number of elements to reach an accuracy comparable to that of the other methods, but it does not require any pre-processing of the CT dataset to extract the geometry and in some cases may be the only viable solution.

Computational performance of Free Mesh Method applied to continuum mechanics problems

PubMed Central

YAGAWA, Genki

2011-01-01

The free mesh method (FMM) is a kind of the meshless methods intended for particle-like finite element analysis of problems that are difficult to handle using global mesh generation, or a node-based finite element method that employs a local mesh generation technique and a node-by-node algorithm. The aim of the present paper is to review some unique numerical solutions of fluid and solid mechanics by employing FMM as well as the Enriched Free Mesh Method (EFMM), which is a new version of FMM, including compressible flow and sounding mechanism in air-reed instruments as applications to fluid mechanics, and automatic remeshing for slow crack growth, dynamic behavior of solid as well as large-scale Eigen-frequency of engine block as applications to solid mechanics. PMID:21558753

Aerosol delivery with two ventilation modes during mechanical ventilation: a randomized study.

PubMed

Dugernier, Jonathan; Reychler, Gregory; Wittebole, Xavier; Roeseler, Jean; Depoortere, Virginie; Sottiaux, Thierry; Michotte, Jean-Bernard; Vanbever, Rita; Dugernier, Thierry; Goffette, Pierre; Docquier, Marie-Agnes; Raftopoulos, Christian; Hantson, Philippe; Jamar, François; Laterre, Pierre-François

2016-12-01

Volume-controlled ventilation has been suggested to optimize lung deposition during nebulization although promoting spontaneous ventilation is targeted to avoid ventilator-induced diaphragmatic dysfunction. Comparing topographic aerosol lung deposition during volume-controlled ventilation and spontaneous ventilation in pressure support has never been performed. The aim of this study was to compare lung deposition of a radiolabeled aerosol generated with a vibrating-mesh nebulizer during invasive mechanical ventilation, with two modes: pressure support ventilation and volume-controlled ventilation. Seventeen postoperative neurosurgery patients without pulmonary disease were randomly ventilated in pressure support or volume-controlled ventilation. Diethylenetriaminepentaacetic acid labeled with technetium-99m (2 mCi/3 mL) was administrated using a vibrating-mesh nebulizer (Aerogen Solo(®), provided by Aerogen Ltd, Galway, Ireland) connected to the endotracheal tube. Pulmonary and extrapulmonary particles deposition was analyzed using planar scintigraphy. Lung deposition was 10.5 ± 3.0 and 15.1 ± 5.0 % of the nominal dose during pressure support and volume-controlled ventilation, respectively (p < 0.05). Higher endotracheal tube and tracheal deposition was observed during pressure support ventilation (27.4 ± 6.6 vs. 20.7 ± 6.0 %, p < 0.05). A similar penetration index was observed for the right (p = 0.210) and the left lung (p = 0.211) with both ventilation modes. A high intersubject variability of lung deposition was observed with both modes regarding lung doses, aerosol penetration and distribution between the right and the left lung. In the specific conditions of the study, volume-controlled ventilation was associated with higher lung deposition of nebulized particles as compared to pressure support ventilation. The clinical benefit of this effect warrants further studies. Clinical trial registration NCT01879488.

A constrained Delaunay discretization method for adaptively meshing highly discontinuous geological media

NASA Astrophysics Data System (ADS)

Wang, Yang; Ma, Guowei; Ren, Feng; Li, Tuo

2017-12-01

A constrained Delaunay discretization method is developed to generate high-quality doubly adaptive meshes of highly discontinuous geological media. Complex features such as three-dimensional discrete fracture networks (DFNs), tunnels, shafts, slopes, boreholes, water curtains, and drainage systems are taken into account in the mesh generation. The constrained Delaunay triangulation method is used to create adaptive triangular elements on planar fractures. Persson's algorithm (Persson, 2005), based on an analogy between triangular elements and spring networks, is enriched to automatically discretize a planar fracture into mesh points with varying density and smooth-quality gradient. The triangulated planar fractures are treated as planar straight-line graphs (PSLGs) to construct piecewise-linear complex (PLC) for constrained Delaunay tetrahedralization. This guarantees the doubly adaptive characteristic of the resulted mesh: the mesh is adaptive not only along fractures but also in space. The quality of elements is compared with the results from an existing method. It is verified that the present method can generate smoother elements and a better distribution of element aspect ratios. Two numerical simulations are implemented to demonstrate that the present method can be applied to various simulations of complex geological media that contain a large number of discontinuities.

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 effect on cumulative particle depositions with the hexahedral solution most closely matching empirical results. Future studies are needed to assess other mesh generation options including various forms of the hybrid configuration and unstructured hexahedral meshes.

Patient-specific geometrical modeling of orthopedic structures with high efficiency and accuracy for finite element modeling and 3D printing.

PubMed

Huang, Huajun; Xiang, Chunling; Zeng, Canjun; Ouyang, Hanbin; Wong, Kelvin Kian Loong; Huang, Wenhua

2015-12-01

We improved the geometrical modeling procedure for fast and accurate reconstruction of orthopedic structures. This procedure consists of medical image segmentation, three-dimensional geometrical reconstruction, and assignment of material properties. The patient-specific orthopedic structures reconstructed by this improved procedure can be used in the virtual surgical planning, 3D printing of real orthopedic structures and finite element analysis. A conventional modeling consists of: image segmentation, geometrical reconstruction, mesh generation, and assignment of material properties. The present study modified the conventional method to enhance software operating procedures. Patient's CT images of different bones were acquired and subsequently reconstructed to give models. The reconstruction procedures were three-dimensional image segmentation, modification of the edge length and quantity of meshes, and the assignment of material properties according to the intensity of gravy value. We compared the performance of our procedures to the conventional procedures modeling in terms of software operating time, success rate and mesh quality. Our proposed framework has the following improvements in the geometrical modeling: (1) processing time: (femur: 87.16 ± 5.90 %; pelvis: 80.16 ± 7.67 %; thoracic vertebra: 17.81 ± 4.36 %; P < 0.05); (2) least volume reduction (femur: 0.26 ± 0.06 %; pelvis: 0.70 ± 0.47, thoracic vertebra: 3.70 ± 1.75 %; P < 0.01) and (3) mesh quality in terms of aspect ratio (femur: 8.00 ± 7.38 %; pelvis: 17.70 ± 9.82 %; thoracic vertebra: 13.93 ± 9.79 %; P < 0.05) and maximum angle (femur: 4.90 ± 5.28 %; pelvis: 17.20 ± 19.29 %; thoracic vertebra: 3.86 ± 3.82 %; P < 0.05). Our proposed patient-specific geometrical modeling requires less operating time and workload, but the orthopedic structures were generated at a higher rate of success as compared with the conventional method. It is expected to benefit the surgical planning of orthopedic structures with less operating time and high accuracy of modeling.

3D Voronoi grid dedicated software for modeling gas migration in deep layered sedimentary formations with TOUGH2-TMGAS

NASA Astrophysics Data System (ADS)

Bonduà, Stefano; Battistelli, Alfredo; Berry, Paolo; Bortolotti, Villiam; Consonni, Alberto; Cormio, Carlo; Geloni, Claudio; Vasini, Ester Maria

2017-11-01

As is known, a full three-dimensional (3D) unstructured grid permits a great degree of flexibility when performing accurate numerical reservoir simulations. However, when the Integral Finite Difference Method (IFDM) is used for spatial discretization, constraints (arising from the required orthogonality between the segment connecting the blocks nodes and the interface area between blocks) pose difficulties in the creation of grids with irregular shaped blocks. The full 3D Voronoi approach guarantees the respect of IFDM constraints and allows generation of grids conforming to geological formations and structural objects and at the same time higher grid resolution in volumes of interest. In this work, we present dedicated pre- and post-processing gridding software tools for the TOUGH family of numerical reservoir simulators, developed by the Geothermal Research Group of the DICAM Department, University of Bologna. VORO2MESH is a new software coded in C++, based on the voro++ library, allowing computation of the 3D Voronoi tessellation for a given domain and the creation of a ready to use TOUGH2 MESH file. If a set of geological surfaces is available, the software can directly generate the set of Voronoi seed points used for tessellation. In order to reduce the number of connections and so to decrease computation time, VORO2MESH can produce a mixed grid with regular blocks (orthogonal prisms) and irregular blocks (polyhedron Voronoi blocks) at the point of contact between different geological formations. In order to visualize 3D Voronoi grids together with the results of numerical simulations, the functionality of the TOUGH2Viewer post-processor has been extended. We describe an application of VORO2MESH and TOUGH2Viewer to validate the two tools. The case study deals with the simulation of the migration of gases in deep layered sedimentary formations at basin scale using TOUGH2-TMGAS. A comparison between the simulation performances of unstructured and structured grids is presented.

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.

Extracting Metrics for Three-dimensional Root Systems: Volume and Surface Analysis from In-soil X-ray Computed Tomography Data.

PubMed

Suresh, Niraj; Stephens, Sean A; Adams, Lexor; Beck, Anthon N; McKinney, Adriana L; Varga, Tamas

2016-04-26

Plant roots play a critical role in plant-soil-microbe interactions that occur in the rhizosphere, as well as processes with important implications to climate change and crop management. Quantitative size information on roots in their native environment is invaluable for studying root growth and environmental processes involving plants. X-ray computed tomography (XCT) has been demonstrated to be an effective tool for in situ root scanning and analysis. We aimed to develop a costless and efficient tool that approximates the surface and volume of the root regardless of its shape from three-dimensional (3D) tomography data. The root structure of a Prairie dropseed (Sporobolus heterolepis) specimen was imaged using XCT. The root was reconstructed, and the primary root structure was extracted from the data using a combination of licensed and open-source software. An isosurface polygonal mesh was then created for ease of analysis. We have developed the standalone application imeshJ, generated in MATLAB(1), to calculate root volume and surface area from the mesh. The outputs of imeshJ are surface area (in mm(2)) and the volume (in mm(3)). The process, utilizing a unique combination of tools from imaging to quantitative root analysis, is described. A combination of XCT and open-source software proved to be a powerful combination to noninvasively image plant root samples, segment root data, and extract quantitative information from the 3D data. This methodology of processing 3D data should be applicable to other material/sample systems where there is connectivity between components of similar X-ray attenuation and difficulties arise with segmentation.

Multi-Material ALE with AMR for Modeling Hot Plasmas and Cold Fragmenting Materials

NASA Astrophysics Data System (ADS)

Alice, Koniges; Nathan, Masters; Aaron, Fisher; David, Eder; Wangyi, Liu; Robert, Anderson; David, Benson; Andrea, Bertozzi

2015-02-01

We have developed a new 3D multi-physics multi-material code, ALE-AMR, which combines Arbitrary Lagrangian Eulerian (ALE) hydrodynamics with Adaptive Mesh Refinement (AMR) to connect the continuum to the microstructural regimes. The code is unique in its ability to model hot radiating plasmas and cold fragmenting solids. New numerical techniques were developed for many of the physics packages to work efficiently on a dynamically moving and adapting mesh. We use interface reconstruction based on volume fractions of the material components within mixed zones and reconstruct interfaces as needed. This interface reconstruction model is also used for void coalescence and fragmentation. A flexible strength/failure framework allows for pluggable material models, which may require material history arrays to determine the level of accumulated damage or the evolving yield stress in J2 plasticity models. For some applications laser rays are propagating through a virtual composite mesh consisting of the finest resolution representation of the modeled space. A new 2nd order accurate diffusion solver has been implemented for the thermal conduction and radiation transport packages. One application area is the modeling of laser/target effects including debris/shrapnel generation. Other application areas include warm dense matter, EUV lithography, and material wall interactions for fusion devices.

Array-based, parallel hierarchical mesh refinement algorithms for unstructured meshes

DOE PAGES

Ray, Navamita; Grindeanu, Iulian; Zhao, Xinglin; ...

2016-08-18

In this paper, we describe an array-based hierarchical mesh refinement capability through uniform refinement of unstructured meshes for efficient solution of PDE's using finite element methods and multigrid solvers. A multi-degree, multi-dimensional and multi-level framework is designed to generate the nested hierarchies from an initial coarse mesh that can be used for a variety of purposes such as in multigrid solvers/preconditioners, to do solution convergence and verification studies and to improve overall parallel efficiency by decreasing I/O bandwidth requirements (by loading smaller meshes and in memory refinement). We also describe a high-order boundary reconstruction capability that can be used tomore » project the new points after refinement using high-order approximations instead of linear projection in order to minimize and provide more control on geometrical errors introduced by curved boundaries.The capability is developed under the parallel unstructured mesh framework "Mesh Oriented dAtaBase" (MOAB Tautges et al. (2004)). We describe the underlying data structures and algorithms to generate such hierarchies in parallel and present numerical results for computational efficiency and effect on mesh quality. Furthermore, we also present results to demonstrate the applicability of the developed capability to study convergence properties of different point projection schemes for various mesh hierarchies and to a multigrid finite-element solver for elliptic problems.« less

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.

Design of an essentially non-oscillatory reconstruction procedure in finite-element type meshes

NASA Technical Reports Server (NTRS)

Abgrall, Remi

1992-01-01

An essentially non oscillatory reconstruction for functions defined on finite element type meshes is designed. Two related problems are studied: the interpolation of possibly unsmooth multivariate functions on arbitary meshes and the reconstruction of a function from its averages in the control volumes surrounding the nodes of the mesh. Concerning the first problem, the behavior of the highest coefficients of two polynomial interpolations of a function that may admit discontinuities of locally regular curves is studied: the Lagrange interpolation and an approximation such that the mean of the polynomial on any control volume is equal to that of the function to be approximated. This enables the best stencil for the approximation to be chosen. The choice of the smallest possible number of stencils is addressed. Concerning the reconstruction problem, two methods were studied: one based on an adaptation of the so called reconstruction via deconvolution method to irregular meshes and one that lies on the approximation on the mean as defined above. The first method is conservative up to a quadrature formula and the second one is exactly conservative. The two methods have the expected order of accuracy, but the second one is much less expensive than the first one. Some numerical examples are given which demonstrate the efficiency of the reconstruction.

Development of Finite-Volume Methods for Three-Dimensional Transonic Flows.

DTIC Science & Technology

1980-08-01

rapidly. Away from the airfoil, the streamlines spread. This type of mesh can easily be blended into a Cartesian mesh for the far field. A disadvantage...E. W., and Stern, M. A. (1980) "Simulated Transonic Flows for Aircraft with Nacelles, Pylons and Winglets ," AIAA Paper 80-0130, January. Caughey, D. A

A Numerical Study of Mesh Adaptivity in Multiphase Flows with Non-Newtonian Fluids

NASA Astrophysics Data System (ADS)

Percival, James; Pavlidis, Dimitrios; Xie, Zhihua; Alberini, Federico; Simmons, Mark; Pain, Christopher; Matar, Omar

2014-11-01

We present an investigation into the computational efficiency benefits of dynamic mesh adaptivity in the numerical simulation of transient multiphase fluid flow problems involving Non-Newtonian fluids. Such fluids appear in a range of industrial applications, from printing inks to toothpastes and introduce new challenges for mesh adaptivity due to the additional ``memory'' of viscoelastic fluids. Nevertheless, the multiscale nature of these flows implies huge potential benefits for a successful implementation. The study is performed using the open source package Fluidity, which couples an unstructured mesh control volume finite element solver for the multiphase Navier-Stokes equations to a dynamic anisotropic mesh adaptivity algorithm, based on estimated solution interpolation error criteria, and conservative mesh-to-mesh interpolation routine. The code is applied to problems involving rheologies ranging from simple Newtonian to shear-thinning to viscoelastic materials and verified against experimental data for various industrial and microfluidic flows. This work was undertaken as part of the EPSRC MEMPHIS programme grant EP/K003976/1.

A Domain-Decomposed Multilevel Method for Adaptively Refined Cartesian Grids with Embedded Boundaries

NASA Technical Reports Server (NTRS)

Aftosmis, M. J.; Berger, M. J.; Adomavicius, G.

2000-01-01

Preliminary verification and validation of an efficient Euler solver for adaptively refined Cartesian meshes with embedded boundaries is presented. The parallel, multilevel method makes use of a new on-the-fly parallel domain decomposition strategy based upon the use of space-filling curves, and automatically generates a sequence of coarse meshes for processing by the multigrid smoother. The coarse mesh generation algorithm produces grids which completely cover the computational domain at every level in the mesh hierarchy. A series of examples on realistically complex three-dimensional configurations demonstrate that this new coarsening algorithm reliably achieves mesh coarsening ratios in excess of 7 on adaptively refined meshes. Numerical investigations of the scheme's local truncation error demonstrate an achieved order of accuracy between 1.82 and 1.88. Convergence results for the multigrid scheme are presented for both subsonic and transonic test cases and demonstrate W-cycle multigrid convergence rates between 0.84 and 0.94. Preliminary parallel scalability tests on both simple wing and complex complete aircraft geometries shows a computational speedup of 52 on 64 processors using the run-time mesh partitioner.

End-to-end workflow for finite element analysis of tumor treating fields in glioblastomas

NASA Astrophysics Data System (ADS)

Timmons, Joshua J.; Lok, Edwin; San, Pyay; Bui, Kevin; Wong, Eric T.

2017-11-01

Tumor Treating Fields (TTFields) therapy is an approved modality of treatment for glioblastoma. Patient anatomy-based finite element analysis (FEA) has the potential to reveal not only how these fields affect tumor control but also how to improve efficacy. While the automated tools for segmentation speed up the generation of FEA models, multi-step manual corrections are required, including removal of disconnected voxels, incorporation of unsegmented structures and the addition of 36 electrodes plus gel layers matching the TTFields transducers. Existing approaches are also not scalable for the high throughput analysis of large patient volumes. A semi-automated workflow was developed to prepare FEA models for TTFields mapping in the human brain. Magnetic resonance imaging (MRI) pre-processing, segmentation, electrode and gel placement, and post-processing were all automated. The material properties of each tissue were applied to their corresponding mask in silico using COMSOL Multiphysics (COMSOL, Burlington, MA, USA). The fidelity of the segmentations with and without post-processing was compared against the full semi-automated segmentation workflow approach using Dice coefficient analysis. The average relative differences for the electric fields generated by COMSOL were calculated in addition to observed differences in electric field-volume histograms. Furthermore, the mesh file formats in MPHTXT and NASTRAN were also compared using the differences in the electric field-volume histogram. The Dice coefficient was less for auto-segmentation without versus auto-segmentation with post-processing, indicating convergence on a manually corrected model. An existent but marginal relative difference of electric field maps from models with manual correction versus those without was identified, and a clear advantage of using the NASTRAN mesh file format was found. The software and workflow outlined in this article may be used to accelerate the investigation of TTFields in glioblastoma patients by facilitating the creation of FEA models derived from patient MRI datasets.

TH-A-BRF-08: Deformable Registration of MRI and CT Images for MRI-Guided Radiation Therapy

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhong, H; Wen, N; Gordon, J

2014-06-15

Purpose: To evaluate the quality of a commercially available MRI-CT image registration algorithm and then develop a method to improve the performance of this algorithm for MRI-guided prostate radiotherapy. Methods: Prostate contours were delineated on ten pairs of MRI and CT images using Eclipse. Each pair of MRI and CT images was registered with an intensity-based B-spline algorithm implemented in Velocity. A rectangular prism that contains the prostate volume was partitioned into a tetrahedral mesh which was aligned to the CT image. A finite element method (FEM) was developed on the mesh with the boundary constraints assigned from the Velocitymore » generated displacement vector field (DVF). The resultant FEM displacements were used to adjust the Velocity DVF within the prism. Point correspondences between the CT and MR images identified within the prism could be used as additional boundary constraints to enforce the model deformation. The FEM deformation field is smooth in the interior of the prism, and equal to the Velocity displacements at the boundary of the prism. To evaluate the Velocity and FEM registration results, three criteria were used: prostate volume conservation and center consistence under contour mapping, and unbalanced energy of their deformation maps. Results: With the DVFs generated by the Velocity and FEM simulations, the prostate contours were warped from MRI to CT images. With the Velocity DVFs, the prostate volumes changed 10.2% on average, in contrast to 1.8% induced by the FEM DVFs. The average of the center deviations was 0.36 and 0.27 cm, and the unbalance energy was 2.65 and 0.38 mJ/cc3 for the Velocity and FEM registrations, respectively. Conclusion: The adaptive FEM method developed can be used to reduce the error of the MIbased registration algorithm implemented in Velocity in the prostate region, and consequently may help improve the quality of MRI-guided radiation therapy.« less

A mesh generation and machine learning framework for Drosophila gene expression pattern image analysis

PubMed Central

2013-01-01

Background Multicellular organisms consist of cells of many different types that are established during development. Each type of cell is characterized by the unique combination of expressed gene products as a result of spatiotemporal gene regulation. Currently, a fundamental challenge in regulatory biology is to elucidate the gene expression controls that generate the complex body plans during development. Recent advances in high-throughput biotechnologies have generated spatiotemporal expression patterns for thousands of genes in the model organism fruit fly Drosophila melanogaster. Existing qualitative methods enhanced by a quantitative analysis based on computational tools we present in this paper would provide promising ways for addressing key scientific questions. Results We develop a set of computational methods and open source tools for identifying co-expressed embryonic domains and the associated genes simultaneously. To map the expression patterns of many genes into the same coordinate space and account for the embryonic shape variations, we develop a mesh generation method to deform a meshed generic ellipse to each individual embryo. We then develop a co-clustering formulation to cluster the genes and the mesh elements, thereby identifying co-expressed embryonic domains and the associated genes simultaneously. Experimental results indicate that the gene and mesh co-clusters can be correlated to key developmental events during the stages of embryogenesis we study. The open source software tool has been made available at http://compbio.cs.odu.edu/fly/. Conclusions Our mesh generation and machine learning methods and tools improve upon the flexibility, ease-of-use and accuracy of existing methods. PMID:24373308

Reliability of Vibrating Mesh Technology.

PubMed

Gowda, Ashwin A; Cuccia, Ann D; Smaldone, Gerald C

2017-01-01

For delivery of inhaled aerosols, vibrating mesh systems are more efficient than jet nebulizers are and do not require added gas flow. We assessed the reliability of a vibrating mesh nebulizer (Aerogen Solo, Aerogen Ltd, Galway Ireland) suitable for use in mechanical ventilation. An initial observational study was performed with 6 nebulizers to determine run time and efficiency using normal saline and distilled water. Nebulizers were run until cessation of aerosol production was noted, with residual volume and run time recorded. Three controllers were used to assess the impact of the controller on nebulizer function. Following the observational study, a more detailed experimental protocol was performed using 20 nebulizers. For this analysis, 2 controllers were used, and time to cessation of aerosol production was noted. Gravimetric techniques were used to measure residual volume. Total nebulization time and residual volume were recorded. Failure was defined as premature cessation of aerosol production represented by residual volume of > 10% of the nebulizer charge. In the initial observational protocol, an unexpected sporadic failure rate was noted of 25% in 55 experimental runs. In the experimental protocol, a failure rate was noted of 30% in 40 experimental runs. Failed runs in the experimental protocol exhibited a wide range of retained volume averaging ± SD 36 ± 21.3% compared with 3.2 ± 1.5% (P = .001) in successful runs. Small but significant differences existed in nebulization time between controllers. Aerogen Solo nebulization was often randomly interrupted with a wide range of retained volumes. Copyright © 2017 by Daedalus Enterprises.

Investigation on Tensile Fatigue Characteristics of Meshed GUM Metal Plates for Bone Graft Applications

NASA Astrophysics Data System (ADS)

Sekiguchi, Koki; He, Jianmei

2017-11-01

GUM Metal has characteristics of lower elasticity rigidity, large elastic deformation, higher strength and biocompatibility etc. When it is used for implant applications, there is still problem like overloading on the natural-bone because of its high rigidity compared with the human bones. Therefore, the purpose of this study is to create more flexible meshed plates for implant applications from the viewpoints of elastic rigidity and volume density. Basic mesh shapes are designed, devised and applied for meshed GUM Metal plates using three dimensional (3D) CAD tools. Experimental evaluation on tensile fatigue characteristics of meshed GUM Metal plate specimens are carried out. Analytical approaches on stress evaluation are also executed through finite element method to obtain the S-N curve for fatigue characteristic evaluation.

Quality Tetrahedral Mesh Smoothing via Boundary-Optimized Delaunay Triangulation

PubMed Central

Gao, Zhanheng; Yu, Zeyun; Holst, Michael

2012-01-01

Despite its great success in improving the quality of a tetrahedral mesh, the original optimal Delaunay triangulation (ODT) is designed to move only inner vertices and thus cannot handle input meshes containing “bad” triangles on boundaries. In the current work, we present an integrated approach called boundary-optimized Delaunay triangulation (B-ODT) to smooth (improve) a tetrahedral mesh. In our method, both inner and boundary vertices are repositioned by analytically minimizing the error between a paraboloid function and its piecewise linear interpolation over the neighborhood of each vertex. In addition to the guaranteed volume-preserving property, the proposed algorithm can be readily adapted to preserve sharp features in the original mesh. A number of experiments are included to demonstrate the performance of our method. PMID:23144522

[Skeleton extractions and applications].

DOE Office of Scientific and Technical Information (OSTI.GOV)

Quadros, William Roshan

2010-05-01

This paper focuses on the extraction of skeletons of CAD models and its applications in finite element (FE) mesh generation. The term 'skeleton of a CAD model' can be visualized as analogous to the 'skeleton of a human body'. The skeletal representations covered in this paper include medial axis transform (MAT), Voronoi diagram (VD), chordal axis transform (CAT), mid surface, digital skeletons, and disconnected skeletons. In the literature, the properties of a skeleton have been utilized in developing various algorithms for extracting skeletons. Three main approaches include: (1) the bisection method where the skeleton exists at equidistant from at leastmore » two points on boundary, (2) the grassfire propagation method in which the skeleton exists where the opposing fronts meet, and (3) the duality method where the skeleton is a dual of the object. In the last decade, the author has applied different skeletal representations in all-quad meshing, hex meshing, mid-surface meshing, mesh size function generation, defeaturing, and decomposition. A brief discussion on the related work from other researchers in the area of tri meshing, tet meshing, and anisotropic meshing is also included. This paper concludes by summarizing the strengths and weaknesses of the skeleton-based approaches in solving various geometry-centered problems in FE mesh generation. The skeletons have proved to be a great shape abstraction tool in analyzing the geometric complexity of CAD models as they are symmetric, simpler (reduced dimension), and provide local thickness information. However, skeletons generally require some cleanup, and stability and sensitivity of the skeletons should be controlled during extraction. Also, selecting a suitable application-specific skeleton and a computationally efficient method of extraction is critical.« less

A Linear-Elasticity Solver for Higher-Order Space-Time Mesh Deformation

NASA Technical Reports Server (NTRS)

Diosady, Laslo T.; Murman, Scott M.

2018-01-01

A linear-elasticity approach is presented for the generation of meshes appropriate for a higher-order space-time discontinuous finite-element method. The equations of linear-elasticity are discretized using a higher-order, spatially-continuous, finite-element method. Given an initial finite-element mesh, and a specified boundary displacement, we solve for the mesh displacements to obtain a higher-order curvilinear mesh. Alternatively, for moving-domain problems we use the linear-elasticity approach to solve for a temporally discontinuous mesh velocity on each time-slab and recover a continuous mesh deformation by integrating the velocity. The applicability of this methodology is presented for several benchmark test cases.

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.

Generation of three-dimensional body-fitted coordinates using hyperbolic partial differential equations

NASA Technical Reports Server (NTRS)

Steger, J. L.; Rizk, Y. M.

1985-01-01

An efficient numerical mesh generation scheme capable of creating orthogonal or nearly orthogonal grids about moderately complex three dimensional configurations is described. The mesh is obtained by marching outward from a user specified grid on the body surface. Using spherical grid topology, grids have been generated about full span rectangular wings and a simplified space shuttle orbiter.

An advancing front Delaunay triangulation algorithm designed for robustness

NASA Technical Reports Server (NTRS)

Mavriplis, D. J.

1992-01-01

A new algorithm is described for generating an unstructured mesh about an arbitrary two-dimensional configuration. Mesh points are generated automatically by the algorithm in a manner which ensures a smooth variation of elements, and the resulting triangulation constitutes the Delaunay triangulation of these points. The algorithm combines the mathematical elegance and efficiency of Delaunay triangulation algorithms with the desirable point placement features, boundary integrity, and robustness traditionally associated with advancing-front-type mesh generation strategies. The method offers increased robustness over previous algorithms in that it cannot fail regardless of the initial boundary point distribution and the prescribed cell size distribution throughout the flow-field.

Multiresolution Distance Volumes for Progressive Surface Compression

DOE Office of Scientific and Technical Information (OSTI.GOV)

Laney, D E; Bertram, M; Duchaineau, M A

2002-04-18

We present a surface compression method that stores surfaces as wavelet-compressed signed-distance volumes. Our approach enables the representation of surfaces with complex topology and arbitrary numbers of components within a single multiresolution data structure. This data structure elegantly handles topological modification at high compression rates. Our method does not require the costly and sometimes infeasible base mesh construction step required by subdivision surface approaches. We present several improvements over previous attempts at compressing signed-distance functions, including an 0(n) distance transform, a zero set initialization method for triangle meshes, and a specialized thresholding algorithm. We demonstrate the potential of sampled distancemore » volumes for surface compression and progressive reconstruction for complex high genus surfaces.« less

Hexahedral mesh generation via the dual arrangement of surfaces

DOE Office of Scientific and Technical Information (OSTI.GOV)

Mitchell, S.A.; Tautges, T.J.

1997-12-31

Given a general three-dimensional geometry with a prescribed quadrilateral surface mesh, the authors consider the problem of constructing a hexahedral mesh of the geometry whose boundary is exactly the prescribed surface mesh. Due to the specialized topology of hexahedra, this problem is more difficult than the analogous one for tetrahedra. Folklore has maintained that a surface mesh must have a constrained structure in order for there to exist a compatible hexahedral mesh. However, they have proof that a surface mesh need only satisfy mild parity conditions, depending on the topology of the three-dimensional geometry, for there to exist a compatiblemore » hexahedral mesh. The proof is based on the realization that a hexahedral mesh is dual to an arrangement of surfaces, and the quadrilateral surface mesh is dual to the arrangement of curves bounding these surfaces. The proof is constructive and they are currently developing an algorithm called Whisker Weaving (WW) that mirrors the proof steps. Given the bounding curves, WW builds the topological structure of an arrangement of surfaces having those curves as its boundary. WW progresses in an advancing front manner. Certain local rules are applied to avoid structures that lead to poor mesh quality. Also, after the arrangement is constructed, additional surfaces are inserted to separate features, so e.g., no two hexahedra share more than one quadrilateral face. The algorithm has generated meshes for certain non-trivial problems, but is currently unreliable. The authors are exploring strategies for consistently selecting which portion of the surface arrangement to advance based on the existence proof. This should lead us to a robust algorithm for arbitrary geometries and surface meshes.« less

Numerical simulation of aerodynamic characteristics of multi-element wing with variable flap

NASA Astrophysics Data System (ADS)

Lv, Hongyan; Zhang, Xinpeng; Kuang, Jianghong

2017-10-01

Based on the Reynolds averaged Navier-Stokes equation, the mesh generation technique and the geometric modeling method, the influence of the Spalart-Allmaras turbulence model on the aerodynamic characteristics is investigated. In order to study the typical configuration of aircraft, a similar DLR-F11 wing is selected. Firstly, the 3D model of wing is established, and the 3D model of plane flight, take-off and landing is established. The mesh structure of the flow field is constructed and the mesh is generated by mesh generation software. Secondly, by comparing the numerical simulation with the experimental data, the prediction of the aerodynamic characteristics of the multi section airfoil in takeoff and landing stage is validated. Finally, the two flap deflection angles of take-off and landing are calculated, which provide useful guidance for the aerodynamic characteristics of the wing and the flap angle design of the wing.

Development and acceleration of unstructured mesh-based cfd solver

NASA Astrophysics Data System (ADS)

Emelyanov, V.; Karpenko, A.; Volkov, K.

2017-06-01

The study was undertaken as part of a larger effort to establish a common computational fluid dynamics (CFD) code for simulation of internal and external flows and involves some basic validation studies. The governing equations are solved with ¦nite volume code on unstructured meshes. The computational procedure involves reconstruction of the solution in each control volume and extrapolation of the unknowns to find the flow variables on the faces of control volume, solution of Riemann problem for each face of the control volume, and evolution of the time step. The nonlinear CFD solver works in an explicit time-marching fashion, based on a three-step Runge-Kutta stepping procedure. Convergence to a steady state is accelerated by the use of geometric technique and by the application of Jacobi preconditioning for high-speed flows, with a separate low Mach number preconditioning method for use with low-speed flows. The CFD code is implemented on graphics processing units (GPUs). Speedup of solution on GPUs with respect to solution on central processing units (CPU) is compared with the use of different meshes and different methods of distribution of input data into blocks. The results obtained provide promising perspective for designing a GPU-based software framework for applications in CFD.

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.

An improved nearly-orthogonal structured mesh generation system with smoothness control functions

USDA-ARS?s Scientific Manuscript database

This paper presents an improved nearly-orthogonal structured mesh generation system with a set of smoothness control functions, which were derived based on the ratio between the Jacobian of the transformation matrix and the Jacobian of the metric tensor. The proposed smoothness control functions are...

Conservative multizonal interface algorithm for the 3-D Navier-Stokes equations

NASA Technical Reports Server (NTRS)

Klopfer, G. H.; Molvik, G. A.

1991-01-01

A conservative zonal interface algorithm using features of both structured and unstructured mesh CFD technology is presented. The flow solver within each of the zones is based on structured mesh CFD technology. The interface algorithm was implemented into two three-dimensional Navier-Stokes finite volume codes and was found to yield good results.

Free Mesh Method: fundamental conception, algorithms and accuracy study

PubMed Central

YAGAWA, Genki

2011-01-01

The finite element method (FEM) has been commonly employed in a variety of fields as a computer simulation method to solve such problems as solid, fluid, electro-magnetic phenomena and so on. However, creation of a quality mesh for the problem domain is a prerequisite when using FEM, which becomes a major part of the cost of a simulation. It is natural that the concept of meshless method has evolved. The free mesh method (FMM) is among the typical meshless methods intended for particle-like finite element analysis of problems that are difficult to handle using global mesh generation, especially on parallel processors. FMM is an efficient node-based finite element method that employs a local mesh generation technique and a node-by-node algorithm for the finite element calculations. In this paper, FMM and its variation are reviewed focusing on their fundamental conception, algorithms and accuracy. PMID:21558752

Tuning the spectral emittance of α-SiC open-cell foams up to 1300 K with their macro porosity

DOE Office of Scientific and Technical Information (OSTI.GOV)

Rousseau, B., E-mail: benoit.rousseau@univ-nantes.fr; Guevelou, S.; Mekeze-Monthe, A.

2016-06-15

A simple and robust analytical model is used to finely predict the spectral emittance under air up to 1300 K of α-SiC open-cell foams constituted of optically thick struts. The model integrates both the chemical composition and the macro-porosity and is valid only if foams have volumes higher than their Representative Elementary Volumes required for determining their emittance. Infrared emission spectroscopy carried out on a doped silicon carbide single crystal associated to homemade numerical tools based on 3D meshed images (Monte Carlo Ray Tracing code, foam generator) make possible to understand the exact role of the cell network in emittance.more » Finally, one can tune the spectral emittance of α-SiC foams up to 1300 K by simply changing their porosity.« less

Mesh refinement in finite element analysis by minimization of the stiffness matrix trace

NASA Technical Reports Server (NTRS)

Kittur, Madan G.; Huston, Ronald L.

1989-01-01

Most finite element packages provide means to generate meshes automatically. However, the user is usually confronted with the problem of not knowing whether the mesh generated is appropriate for the problem at hand. Since the accuracy of the finite element results is mesh dependent, mesh selection forms a very important step in the analysis. Indeed, in accurate analyses, meshes need to be refined or rezoned until the solution converges to a value so that the error is below a predetermined tolerance. A-posteriori methods use error indicators, developed by using the theory of interpolation and approximation theory, for mesh refinements. Some use other criterions, such as strain energy density variation and stress contours for example, to obtain near optimal meshes. Although these methods are adaptive, they are expensive. Alternatively, a priori methods, until now available, use geometrical parameters, for example, element aspect ratio. Therefore, they are not adaptive by nature. An adaptive a-priori method is developed. The criterion is that the minimization of the trace of the stiffness matrix with respect to the nodal coordinates, leads to a minimization of the potential energy, and as a consequence provide a good starting mesh. In a few examples the method is shown to provide the optimal mesh. The method is also shown to be relatively simple and amenable to development of computer algorithms. When the procedure is used in conjunction with a-posteriori methods of grid refinement, it is shown that fewer refinement iterations and fewer degrees of freedom are required for convergence as opposed to when the procedure is not used. The mesh obtained is shown to have uniform distribution of stiffness among the nodes and elements which, as a consequence, leads to uniform error distribution. Thus the mesh obtained meets the optimality criterion of uniform error distribution.

Boundary element based multiresolution shape optimisation in electrostatics

NASA Astrophysics Data System (ADS)

Bandara, Kosala; Cirak, Fehmi; Of, Günther; Steinbach, Olaf; Zapletal, Jan

2015-09-01

We consider the shape optimisation of high-voltage devices subject to electrostatic field equations by combining fast boundary elements with multiresolution subdivision surfaces. The geometry of the domain is described with subdivision surfaces and different resolutions of the same geometry are used for optimisation and analysis. The primal and adjoint problems are discretised with the boundary element method using a sufficiently fine control mesh. For shape optimisation the geometry is updated starting from the coarsest control mesh with increasingly finer control meshes. The multiresolution approach effectively prevents the appearance of non-physical geometry oscillations in the optimised shapes. Moreover, there is no need for mesh regeneration or smoothing during the optimisation due to the absence of a volume mesh. We present several numerical experiments and one industrial application to demonstrate the robustness and versatility of the developed approach.

Grid generation about complex three-dimensional aircraft configurations

NASA Technical Reports Server (NTRS)

Klopfer, Goetz H.

1991-01-01

The problem of obtaining three dimensional grids with sufficient resolution to resolve all the flow or other physical features of interest is addressed. The generation of a computational grid involves a series of compromises to resolve several conflicting requirements. On one hand, one would like the grid to be fine enough and not too skewed to reduce the numerical errors and to adequately resolve the pertinent physical features of the flow field about the aircraft. On the other hand, the capabilities of present or even future supercomputers are finite and the number of mesh points must be limited to a reasonable number: one which is usually much less than desired for numerical accuracy. One technique to overcome this limitation is the 'zonal' grid approach. In this method, the overall field is subdivided into smaller zones or blocks in each of which an independent grid is generated with enough grid density to resolve the flow features in that zone. The zonal boundaries or interfaces require special boundary conditions such that the conservation properties of the governing equations are observed. Much work was done in 3-D zonal approaches with nonconservative zonal interfaces. A 3-D zonal conservative interfacing method that is efficient and easy to implement was developed during the past year. During the course of the work, it became apparent that it would be much more feasible to do the conservative interfacing with cell-centered finite volume codes instead of the originally planned finite difference codes. Accordingly, the CNS code was converted to finite volume form. This new version of the code is named CNSFV. The original multi-zonal interfacing capability of the CNS code was enhanced by generalizing the procedure to allow for completely arbitrarily shaped zones with no mesh continuity between the zones. While this zoning capability works well for most flow situations, it is, however, still nonconservative. The conservative interface algorithm was also implemented but was not completely validated.

Integration of Mesh Optimization with 3D All-Hex Mesh Generation, LDRD Subcase 3504340000, Final Report

DOE Office of Scientific and Technical Information (OSTI.GOV)

KNUPP,PATRICK; MITCHELL,SCOTT A.

1999-11-01

In an attempt to automatically produce high-quality all-hex meshes, we investigated a mesh improvement strategy: given an initial poor-quality all-hex mesh, we iteratively changed the element connectivity, adding and deleting elements and nodes, and optimized the node positions. We found a set of hex reconnection primitives. We improved the optimization algorithms so they can untangle a negative-Jacobian mesh, even considering Jacobians on the boundary, and subsequently optimize the condition number of elements in an untangled mesh. However, even after applying both the primitives and optimization we were unable to produce high-quality meshes in certain regions. Our experiences suggest that manymore » boundary configurations of quadrilaterals admit no hexahedral mesh with positive Jacobians, although we have no proof of this.« less

Three-dimensional unstructured grid generation via incremental insertion and local optimization

NASA Technical Reports Server (NTRS)

Barth, Timothy J.; Wiltberger, N. Lyn; Gandhi, Amar S.

1992-01-01

Algorithms for the generation of 3D unstructured surface and volume grids are discussed. These algorithms are based on incremental insertion and local optimization. The present algorithms are very general and permit local grid optimization based on various measures of grid quality. This is very important; unlike the 2D Delaunay triangulation, the 3D Delaunay triangulation appears not to have a lexicographic characterization of angularity. (The Delaunay triangulation is known to minimize that maximum containment sphere, but unfortunately this is not true lexicographically). Consequently, Delaunay triangulations in three-space can result in poorly shaped tetrahedral elements. Using the present algorithms, 3D meshes can be constructed which optimize a certain angle measure, albeit locally. We also discuss the combinatorial aspects of the algorithm as well as implementational details.

Integrated Design Engineering Analysis (IDEA) Environment Automated Generation of Structured CFD Grids using Topology Methods

NASA Technical Reports Server (NTRS)

Kamhawi, Hilmi N.

2012-01-01

This report documents the work performed from March 2010 to March 2012. The Integrated Design and Engineering Analysis (IDEA) environment is a collaborative environment based on an object-oriented, multidisciplinary, distributed framework using the Adaptive Modeling Language (AML) as a framework and supporting the configuration design and parametric CFD grid generation. This report will focus on describing the work in the area of parametric CFD grid generation using novel concepts for defining the interaction between the mesh topology and the geometry in such a way as to separate the mesh topology from the geometric topology while maintaining the link between the mesh topology and the actual geometry.

MESH2D Grid generator design and use

DOE Office of Scientific and Technical Information (OSTI.GOV)

Flach, G. P.

Mesh2d is a Fortran90 program originally designed to generate two-dimensional structured grids of the form [x(i),y(i,j)] where [x,y] are grid coordinates identified by indices (i,j). x-coordinates depending only on index i implies strictly vertical x-grid lines, whereas the y-grid lines can undulate. Mesh2d also assigns an integer material type to each grid cell, mtyp(i,j), in a user-specified manner. The complete grid is specified through three separate input files defining the x(i), y(i,j), and mtyp(i,j) variations. Since the original development effort, Mesh2d has been extended to more general two-dimensional structured grids of the form [x(i,j),(i,j)].

Digital relief generation from 3D models

NASA Astrophysics Data System (ADS)

Wang, Meili; Sun, Yu; Zhang, Hongming; Qian, Kun; Chang, Jian; He, Dongjian

2016-09-01

It is difficult to extend image-based relief generation to high-relief generation, as the images contain insufficient height information. To generate reliefs from three-dimensional (3D) models, it is necessary to extract the height fields from the model, but this can only generate bas-reliefs. To overcome this problem, an efficient method is proposed to generate bas-reliefs and high-reliefs directly from 3D meshes. To produce relief features that are visually appropriate, the 3D meshes are first scaled. 3D unsharp masking is used to enhance the visual features in the 3D mesh, and average smoothing and Laplacian smoothing are implemented to achieve better smoothing results. A nonlinear variable scaling scheme is then employed to generate the final bas-reliefs and high-reliefs. Using the proposed method, relief models can be generated from arbitrary viewing positions with different gestures and combinations of multiple 3D models. The generated relief models can be printed by 3D printers. The proposed method provides a means of generating both high-reliefs and bas-reliefs in an efficient and effective way under the appropriate scaling factors.

Research Trend Visualization by MeSH Terms from PubMed.

PubMed

Yang, Heyoung; Lee, Hyuck Jai

2018-05-30

Motivation : PubMed is a primary source of biomedical information comprising search tool function and the biomedical literature from MEDLINE which is the US National Library of Medicine premier bibliographic database, life science journals and online books. Complimentary tools to PubMed have been developed to help the users search for literature and acquire knowledge. However, these tools are insufficient to overcome the difficulties of the users due to the proliferation of biomedical literature. A new method is needed for searching the knowledge in biomedical field. Methods : A new method is proposed in this study for visualizing the recent research trends based on the retrieved documents corresponding to a search query given by the user. The Medical Subject Headings (MeSH) are used as the primary analytical element. MeSH terms are extracted from the literature and the correlations between them are calculated. A MeSH network, called MeSH Net, is generated as the final result based on the Pathfinder Network algorithm. Results : A case study for the verification of proposed method was carried out on a research area defined by the search query (immunotherapy and cancer and "tumor microenvironment"). The MeSH Net generated by the method is in good agreement with the actual research activities in the research area (immunotherapy). Conclusion : A prototype application generating MeSH Net was developed. The application, which could be used as a "guide map for travelers", allows the users to quickly and easily acquire the knowledge of research trends. Combination of PubMed and MeSH Net is expected to be an effective complementary system for the researchers in biomedical field experiencing difficulties with search and information analysis.

Automated Tetrahedral Mesh Generation for CFD Analysis of Aircraft in Conceptual Design

NASA Technical Reports Server (NTRS)

Ordaz, Irian; Li, Wu; Campbell, Richard L.

2014-01-01

The paper introduces an automation process of generating a tetrahedral mesh for computational fluid dynamics (CFD) analysis of aircraft configurations in early conceptual design. The method was developed for CFD-based sonic boom analysis of supersonic configurations, but can be applied to aerodynamic analysis of aircraft configurations in any flight regime.

Grid generation and surface modeling for CFD

NASA Technical Reports Server (NTRS)

Connell, Stuart D.; Sober, Janet S.; Lamson, Scott H.

1995-01-01

When computing the flow around complex three dimensional configurations, the generation of the mesh is the most time consuming part of any calculation. With some meshing technologies this can take of the order of a man month or more. The requirement for a number of design iterations coupled with ever decreasing time allocated for design leads to the need for a significant acceleration of this process. Of the two competing approaches, block-structured and unstructured, only the unstructured approach will allow fully automatic mesh generation directly from a CAD model. Using this approach coupled with the techniques described in this paper, it is possible to reduce the mesh generation time from man months to a few hours on a workstation. The desire to closely couple a CFD code with a design or optimization algorithm requires that the changes to the geometry be performed quickly and in a smooth manner. This need for smoothness necessitates the use of Bezier polynomials in place of the more usual NURBS or cubic splines. A two dimensional Bezier polynomial based design system is described.

Emerging CFD technologies and aerospace vehicle design

NASA Technical Reports Server (NTRS)

Aftosmis, Michael J.

1995-01-01

With the recent focus on the needs of design and applications CFD, research groups have begun to address the traditional bottlenecks of grid generation and surface modeling. Now, a host of emerging technologies promise to shortcut or dramatically simplify the simulation process. This paper discusses the current status of these emerging technologies. It will argue that some tools are already available which can have positive impact on portions of the design cycle. However, in most cases, these tools need to be integrated into specific engineering systems and process cycles to be used effectively. The rapidly maturing status of unstructured and Cartesian approaches for inviscid simulations makes suggests the possibility of highly automated Euler-boundary layer simulations with application to loads estimation and even preliminary design. Similarly, technology is available to link block structured mesh generation algorithms with topology libraries to avoid tedious re-meshing of topologically similar configurations. Work in algorithmic based auto-blocking suggests that domain decomposition and point placement operations in multi-block mesh generation may be properly posed as problems in Computational Geometry, and following this approach may lead to robust algorithmic processes for automatic mesh generation.

Spectral turning bands for efficient Gaussian random fields generation on GPUs and accelerators

NASA Astrophysics Data System (ADS)

Hunger, L.; Cosenza, B.; Kimeswenger, S.; Fahringer, T.

2015-11-01

A random field (RF) is a set of correlated random variables associated with different spatial locations. RF generation algorithms are of crucial importance for many scientific areas, such as astrophysics, geostatistics, computer graphics, and many others. Current approaches commonly make use of 3D fast Fourier transform (FFT), which does not scale well for RF bigger than the available memory; they are also limited to regular rectilinear meshes. We introduce random field generation with the turning band method (RAFT), an RF generation algorithm based on the turning band method that is optimized for massively parallel hardware such as GPUs and accelerators. Our algorithm replaces the 3D FFT with a lower-order, one-dimensional FFT followed by a projection step and is further optimized with loop unrolling and blocking. RAFT can easily generate RF on non-regular (non-uniform) meshes and efficiently produce fields with mesh sizes bigger than the available device memory by using a streaming, out-of-core approach. Our algorithm generates RF with the correct statistical behavior and is tested on a variety of modern hardware, such as NVIDIA Tesla, AMD FirePro and Intel Phi. RAFT is faster than the traditional methods on regular meshes and has been successfully applied to two real case scenarios: planetary nebulae and cosmological simulations.

Application of a lower-upper implicit scheme and an interactive grid generation for turbomachinery flow field simulations

NASA Technical Reports Server (NTRS)

Choo, Yung K.; Soh, Woo-Yung; Yoon, Seokkwan

1989-01-01

A finite-volume lower-upper (LU) implicit scheme is used to simulate an inviscid flow in a tubine cascade. This approximate factorization scheme requires only the inversion of sparse lower and upper triangular matrices, which can be done efficiently without extensive storage. As an implicit scheme it allows a large time step to reach the steady state. An interactive grid generation program (TURBO), which is being developed, is used to generate grids. This program uses the control point form of algebraic grid generation which uses a sparse collection of control points from which the shape and position of coordinate curves can be adjusted. A distinct advantage of TURBO compared with other grid generation programs is that it allows the easy change of local mesh structure without affecting the grid outside the domain of independence. Sample grids are generated by TURBO for a compressor rotor blade and a turbine cascade. The turbine cascade flow is simulated by using the LU implicit scheme on the grid generated by TURBO.

Microcomputed tomographic and histomorphometric analyses of novel titanium mesh membranes for guided bone regeneration: a study in rat calvarial defects.

PubMed

Rakhmatia, Yunia Dwi; Ayukawa, Yasunori; Furuhashi, Akihiro; Koyano, Kiyoshi

2014-01-01

The objective of this study was to evaluate the optimal thickness and porosity of novel titanium mesh membranes to enhance bone augmentation, prevent soft tissue ingrowth, and prevent membrane exposure. Six types of novel titanium meshes with different thicknesses and pore sizes, along with three commercially available membranes, were used to cover surgically created calvarial defects in 6-week-old Sprague-Dawley rats. The animals were killed after 4 or 8 weeks. Microcomputed tomographic analyses were performed to analyze the three-dimensional bone volume and bone mineral density. Soft tissue ingrowth was also evaluated histologically and histomorphometrically. The novel titanium membranes used in this study were as effective at augmenting bone in the rat calvarial defect model as the commercially available membranes. The greatest bone volume was observed on 100-μm-thick membranes with larger pores, although these membranes promoted growth of bone with lower mineral density. Soft tissue ingrowth when 100-μm membranes were used was increased at 4 weeks but decreased again by 8 weeks to a level not statistically significantly different from other membranes. Membrane thickness affects the total amount of new bone formation, and membrane porosity is an essential factor for guided bone regeneration, especially during the initial healing period, although the final bone volume obtained is essentially the same. Newly developed titanium mesh membranes of 100 μm in thickness and with large pores appear to be optimal for guided bone regeneration.

Automatic Texture Reconstruction of 3d City Model from Oblique Images

NASA Astrophysics Data System (ADS)

Kang, Junhua; Deng, Fei; Li, Xinwei; Wan, Fang

2016-06-01

In recent years, the photorealistic 3D city models are increasingly important in various geospatial applications related to virtual city tourism, 3D GIS, urban planning, real-estate management. Besides the acquisition of high-precision 3D geometric data, texture reconstruction is also a crucial step for generating high-quality and visually realistic 3D models. However, most of the texture reconstruction approaches are probably leading to texture fragmentation and memory inefficiency. In this paper, we introduce an automatic framework of texture reconstruction to generate textures from oblique images for photorealistic visualization. Our approach include three major steps as follows: mesh parameterization, texture atlas generation and texture blending. Firstly, mesh parameterization procedure referring to mesh segmentation and mesh unfolding is performed to reduce geometric distortion in the process of mapping 2D texture to 3D model. Secondly, in the texture atlas generation step, the texture of each segmented region in texture domain is reconstructed from all visible images with exterior orientation and interior orientation parameters. Thirdly, to avoid color discontinuities at boundaries between texture regions, the final texture map is generated by blending texture maps from several corresponding images. We evaluated our texture reconstruction framework on a dataset of a city. The resulting mesh model can get textured by created texture without resampling. Experiment results show that our method can effectively mitigate the occurrence of texture fragmentation. It is demonstrated that the proposed framework is effective and useful for automatic texture reconstruction of 3D city model.

Recent advances in high-order WENO finite volume methods for compressible multiphase flows

NASA Astrophysics Data System (ADS)

Dumbser, Michael

2013-10-01

We present two new families of better than second order accurate Godunov-type finite volume methods for the solution of nonlinear hyperbolic partial differential equations with nonconservative products. One family is based on a high order Arbitrary-Lagrangian-Eulerian (ALE) formulation on moving meshes, which allows to resolve the material contact wave in a very sharp way when the mesh is moved at the speed of the material interface. The other family of methods is based on a high order Adaptive Mesh Refinement (AMR) strategy, where the mesh can be strongly refined in the vicinity of the material interface. Both classes of schemes have several building blocks in common, in particular: a high order WENO reconstruction operator to obtain high order of accuracy in space; the use of an element-local space-time Galerkin predictor step which evolves the reconstruction polynomials in time and that allows to reach high order of accuracy in time in one single step; the use of a path-conservative approach to treat the nonconservative terms of the PDE. We show applications of both methods to the Baer-Nunziato model for compressible multiphase flows.

A point-centered arbitrary Lagrangian Eulerian hydrodynamic approach for tetrahedral meshes

DOE PAGES

Morgan, Nathaniel R.; Waltz, Jacob I.; Burton, Donald E.; ...

2015-02-24

We present a three dimensional (3D) arbitrary Lagrangian Eulerian (ALE) hydrodynamic scheme suitable for modeling complex compressible flows on tetrahedral meshes. The new approach stores the conserved variables (mass, momentum, and total energy) at the nodes of the mesh and solves the conservation equations on a control volume surrounding the point. This type of an approach is termed a point-centered hydrodynamic (PCH) method. The conservation equations are discretized using an edge-based finite element (FE) approach with linear basis functions. All fluxes in the new approach are calculated at the center of each tetrahedron. A multidirectional Riemann-like problem is solved atmore » the center of the tetrahedron. The advective fluxes are calculated by solving a 1D Riemann problem on each face of the nodal control volume. A 2-stage Runge–Kutta method is used to evolve the solution forward in time, where the advective fluxes are part of the temporal integration. The mesh velocity is smoothed by solving a Laplacian equation. The details of the new ALE hydrodynamic scheme are discussed. Results from a range of numerical test problems are presented.« less

Compressible magma/mantle dynamics: 3-D, adaptive simulations in ASPECT

NASA Astrophysics Data System (ADS)

Dannberg, Juliane; Heister, Timo

2016-12-01

Melt generation and migration are an important link between surface processes and the thermal and chemical evolution of the Earth's interior. However, their vastly different timescales make it difficult to study mantle convection and melt migration in a unified framework, especially for 3-D global models. And although experiments suggest an increase in melt volume of up to 20 per cent from the depth of melt generation to the surface, previous computations have neglected the individual compressibilities of the solid and the fluid phase. Here, we describe our extension of the finite element mantle convection code ASPECT that adds melt generation and migration. We use the original compressible formulation of the McKenzie equations, augmented by an equation for the conservation of energy. Applying adaptive mesh refinement to this type of problems is particularly advantageous, as the resolution can be increased in areas where melt is present and viscosity gradients are high, whereas a lower resolution is sufficient in regions without melt. Together with a high-performance, massively parallel implementation, this allows for high-resolution, 3-D, compressible, global mantle convection simulations coupled with melt migration. We evaluate the functionality and potential of this method using a series of benchmarks and model setups, compare results of the compressible and incompressible formulation, and show the effectiveness of adaptive mesh refinement when applied to melt migration. Our model of magma dynamics provides a framework for modelling processes on different scales and investigating links between processes occurring in the deep mantle and melt generation and migration. This approach could prove particularly useful applied to modelling the generation of komatiites or other melts originating in greater depths. The implementation is available in the Open Source ASPECT repository.

Development of a solution adaptive unstructured scheme for quasi-3D inviscid flows through advanced turbomachinery cascades

NASA Technical Reports Server (NTRS)

Usab, William J., Jr.; Jiang, Yi-Tsann

1991-01-01

The objective of the present research is to develop a general solution adaptive scheme for the accurate prediction of inviscid quasi-three-dimensional flow in advanced compressor and turbine designs. The adaptive solution scheme combines an explicit finite-volume time-marching scheme for unstructured triangular meshes and an advancing front triangular mesh scheme with a remeshing procedure for adapting the mesh as the solution evolves. The unstructured flow solver has been tested on a series of two-dimensional airfoil configurations including a three-element analytic test case presented here. Mesh adapted quasi-three-dimensional Euler solutions are presented for three spanwise stations of the NASA rotor 67 transonic fan. Computed solutions are compared with available experimental data.

[Expandable metal mesh stents for treatment of tracheal stenoses and tracheomalacia].

PubMed

Müller, C; Dienemann, H; Hoffmann, H; Berger, H; Storck, M; Jolk, A; Schildberg, F W

1993-01-01

The treatment of tracheo-bronchial stenosis or tracheomalacia is mainly carried out by means of resection or tracheoplastic operative strategies. Since the introduction of metal-mesh stents, a definitive endoluminal therapy has to be considered under new aspects. Six patients with malignant stenosis or tracheomalacia due to compression were treated by implantation of Palmaz- or Wallstents. Immediately after the implantation, patients were relieved from dyspnoea, the forced inspiratory volume-1 (FIV1) was normalized. All implanted stents were well tolerated, even in the long-time follow-up (19 months). Bronchoscopic control showed overgrowth of the metal meshes by respiratory epithelium. The implantation of metal-mesh stents is an adequate alternative in the treatment of malignant stenosis and tracheomalacia.

An adaptive multiblock high-order finite-volume method for solving the shallow-water equations on the sphere

DOE PAGES

McCorquodale, Peter; Ullrich, Paul; Johansen, Hans; ...

2015-09-04

We present a high-order finite-volume approach for solving the shallow-water equations on the sphere, using multiblock grids on the cubed-sphere. This approach combines a Runge--Kutta time discretization with a fourth-order accurate spatial discretization, and includes adaptive mesh refinement and refinement in time. Results of tests show fourth-order convergence for the shallow-water equations as well as for advection in a highly deformational flow. Hierarchical adaptive mesh refinement allows solution error to be achieved that is comparable to that obtained with uniform resolution of the most refined level of the hierarchy, but with many fewer operations.

Unstructured mesh adaptivity for urban flooding modelling

NASA Astrophysics Data System (ADS)

Hu, R.; Fang, F.; Salinas, P.; Pain, C. C.

2018-05-01

Over the past few decades, urban floods have been gaining more attention due to their increase in frequency. To provide reliable flooding predictions in urban areas, various numerical models have been developed to perform high-resolution flood simulations. However, the use of high-resolution meshes across the whole computational domain causes a high computational burden. In this paper, a 2D control-volume and finite-element flood model using adaptive unstructured mesh technology has been developed. This adaptive unstructured mesh technique enables meshes to be adapted optimally in time and space in response to the evolving flow features, thus providing sufficient mesh resolution where and when it is required. It has the advantage of capturing the details of local flows and wetting and drying front while reducing the computational cost. Complex topographic features are represented accurately during the flooding process. For example, the high-resolution meshes around the buildings and steep regions are placed when the flooding water reaches these regions. In this work a flooding event that happened in 2002 in Glasgow, Scotland, United Kingdom has been simulated to demonstrate the capability of the adaptive unstructured mesh flooding model. The simulations have been performed using both fixed and adaptive unstructured meshes, and then results have been compared with those published 2D and 3D results. The presented method shows that the 2D adaptive mesh model provides accurate results while having a low computational cost.

Full-Carpet Design of a Low-Boom Demonstrator Concept

NASA Technical Reports Server (NTRS)

Ordaz, Irian; Wintzer, Mathias; Rallabhandi, Sriram K.

2015-01-01

The Cart3D adjoint-based design framework is used to mitigate the undesirable o -track sonic boom properties of a demonstrator concept designed for low-boom directly under the flight path. First, the requirements of a Cart3D design mesh are determined using a high-fidelity mesh adapted to minimize the discretization error of the CFD analysis. Low-boom equivalent area targets are then generated at the under-track and one off-track azimuthal position for the baseline configuration. The under-track target is generated using a trim- feasible low-boom target generation process, ensuring that the final design is not only low-boom, but also trimmed at the specified flight condition. The o -track equivalent area target is generated by minimizing the A-weighted loudness using an efficient adjoint-based approach. The configuration outer mold line is then parameterized and optimized to match the off-body pressure distributions prescribed by the low-boom targets. The numerical optimizer uses design gradients which are calculated using the Cart3D adjoint- based design capability. Optimization constraints are placed on the geometry to satisfy structural feasibility. The low-boom properties of the final design are verified using the adaptive meshing approach. This analysis quantifies the error associated with the CFD mesh that is used for design. Finally, an alternate mesh construction and target positioning approach offering greater computational efficiency is demonstrated and verified.

A Solution Adaptive Technique Using Tetrahedral Unstructured Grids

NASA Technical Reports Server (NTRS)

Pirzadeh, Shahyar Z.

2000-01-01

An adaptive unstructured grid refinement technique has been developed and successfully applied to several three dimensional inviscid flow test cases. The method is based on a combination of surface mesh subdivision and local remeshing of the volume grid Simple functions of flow quantities are employed to detect dominant features of the flowfield The method is designed for modular coupling with various error/feature analyzers and flow solvers. Several steady-state, inviscid flow test cases are presented to demonstrate the applicability of the method for solving practical three-dimensional problems. In all cases, accurate solutions featuring complex, nonlinear flow phenomena such as shock waves and vortices have been generated automatically and efficiently.

Unstructured Polyhedral Mesh Thermal Radiation Diffusion

DOE Office of Scientific and Technical Information (OSTI.GOV)

Palmer, T.S.; Zika, M.R.; Madsen, N.K.

2000-07-27

Unstructured mesh particle transport and diffusion methods are gaining wider acceptance as mesh generation, scientific visualization and linear solvers improve. This paper describes an algorithm that is currently being used in the KULL code at Lawrence Livermore National Laboratory to solve the radiative transfer equations. The algorithm employs a point-centered diffusion discretization on arbitrary polyhedral meshes in 3D. We present the results of a few test problems to illustrate the capabilities of the radiation diffusion module.

System data communication structures for active-control transport aircraft, volume 1

NASA Technical Reports Server (NTRS)

Hopkins, A. L.; Martin, J. H.; Brock, L. D.; Jansson, D. G.; Serben, S.; Smith, T. B.; Hanley, L. D.

1981-01-01

Candidate data communication techniques are identified, including dedicated links, local buses, broadcast buses, multiplex buses, and mesh networks. The design methodology for mesh networks is then discussed, including network topology and node architecture. Several concepts of power distribution are reviewed, including current limiting and mesh networks for power. The technology issues of packaging, transmission media, and lightning are addressed, and, finally, the analysis tools developed to aid in the communication design process are described. There are special tools to analyze the reliability and connectivity of networks and more general reliability analysis tools for all types of systems.

Unstructured Euler flow solutions using hexahedral cell refinement

NASA Technical Reports Server (NTRS)

Melton, John E.; Cappuccio, Gelsomina; Thomas, Scott D.

1991-01-01

An attempt is made to extend grid refinement into three dimensions by using unstructured hexahedral grids. The flow solver is developed using the TIGER (topologically Independent Grid, Euler Refinement) as the starting point. The program uses an unstructured hexahedral mesh and a modified version of the Jameson four-stage, finite-volume Runge-Kutta algorithm for integration of the Euler equations. The unstructured mesh allows for local refinement appropriate for each freestream condition, thereby concentrating mesh cells in the regions of greatest interest. This increases the computational efficiency because the refinement is not required to extend throughout the entire flow field.

Lattice Cleaving: A Multimaterial Tetrahedral Meshing Algorithm with Guarantees

PubMed Central

Bronson, Jonathan; Levine, Joshua A.; Whitaker, Ross

2014-01-01

We introduce a new algorithm for generating tetrahedral meshes that conform to physical boundaries in volumetric domains consisting of multiple materials. The proposed method allows for an arbitrary number of materials, produces high-quality tetrahedral meshes with upper and lower bounds on dihedral angles, and guarantees geometric fidelity. Moreover, the method is combinatoric so its implementation enables rapid mesh construction. These meshes are structured in a way that also allows grading, to reduce element counts in regions of homogeneity. Additionally, we provide proofs showing that both element quality and geometric fidelity are bounded using this approach. PMID:24356365

Computations of Aerodynamic Performance Databases Using Output-Based Refinement

NASA Technical Reports Server (NTRS)

Nemec, Marian; Aftosmis, Michael J.

2009-01-01

Objectives: Handle complex geometry problems; Control discretization errors via solution-adaptive mesh refinement; Focus on aerodynamic databases of parametric and optimization studies: 1. Accuracy: satisfy prescribed error bounds 2. Robustness and speed: may require over 105 mesh generations 3. Automation: avoid user supervision Obtain "expert meshes" independent of user skill; and Run every case adaptively in production settings.

Decay of grid turbulence in superfluid helium-4: Mesh dependence

NASA Astrophysics Data System (ADS)

Yang, J.; Ihas, G. G.

2018-03-01

Temporal decay of grid turbulence is experimentally studied in superfluid 4He in a large square channel. The second sound attenuation method is used to measure the turbulent vortex line density (L) with a phase locked tracking technique to minimize frequency shift effects induced by temperature fluctuations. Two different grids (0.8 mm and 3.0 mm mesh) are pulled to generate turbulence. Different power laws for decaying behavior are predicted by a theory. According to this theory, L should decay as t‑11/10 when the length scale of energy containing eddies grows from the grid mesh size to the size of the channel. At later time, after the energy containing eddy size becomes comparable to the channel, L should follow t‑3/2. Our recent experimental data exhibit evidence for t‑11/10 during the early time and t‑2 instead of t‑3/2 for later time. Moreover, a consistent bump/plateau feature is prominent between the two decay regimes for smaller (0.8 mm) grid mesh holes but absent with a grid mesh hole of 3.0 mm. This implies that in the large channel different types of turbulence are generated, depending on mesh hole size (mesh Reynolds number) compared to channel Reynolds number.

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.

A new class of accurate, mesh-free hydrodynamic simulation methods

NASA Astrophysics Data System (ADS)

Hopkins, Philip F.

2015-06-01

We present two new Lagrangian methods for hydrodynamics, in a systematic comparison with moving-mesh, smoothed particle hydrodynamics (SPH), and stationary (non-moving) grid methods. The new methods are designed to simultaneously capture advantages of both SPH and grid-based/adaptive mesh refinement (AMR) schemes. They are based on a kernel discretization of the volume coupled to a high-order matrix gradient estimator and a Riemann solver acting over the volume `overlap'. We implement and test a parallel, second-order version of the method with self-gravity and cosmological integration, in the code GIZMO:1 this maintains exact mass, energy and momentum conservation; exhibits superior angular momentum conservation compared to all other methods we study; does not require `artificial diffusion' terms; and allows the fluid elements to move with the flow, so resolution is automatically adaptive. We consider a large suite of test problems, and find that on all problems the new methods appear competitive with moving-mesh schemes, with some advantages (particularly in angular momentum conservation), at the cost of enhanced noise. The new methods have many advantages versus SPH: proper convergence, good capturing of fluid-mixing instabilities, dramatically reduced `particle noise' and numerical viscosity, more accurate sub-sonic flow evolution, and sharp shock-capturing. Advantages versus non-moving meshes include: automatic adaptivity, dramatically reduced advection errors and numerical overmixing, velocity-independent errors, accurate coupling to gravity, good angular momentum conservation and elimination of `grid alignment' effects. We can, for example, follow hundreds of orbits of gaseous discs, while AMR and SPH methods break down in a few orbits. However, fixed meshes minimize `grid noise'. These differences are important for a range of astrophysical problems.

[Treatment of enophthalmos after severe malar-maxillary complex fracture with titanium mesh and high density polyethylene (Medpor)].

PubMed

Zhao, Yan-feng; Lu, Ping; Zhou, Xiao-nan; Qu, Chang-feng

2010-03-01

To study the surgical management of enophthalmos after severe malar maxillary complex fracture. The X-ray and CT examination were performed before operation to diagnose the orbital fracture and intraorbital tissue displacement. The fractured orbital rim was repositioned intraoperatively, followed by implantation of shaped titanium mesh to rebuild the orbital floor. The Medpor was inserted above the titanium mesh to correct the enophthalmos. From Sept. 2007 to Jan. 2009, 6 cases of enophthalmos after severe malar-maxillary complex fracture were treated. The enophthalmos was corrected or improved obviously in all the patients. The enophthalmos after severe malar-maxillary complex fracture can be corrected or obviously improved. Shaped titanium mesh can be used to rebuild the orbital floor with the Medpor to reconstruct the intraorbital tissue volume.

A Framework for Parallel Unstructured Grid Generation for Complex Aerodynamic Simulations

NASA Technical Reports Server (NTRS)

Zagaris, George; Pirzadeh, Shahyar Z.; Chrisochoides, Nikos

2009-01-01

A framework for parallel unstructured grid generation targeting both shared memory multi-processors and distributed memory architectures is presented. The two fundamental building-blocks of the framework consist of: (1) the Advancing-Partition (AP) method used for domain decomposition and (2) the Advancing Front (AF) method used for mesh generation. Starting from the surface mesh of the computational domain, the AP method is applied recursively to generate a set of sub-domains. Next, the sub-domains are meshed in parallel using the AF method. The recursive nature of domain decomposition naturally maps to a divide-and-conquer algorithm which exhibits inherent parallelism. For the parallel implementation, the Master/Worker pattern is employed to dynamically balance the varying workloads of each task on the set of available CPUs. Performance results by this approach are presented and discussed in detail as well as future work and improvements.

Users manual for AUTOMESH-2D: A program of automatic mesh generation for two-dimensional scattering analysis by the finite element method

NASA Technical Reports Server (NTRS)

Hua, Chongyu; Volakis, John L.

1990-01-01

AUTOMESH-2D is a computer program specifically designed as a preprocessor for the scattering analysis of two dimensional bodies by the finite element method. This program was developed due to a need for reproducing the effort required to define and check the geometry data, element topology, and material properties. There are six modules in the program: (1) Parameter Specification; (2) Data Input; (3) Node Generation; (4) Element Generation; (5) Mesh Smoothing; and (5) Data File Generation.

Adsorption and kinetics study of manganesse (II) in waste water using vertical column method by sugar cane bagasse

NASA Astrophysics Data System (ADS)

Zaini, H.; Abubakar, S.; Rihayat, T.; Suryani, S.

2018-03-01

Removal of heavy metal content in wastewater has been largely done by various methods. One effective and efficient method is the adsorption method. This study aims to reduce manganese (II) content in wastewater based on column adsorption method using absorbent material from bagasse. The fixed variable consisted of 50 g adsorbent, 10 liter adsorbate volume, flow rate of 7 liters / min. Independent variable of particle size with variation 10 – 30 mesh and contact time with variation 0 - 240 min and respon variable concentration of adsorbate (ppm), pH and conductivity. The results showed that the adsorption process of manganese metal is influenced by particle size and contact time. The adsorption kinetics takes place according to pseudo-second order kinetics with an equilibrium adsorption capacity (qe: mg / g) for 10 mesh adsorbent particles: 0.8947; 20 mesh adsorbent particles: 0.4332 and 30 mesh adsorbent particles: 1.0161, respectively. Highest removal efficience for 10 mesh adsorbent particles: 49.22% on contact time 60 min; 20 mesh adsorbent particles: 35,25% on contact time 180 min and particle 30 mesh adsorbent particles: 51,95% on contact time 150 min.

Simulating Soft Shadows with Graphics Hardware,

DTIC Science & Technology

1997-01-15

This radiance texture is analogous to the mesh of radiosity values computed in a radiosity algorithm. Unlike a radiosity algorithm, however, our...discretely. Several researchers have explored continuous visibility methods for soft shadow computation and radiosity mesh generation. With this approach...times of several seconds [9]. Most radiosity methods discretize each surface into a mesh of elements and then use discrete methods such as ray

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bakosi, Jozsef; Christon, Mark A.; Francois, Marianne M.

This report describes the work carried out for completion of the Thermal Hydraulics Methods (THM) Level 3 Milestone THM.CFD.P5.05 for the Consortium for Advanced Simulation of Light Water Reactors (CASL). A series body-fitted computational meshes have been generated by Numeca's Hexpress/Hybrid, a.k.a. 'Spider', meshing technology for the V5H 3x3 and 5x5 rod bundle geometry used to compute the fluid dynamics of grid-to-rod fretting (GTRF). Spider is easy to use, fast, and automatically generates high-quality meshes for extremely complex geometries, required for the GTRF problem. Hydra-TH has been used to carry out large-eddy simulations on both 3x3 and 5x5 geometries, usingmore » different mesh resolutions. The results analyzed show good agreement with Star-CCM+ simulations and experimental data.« less

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bakosi, Jozsef; Christon, Mark A.; Francois, Marianne M.

This report describes the work carried out for completion of the Thermal Hydraulics Methods (THM) Level 3 Milestone THM.CFD.P5.05 for the Consortium for Advanced Simulation of Light Water Reactors (CASL). A series of body-fitted computational meshes have been generated by Numeca's Hexpress/Hybrid, a.k.a. 'Spider', meshing technology for the V5H 3 x 3 and 5 x 5 rod bundle geometries and subsequently used to compute the fluid dynamics of grid-to-rod fretting (GTRF). Spider is easy to use, fast, and automatically generates high-quality meshes for extremely complex geometries, required for the GTRF problem. Hydra-TH has been used to carry out large-eddy simulationsmore » on both 3 x 3 and 5 x 5 geometries, using different mesh resolutions. The results analyzed show good agreement with Star-CCM+ simulations and experimental data.« less

Evaluation of optical data gained by ARAMIS-measurement of abdominal wall movements for an anisotropic pattern design of stress-adapted hernia meshes produced by embroidery technology

NASA Astrophysics Data System (ADS)

Breier, A.; Bittrich, L.; Hahn, J.; Spickenheuer, A.

2017-10-01

For the sustainable repair of abdominal wall hernia the application of hernia meshes is required. One reason for the relapse of hernia after surgery is seen in an inadequate adaption of the mechanical properties of the mesh to the movements of the abdominal wall. Differences in the stiffness of the mesh and the abdominal tissue cause tension, friction and stress resulting in a deficient tissue response and subsequently in a recurrence of a hernia, preferentially in the marginal area of the mesh. Embroidery technology enables a targeted influence on the mechanical properties of the generated textile structure by a directed thread deposition. Textile parameters like stitch density, alignment and angle can be changed easily and locally in the embroidery pattern to generate a space-resolved mesh with mechanical properties adapted to the requirement of the surrounding tissue. To determine those requirements the movements of the abdominal wall and the resulting distortions need to be known. This study was conducted to gain optical data of the abdominal wall movements by non-invasive ARAMIS-measurement on 39 test persons to estimate direction and value of the major strains.

Parallel Adaptive Mesh Refinement for High-Order Finite-Volume Schemes in Computational Fluid Dynamics

NASA Astrophysics Data System (ADS)

Schwing, Alan Michael

For computational fluid dynamics, the governing equations are solved on a discretized domain of nodes, faces, and cells. The quality of the grid or mesh can be a driving source for error in the results. While refinement studies can help guide the creation of a mesh, grid quality is largely determined by user expertise and understanding of the flow physics. Adaptive mesh refinement is a technique for enriching the mesh during a simulation based on metrics for error, impact on important parameters, or location of important flow features. This can offload from the user some of the difficult and ambiguous decisions necessary when discretizing the domain. This work explores the implementation of adaptive mesh refinement in an implicit, unstructured, finite-volume solver. Consideration is made for applying modern computational techniques in the presence of hanging nodes and refined cells. The approach is developed to be independent of the flow solver in order to provide a path for augmenting existing codes. It is designed to be applicable for unsteady simulations and refinement and coarsening of the grid does not impact the conservatism of the underlying numerics. The effect on high-order numerical fluxes of fourth- and sixth-order are explored. Provided the criteria for refinement is appropriately selected, solutions obtained using adapted meshes have no additional error when compared to results obtained on traditional, unadapted meshes. In order to leverage large-scale computational resources common today, the methods are parallelized using MPI. Parallel performance is considered for several test problems in order to assess scalability of both adapted and unadapted grids. Dynamic repartitioning of the mesh during refinement is crucial for load balancing an evolving grid. Development of the methods outlined here depend on a dual-memory approach that is described in detail. Validation of the solver developed here against a number of motivating problems shows favorable comparisons across a range of regimes. Unsteady and steady applications are considered in both subsonic and supersonic flows. Inviscid and viscous simulations achieve similar results at a much reduced cost when employing dynamic mesh adaptation. Several techniques for guiding adaptation are compared. Detailed analysis of statistics from the instrumented solver enable understanding of the costs associated with adaptation. Adaptive mesh refinement shows promise for the test cases presented here. It can be considerably faster than using conventional grids and provides accurate results. The procedures for adapting the grid are light-weight enough to not require significant computational time and yield significant reductions in grid size.

Methods for prismatic/tetrahedral grid generation and adaptation

NASA Technical Reports Server (NTRS)

Kallinderis, Y.

1995-01-01

The present work involves generation of hybrid prismatic/tetrahedral grids for complex 3-D geometries including multi-body domains. The prisms cover the region close to each body's surface, while tetrahedra are created elsewhere. Two developments are presented for hybrid grid generation around complex 3-D geometries. The first is a new octree/advancing front type of method for generation of the tetrahedra of the hybrid mesh. The main feature of the present advancing front tetrahedra generator that is different from previous such methods is that it does not require the creation of a background mesh by the user for the determination of the grid-spacing and stretching parameters. These are determined via an automatically generated octree. The second development is a method for treating the narrow gaps in between different bodies in a multiply-connected domain. This method is applied to a two-element wing case. A High Speed Civil Transport (HSCT) type of aircraft geometry is considered. The generated hybrid grid required only 170 K tetrahedra instead of an estimated two million had a tetrahedral mesh been used in the prisms region as well. A solution adaptive scheme for viscous computations on hybrid grids is also presented. A hybrid grid adaptation scheme that employs both h-refinement and redistribution strategies is developed to provide optimum meshes for viscous flow computations. Grid refinement is a dual adaptation scheme that couples 3-D, isotropic division of tetrahedra and 2-D, directional division of prisms.

An efficicient data structure for three-dimensional vertex based finite volume method

NASA Astrophysics Data System (ADS)

Akkurt, Semih; Sahin, Mehmet

2017-11-01

A vertex based three-dimensional finite volume algorithm has been developed using an edge based data structure.The mesh data structure of the given algorithm is similar to ones that exist in the literature. However, the data structures are redesigned and simplied in order to fit requirements of the vertex based finite volume method. In order to increase the cache efficiency, the data access patterns for the vertex based finite volume method are investigated and these datas are packed/allocated in a way that they are close to each other in the memory. The present data structure is not limited with tetrahedrons, arbitrary polyhedrons are also supported in the mesh without putting any additional effort. Furthermore, the present data structure also supports adaptive refinement and coarsening. For the implicit and parallel implementation of the FVM algorithm, PETSc and MPI libraries are employed. The performance and accuracy of the present algorithm are tested for the classical benchmark problems by comparing the CPU time for the open source algorithms.

Geo-PUMMA: Urban and Periurban Landscape Representation Toolbox for Hydrological Distributed Modeling

NASA Astrophysics Data System (ADS)

Sanzana, Pedro; Gironas, Jorge; Braud, Isabelle; Branger, Flora; Rodriguez, Fabrice; Vargas, Ximena; Hitschfeld, Nancy; Francisco Munoz, Jose

2016-04-01

In addition to land use changes, the process of urbanization can modify the direction of the surface and sub-surface flows, generating complex environments and increasing the types of connectivity between pervious and impervious areas. Thus, hydrological pathways in urban and periurban areas are significantly affected by artificial elements like channels, pipes, streets and other elements of storm water systems. This work presents Geo-PUMMA, a new GIS toolbox to generate vectorial meshes for distributed hydrological modeling and extract the drainage network in urban and periurban terrain. Geo-PUMMA gathers spatial information maps (e.g. cadastral, soil types, geology and digital elevation models) to produce Hydrological Response Units (HRU) and Urban Hydrological Elements (UHE). Geo-PUMMA includes tools to improve the initial mesh derived from GIS layers intersection in order to respect geometrical constraints, which ensures numerical stability while preserving the shape of the initial HRUs and minimizing the small elements to lower computing times. The geometrical constraints taken into account include: elements convexity, limitation of the number of sliver elements (e.g. roads) and of very small or very large elements. This toolbox allows the representation of basins at small scales (0.1-10km2), as it takes into account the hydrological connectivity of the main elements explicitly, and improves the representation of water pathways compared with classical raster approaches. Geo-PUMMA also allows the extraction of basin morphologic properties such as the width function, the area function and the imperviousness function. We applied this new toolbox to two periurban catchments: the Mercier catchment located near Lyon, France, and the Estero El Guindo catchment located in the Andean piedmont in the Maipo River, Chile. We use the capability of Geo-PUMMA to generate three different meshes. The first one is the initial mesh derived from the direct intersection of GIS layers. The second one is based on fine triangulation of HRUs and is considered the best one we can obtain (reference mesh). The third one is the recommended mesh, preserving the shape of the initial HRUs and limiting the number of elements. The representation of the drainage network and its morphological properties is compared between the three meshes. This comparison shows that the drainage network representation is particularly improved at small to medium spatial scales when using the recommended meshes (i.e. 120-150 m for the El Guindo catchment and 80-150 m for the Mercier catchment). The results also show that the recommended mesh correctly represents the main features of the drainage network as compared to the reference mesh. KEYWORDS: GRASS-GIS, Computer-assisted mesh generation, periurban catchments

Diffuse interface simulation of bubble rising process: a comparison of adaptive mesh refinement and arbitrary lagrange-euler methods

NASA Astrophysics Data System (ADS)

Wang, Ye; Cai, Jiejin; Li, Qiong; Yin, Huaqiang; Yang, Xingtuan

2018-06-01

Gas-liquid two phase flow exists in several industrial processes and light-water reactors (LWRs). A diffuse interface based finite element method with two different mesh generation methods namely, the Adaptive Mesh Refinement (AMR) and the Arbitrary Lagrange Euler (ALE) methods is used to model the shape and velocity changes in a rising bubble. Moreover, the calculating speed and mesh generation strategies of AMR and ALE are contrasted. The simulation results agree with the Bhagat's experiments, indicating that both mesh generation methods can simulate the characteristics of bubble accurately. We concluded that: the small bubble rises as elliptical with oscillation, whereas a larger bubble (11 mm > d > 7 mm) rises with a morphology between the elliptical and cap type with a larger oscillation. When the bubble is large (d > 11 mm), it rises up as a cap type, and the amplitude becomes smaller. Moreover, it takes longer to achieve the stable shape from the ellipsoid to the spherical cap type with the increase of the bubble diameter. The results also show that for smaller diameter case, the ALE method uses fewer grids and has a faster calculation speed, but the AMR method can solve the case of a large geometry deformation efficiently.

Cell Adhesion Minimization by a Novel Mesh Culture Method Mechanically Directs Trophoblast Differentiation and Self-Assembly Organization of Human Pluripotent Stem Cells.

PubMed

Okeyo, Kennedy Omondi; Kurosawa, Osamu; Yamazaki, Satoshi; Oana, Hidehiro; Kotera, Hidetoshi; Nakauchi, Hiromitsu; Washizu, Masao

2015-10-01

Mechanical methods for inducing differentiation and directing lineage specification will be instrumental in the application of pluripotent stem cells. Here, we demonstrate that minimization of cell-substrate adhesion can initiate and direct the differentiation of human pluripotent stem cells (hiPSCs) into cyst-forming trophoblast lineage cells (TLCs) without stimulation with cytokines or small molecules. To precisely control cell-substrate adhesion area, we developed a novel culture method where cells are cultured on microstructured mesh sheets suspended in a culture medium such that cells on mesh are completely out of contact with the culture dish. We used microfabricated mesh sheets that consisted of open meshes (100∼200 μm in pitch) with narrow mesh strands (3-5 μm in width) to provide support for initial cell attachment and growth. We demonstrate that minimization of cell adhesion area achieved by this culture method can trigger a sequence of morphogenetic transformations that begin with individual hiPSCs attached on the mesh strands proliferating to form cell sheets by self-assembly organization and ultimately differentiating after 10-15 days of mesh culture to generate spherical cysts that secreted human chorionic gonadotropin (hCG) hormone and expressed caudal-related homeobox 2 factor (CDX2), a specific marker of trophoblast lineage. Thus, this study demonstrates a simple and direct mechanical approach to induce trophoblast differentiation and generate cysts for application in the study of early human embryogenesis and drug development and screening.

Design of an essentially non-oscillatory reconstruction procedure on finite-element type meshes

NASA Technical Reports Server (NTRS)

Abgrall, R.

1991-01-01

An essentially non-oscillatory reconstruction for functions defined on finite-element type meshes was designed. Two related problems are studied: the interpolation of possibly unsmooth multivariate functions on arbitrary meshes and the reconstruction of a function from its average in the control volumes surrounding the nodes of the mesh. Concerning the first problem, we have studied the behavior of the highest coefficients of the Lagrange interpolation function which may admit discontinuities of locally regular curves. This enables us to choose the best stencil for the interpolation. The choice of the smallest possible number of stencils is addressed. Concerning the reconstruction problem, because of the very nature of the mesh, the only method that may work is the so called reconstruction via deconvolution method. Unfortunately, it is well suited only for regular meshes as we show, but we also show how to overcome this difficulty. The global method has the expected order of accuracy but is conservative up to a high order quadrature formula only. Some numerical examples are given which demonstrate the efficiency of the method.

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.

Cost Effectiveness Study of Wastewater Management Systems for Selected U.S. Coast Guard Vessels. Volume 3. Installation Analysis. Part 5. White Sage (133 Feet)

DTIC Science & Technology

1977-02-01

located in a wire mesh enclosure in the center of the hold. The cargo boom hydraulic tank is located in the port aft corner of the hold. The rcmainder...2, there may be minor modifications required to the shelving on the starboard side (along the I shell of the vessel) and the wire mesh eculosure...along the shell of the vessel) and the wire mesh enclosure for the ship’s dry stores on the centerline of the vessel (between Frames 9 and 10). 24 NOW oI

Towards a theory of automated elliptic mesh generation

NASA Technical Reports Server (NTRS)

Cordova, J. Q.

1992-01-01

The theory of elliptic mesh generation is reviewed and the fundamental problem of constructing computational space is discussed. It is argued that the construction of computational space is an NP-Complete problem and therefore requires a nonstandard approach for its solution. This leads to the development of graph-theoretic, combinatorial optimization and integer programming algorithms. Methods for the construction of two dimensional computational space are presented.

A second-order accurate finite volume scheme with the discrete maximum principle for solving Richards’ equation on unstructured meshes

DOE PAGES

Svyatsky, Daniil; Lipnikov, Konstantin

2017-03-18

Richards’s equation describes steady-state or transient flow in a variably saturated medium. For a medium having multiple layers of soils that are not aligned with coordinate axes, a mesh fitted to these layers is no longer orthogonal and the classical two-point flux approximation finite volume scheme is no longer accurate. Here, we propose new second-order accurate nonlinear finite volume (NFV) schemes for the head and pressure formulations of Richards’ equation. We prove that the discrete maximum principles hold for both formulations at steady-state which mimics similar properties of the continuum solution. The second-order accuracy is achieved using high-order upwind algorithmsmore » for the relative permeability. Numerical simulations of water infiltration into a dry soil show significant advantage of the second-order NFV schemes over the first-order NFV schemes even on coarse meshes. Since explicit calculation of the Jacobian matrix becomes prohibitively expensive for high-order schemes due to build-in reconstruction and slope limiting algorithms, we study numerically the preconditioning strategy introduced recently in Lipnikov et al. (2016) that uses a stable approximation of the continuum Jacobian. Lastly, numerical simulations show that the new preconditioner reduces computational cost up to 2–3 times in comparison with the conventional preconditioners.« less

A second-order accurate finite volume scheme with the discrete maximum principle for solving Richards’ equation on unstructured meshes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Svyatsky, Daniil; Lipnikov, Konstantin

Richards’s equation describes steady-state or transient flow in a variably saturated medium. For a medium having multiple layers of soils that are not aligned with coordinate axes, a mesh fitted to these layers is no longer orthogonal and the classical two-point flux approximation finite volume scheme is no longer accurate. Here, we propose new second-order accurate nonlinear finite volume (NFV) schemes for the head and pressure formulations of Richards’ equation. We prove that the discrete maximum principles hold for both formulations at steady-state which mimics similar properties of the continuum solution. The second-order accuracy is achieved using high-order upwind algorithmsmore » for the relative permeability. Numerical simulations of water infiltration into a dry soil show significant advantage of the second-order NFV schemes over the first-order NFV schemes even on coarse meshes. Since explicit calculation of the Jacobian matrix becomes prohibitively expensive for high-order schemes due to build-in reconstruction and slope limiting algorithms, we study numerically the preconditioning strategy introduced recently in Lipnikov et al. (2016) that uses a stable approximation of the continuum Jacobian. Lastly, numerical simulations show that the new preconditioner reduces computational cost up to 2–3 times in comparison with the conventional preconditioners.« less

Laparoscopic repair of incisional and ventral hernias with the new type of meshes: randomized control trial.

PubMed

Grubnik, Vladimir V; Grubnik, Aleksandra V; Vorotyntseva, Kseniya O

2014-06-01

Laparoscopic incisional and ventral hernia repair (LIVHR) was first reported by Le Blanc and Booth in 1993. Many studies are available in the literature that have shown that laparoscopic repair of incisional and ventral hernia is preferred over open repair because of lower recurrence rates (less than 10%), less wound morbidity, less pain, and early return to work. To identify the long-term outcomes between the different types of meshes and two techniques of mesh fixation, i.e., tacks (method Double crown) and transfascial polypropylene sutures. A total of 92 patients underwent LIVHR at our department between January 2009 and August 2012. The hernias were umbilical in 26 patients, paraumbilical in 15 patients and incisional in 51 patients. All patients admitted for LIVHR were randomized to either group I (tacker fixation of ePTFE meshes) or group II (suture fixation of meshes with nitinol frame) using computer-generated random numbers with block randomization and sealed envelopes for concealed allocation. The mean mesh fixation time was significantly higher in the tacker fixation group (117 ±15 min vs. 72 ±6 min, p < 0.01). There were no conversions in either group. The median postoperative hospital stay was 3.5 ±1.5 days. All patients were followed up at 1, 3, 6, 12 and every 6 months thereafter postoperatively. There were 5 recurrences in the study population. In group I there were 4 patients with recurrence, and only 1 patient in the group with meshes with a nitinol frame. Meshes of the new generation with a nitinol framework can significantly improve laparoscopic ventral hernia repair. The fixation of these meshes is very simple using 3-4 transfascial sutures. The absence of shrinkage of these meshes makes the probability of recurrence minimal. Absence of tackers allows postoperative pain to be minimized. We consider that these new meshes can significantly improve laparoscopic ventral hernia repair.

Automated Generation of Finite-Element Meshes for Aircraft Conceptual Design

NASA Technical Reports Server (NTRS)

Li, Wu; Robinson, Jay

2016-01-01

This paper presents a novel approach for automated generation of fully connected finite-element meshes for all internal structural components and skins of a given wing-body geometry model, controlled by a few conceptual-level structural layout parameters. Internal structural components include spars, ribs, frames, and bulkheads. Structural layout parameters include spar/rib locations in wing chordwise/spanwise direction and frame/bulkhead locations in longitudinal direction. A simple shell thickness optimization problem with two load conditions is used to verify versatility and robustness of the automated meshing process. The automation process is implemented in ModelCenter starting from an OpenVSP geometry and ending with a NASTRAN 200 solution. One subsonic configuration and one supersonic configuration are used for numerical verification. Two different structural layouts are constructed for each configuration and five finite-element meshes of different sizes are generated for each layout. The paper includes various comparisons of solutions of 20 thickness optimization problems, as well as discussions on how the optimal solutions are affected by the stress constraint bound and the initial guess of design variables.

Dose gradient curve: A new tool for evaluating dose gradient.

PubMed

Sung, KiHoon; Choi, Young Eun

2018-01-01

Stereotactic radiotherapy, which delivers an ablative high radiation dose to a target volume for maximum local tumor control, requires a rapid dose fall-off outside the target volume to prevent extensive damage to nearby normal tissue. Currently, there is no tool to comprehensively evaluate the dose gradient near the target volume. We propose the dose gradient curve (DGC) as a new tool to evaluate the quality of a treatment plan with respect to the dose fall-off characteristics. The average distance between two isodose surfaces was represented by the dose gradient index (DGI) estimated by a simple equation using the volume and surface area of isodose levels. The surface area was calculated by mesh generation and surface triangulation. The DGC was defined as a plot of the DGI of each dose interval as a function of the dose. Two types of DGCs, differential and cumulative, were generated. The performance of the DGC was evaluated using stereotactic radiosurgery plans for virtual targets. Over the range of dose distributions, the dose gradient of each dose interval was well-characterized by the DGC in an easily understandable graph format. Significant changes in the DGC were observed reflecting the differences in planning situations and various prescription doses. The DGC is a rational method for visualizing the dose gradient as the average distance between two isodose surfaces; the shorter the distance, the steeper the dose gradient. By combining the DGC with the dose-volume histogram (DVH) in a single plot, the DGC can be utilized to evaluate not only the dose gradient but also the target coverage in routine clinical practice.

Speed-up of the volumetric method of moments for the approximate RCS of large arbitrary-shaped dielectric targets

NASA Astrophysics Data System (ADS)

Moreno, Javier; Somolinos, Álvaro; Romero, Gustavo; González, Iván; Cátedra, Felipe

2017-08-01

A method for the rigorous computation of the electromagnetic scattering of large dielectric volumes is presented. One goal is to simplify the analysis of large dielectric targets with translational symmetries taken advantage of their Toeplitz symmetry. Then, the matrix-fill stage of the Method of Moments is efficiently obtained because the number of coupling terms to compute is reduced. The Multilevel Fast Multipole Method is applied to solve the problem. Structured meshes are obtained efficiently to approximate the dielectric volumes. The regular mesh grid is achieved by using parallelepipeds whose centres have been identified as internal to the target. The ray casting algorithm is used to classify the parallelepiped centres. It may become a bottleneck when too many points are evaluated in volumes defined by parametric surfaces, so a hierarchical algorithm is proposed to minimize the number of evaluations. Measurements and analytical results are included for validation purposes.

Practical implementation of tetrahedral mesh reconstruction in emission tomography

PubMed Central

Boutchko, R.; Sitek, A.; Gullberg, G. T.

2014-01-01

This paper presents a practical implementation of image reconstruction on tetrahedral meshes optimized for emission computed tomography with parallel beam geometry. Tetrahedral mesh built on a point cloud is a convenient image representation method, intrinsically three-dimensional and with a multi-level resolution property. Image intensities are defined at the mesh nodes and linearly interpolated inside each tetrahedron. For the given mesh geometry, the intensities can be computed directly from tomographic projections using iterative reconstruction algorithms with a system matrix calculated using an exact analytical formula. The mesh geometry is optimized for a specific patient using a two stage process. First, a noisy image is reconstructed on a finely-spaced uniform cloud. Then, the geometry of the representation is adaptively transformed through boundary-preserving node motion and elimination. Nodes are removed in constant intensity regions, merged along the boundaries, and moved in the direction of the mean local intensity gradient in order to provide higher node density in the boundary regions. Attenuation correction and detector geometric response are included in the system matrix. Once the mesh geometry is optimized, it is used to generate the final system matrix for ML-EM reconstruction of node intensities and for visualization of the reconstructed images. In dynamic PET or SPECT imaging, the system matrix generation procedure is performed using a quasi-static sinogram, generated by summing projection data from multiple time frames. This system matrix is then used to reconstruct the individual time frame projections. Performance of the new method is evaluated by reconstructing simulated projections of the NCAT phantom and the method is then applied to dynamic SPECT phantom and patient studies and to a dynamic microPET rat study. Tetrahedral mesh-based images are compared to the standard voxel-based reconstruction for both high and low signal-to-noise ratio projection datasets. The results demonstrate that the reconstructed images represented as tetrahedral meshes based on point clouds offer image quality comparable to that achievable using a standard voxel grid while allowing substantial reduction in the number of unknown intensities to be reconstructed and reducing the noise. PMID:23588373

Practical implementation of tetrahedral mesh reconstruction in emission tomography

NASA Astrophysics Data System (ADS)

Boutchko, R.; Sitek, A.; Gullberg, G. T.

2013-05-01

This paper presents a practical implementation of image reconstruction on tetrahedral meshes optimized for emission computed tomography with parallel beam geometry. Tetrahedral mesh built on a point cloud is a convenient image representation method, intrinsically three-dimensional and with a multi-level resolution property. Image intensities are defined at the mesh nodes and linearly interpolated inside each tetrahedron. For the given mesh geometry, the intensities can be computed directly from tomographic projections using iterative reconstruction algorithms with a system matrix calculated using an exact analytical formula. The mesh geometry is optimized for a specific patient using a two stage process. First, a noisy image is reconstructed on a finely-spaced uniform cloud. Then, the geometry of the representation is adaptively transformed through boundary-preserving node motion and elimination. Nodes are removed in constant intensity regions, merged along the boundaries, and moved in the direction of the mean local intensity gradient in order to provide higher node density in the boundary regions. Attenuation correction and detector geometric response are included in the system matrix. Once the mesh geometry is optimized, it is used to generate the final system matrix for ML-EM reconstruction of node intensities and for visualization of the reconstructed images. In dynamic PET or SPECT imaging, the system matrix generation procedure is performed using a quasi-static sinogram, generated by summing projection data from multiple time frames. This system matrix is then used to reconstruct the individual time frame projections. Performance of the new method is evaluated by reconstructing simulated projections of the NCAT phantom and the method is then applied to dynamic SPECT phantom and patient studies and to a dynamic microPET rat study. Tetrahedral mesh-based images are compared to the standard voxel-based reconstruction for both high and low signal-to-noise ratio projection datasets. The results demonstrate that the reconstructed images represented as tetrahedral meshes based on point clouds offer image quality comparable to that achievable using a standard voxel grid while allowing substantial reduction in the number of unknown intensities to be reconstructed and reducing the noise.

Numerical modeling of landslide-generated tsunami using adaptive unstructured meshes

NASA Astrophysics Data System (ADS)

Wilson, Cian; Collins, Gareth; Desousa Costa, Patrick; Piggott, Matthew

2010-05-01

Landslides impacting into or occurring under water generate waves, which can have devastating environmental consequences. Depending on the characteristics of the landslide the waves can have significant amplitude and potentially propagate over large distances. Linear models of classical earthquake-generated tsunamis cannot reproduce the highly nonlinear generation mechanisms required to accurately predict the consequences of landslide-generated tsunamis. Also, laboratory-scale experimental investigation is limited to simple geometries and short time-scales before wave reflections contaminate the data. Computational fluid dynamics models based on the nonlinear Navier-Stokes equations can simulate landslide-tsunami generation at realistic scales. However, traditional chessboard-like structured meshes introduce superfluous resolution and hence the computing power required for such a simulation can be prohibitively high, especially in three dimensions. Unstructured meshes allow the grid spacing to vary rapidly from high resolution in the vicinity of small scale features to much coarser, lower resolution in other areas. Combining this variable resolution with dynamic mesh adaptivity allows such high resolution zones to follow features like the interface between the landslide and the water whilst minimising the computational costs. Unstructured meshes are also better suited to representing complex geometries and bathymetries allowing more realistic domains to be simulated. Modelling multiple materials, like water, air and a landslide, on an unstructured adaptive mesh poses significant numerical challenges. Novel methods of interface preservation must be considered and coupled to a flow model in such a way that ensures conservation of the different materials. Furthermore this conservation property must be maintained during successive stages of mesh optimisation and interpolation. In this paper we validate a new multi-material adaptive unstructured fluid dynamics model against the well-known Lituya Bay landslide-generated wave experiment and case study [1]. In addition, we explore the effect of physical parameters, such as the shape, velocity and viscosity of the landslide, on wave amplitude and run-up, to quantify their influence on the landslide-tsunami hazard. As well as reproducing the experimental results, the model is shown to have excellent conservation and bounding properties. It also requires fewer nodes than an equivalent resolution fixed mesh simulation, therefore minimising at least one aspect of the computational cost. These computational savings are directly transferable to higher dimensions and some initial three dimensional results are also presented. These reproduce the experiments of DiRisio et al. [2], where an 80cm long landslide analogue was released from the side of an 8.9m diameter conical island in a 50 × 30m tank of water. The resulting impact between the landslide and the water generated waves with an amplitude of 1cm at wave gauges around the island. The range of scales that must be considered in any attempt to numerically reproduce this experiment makes it an ideal case study for our multi-material adaptive unstructured fluid dynamics model. [1] FRITZ, H. M., MOHAMMED, F., & YOO, J. 2009. Lituya Bay Landslide Impact Generated Mega-Tsunami 50th Anniversary. Pure and Applied Geophysics, 166(1), 153-175. [2] DIRISIO, M., DEGIROLAMO, P., BELLOTTI, G., PANIZZO, A., ARISTODEMO, F.,

On the Use of CAD-Native Predicates and Geometry in Surface Meshing

NASA Technical Reports Server (NTRS)

Aftosmis, M. J.

1999-01-01

Several paradigms for accessing computer-aided design (CAD) geometry during surface meshing for computational fluid dynamics are discussed. File translation, inconsistent geometry engines, and nonnative point construction are all identified as sources of nonrobustness. The paper argues in favor of accessing CAD parts and assemblies in their native format, without translation, and for the use of CAD-native predicates and constructors in surface mesh generation. The discussion also emphasizes the importance of examining the computational requirements for exact evaluation of triangulation predicates during surface meshing.

Numerical analysis method for linear induction machines.

NASA Technical Reports Server (NTRS)

Elliott, D. G.

1972-01-01

A numerical analysis method has been developed for linear induction machines such as liquid metal MHD pumps and generators and linear motors. Arbitrary phase currents or voltages can be specified and the moving conductor can have arbitrary velocity and conductivity variations from point to point. The moving conductor is divided into a mesh and coefficients are calculated for the voltage induced at each mesh point by unit current at every other mesh point. Combining the coefficients with the mesh resistances yields a set of simultaneous equations which are solved for the unknown currents.

Runge-Kutta discontinuous Galerkin method using a new type of WENO limiters on unstructured meshes

NASA Astrophysics Data System (ADS)

Zhu, Jun; Zhong, Xinghui; Shu, Chi-Wang; Qiu, Jianxian

2013-09-01

In this paper we generalize a new type of limiters based on the weighted essentially non-oscillatory (WENO) finite volume methodology for the Runge-Kutta discontinuous Galerkin (RKDG) methods solving nonlinear hyperbolic conservation laws, which were recently developed in [32] for structured meshes, to two-dimensional unstructured triangular meshes. The key idea of such limiters is to use the entire polynomials of the DG solutions from the troubled cell and its immediate neighboring cells, and then apply the classical WENO procedure to form a convex combination of these polynomials based on smoothness indicators and nonlinear weights, with suitable adjustments to guarantee conservation. The main advantage of this new limiter is its simplicity in implementation, especially for the unstructured meshes considered in this paper, as only information from immediate neighbors is needed and the usage of complicated geometric information of the meshes is largely avoided. Numerical results for both scalar equations and Euler systems of compressible gas dynamics are provided to illustrate the good performance of this procedure.

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 from the sudden high-velocity inflow of gas and ash; the formation of a particle-laden plume rising several hundred metres into the atmosphere; the eventual collapse of the plume which generates a volcanic ash fountain and a fast ground-hugging pyroclastic density current; and the growth of a dilute convective region that rises above the ash fountain as a result of buoyancy effects. The results from Fluidity are also compared with results from MFIX, a fixed structured mesh-based multiphase flow code, that uses the same set-up. The key flow features are also captured in MFIX, providing at least some confidence in the plausibility of the numerical results in the absence of quantitative field data. Finally, it is shown by a convergence analysis that Fluidity offers the same solution accuracy for reduced computational cost using an adaptive mesh, compared to the same simulation performed with a uniform fixed mesh.

Research on Finite Element Model Generating Method of General Gear Based on Parametric Modelling

NASA Astrophysics Data System (ADS)

Lei, Yulong; Yan, Bo; Fu, Yao; Chen, Wei; Hou, Liguo

2017-06-01

Aiming at the problems of low efficiency and poor quality of gear meshing in the current mainstream finite element software, through the establishment of universal gear three-dimensional model, and explore the rules of unit and node arrangement. In this paper, a finite element model generation method of universal gear based on parameterization is proposed. Visual Basic program is used to realize the finite element meshing, give the material properties, and set the boundary / load conditions and other pre-processing work. The dynamic meshing analysis of the gears is carried out with the method proposed in this pape, and compared with the calculated values to verify the correctness of the method. The method greatly shortens the workload of gear finite element pre-processing, improves the quality of gear mesh, and provides a new idea for the FEM pre-processing.

DETERIORATION IN BIOMECHANICAL PROPERTIES OF THE VAGINA FOLLOWING IMPLANTATION OF A HIGH STIFFNESS PROLAPSE MESH

PubMed Central

Feola, Andrew; Abramowitch, Steven; Jallah, Zegbeh; Stein, Suzan; Barone, William; Palcsey, Stacy; Moalli, Pamela

2012-01-01

Objective Define the impact of prolapse mesh on the biomechanical properties of the vagina by comparing the prototype Gynemesh PS (Ethicon, Somerville, NJ) to 2 new generation lower stiffness meshes, SmartMesh (Coloplast, Minneapolis, MN) and UltraPro (Ethicon). Design A study employing a non-human primate model Setting University of Pittsburgh Population 45 parous rhesus macaques Methods Meshes were implanted via sacrocolpexy after hysterectomy and compared to Sham. Because its stiffness is highly directional UltraPro was implanted in two directions: UltraPro Perpendicular (less stiff) and UltraPro Parallel (more stiff), with the indicated direction referring to the blue orientation lines. The mesh-vaginal complex (MVC) was excised en toto after 3 months. Main Outcome Measures Active mechanical properties were quantified as contractile force generated in the presence of 120 mM KCl. Passive mechanical properties (a tissues ability to resist an applied force) were measured using a multi-axial protocol. Results Vaginal contractility decreased 80% following implantation with the Gynemesh PS (p=0.001), 48% after SmartMesh (p=0.001), 68% after UltraPro parallel (p=0.001) and was highly variable after UltraPro perpendicular (p =0.16). The tissue contribution to the passive mechanical behavior of the MVC was drastically reduced for Gynemesh PS (p=0.003) but not SmartMesh (p=0.9) or UltraPro independent of the direction of implantation (p=0.68 and p=0.66, respectively). Conclusions Deterioration of the mechanical properties of the vagina was highest following implantation with the stiffest mesh, Gynemesh PS. Such a decrease associated with implantation of a device of increased stiffness is consistent with findings from other systems employing prostheses for support. PMID:23240801

Deterioration in biomechanical properties of the vagina following implantation of a high-stiffness prolapse mesh.

PubMed

Feola, A; Abramowitch, S; Jallah, Z; Stein, S; Barone, W; Palcsey, S; Moalli, P

2013-01-01

To define the impact of prolapse mesh on the biomechanical properties of the vagina by comparing the prototype Gynemesh PS (Ethicon) to two new-generation lower stiffness meshes, SmartMesh (Coloplast) and UltraPro (Ethicon). A study employing a nonhuman primate model. University of Pittsburgh, PA, USA. Forty-five parous rhesus macaques. Meshes were implanted via sacrocolpopexy after hysterectomy and compared with sham. Because its stiffness is highly directional, UltraPro was implanted in two directions: UltraPro Perpendicular (less stiff) and UltraPro Parallel (more stiff), with the indicated direction referring to the position of the blue orientation lines relative to the longitudinal axis of the vagina. The mesh-vaginal complex (MVC) was excised in toto after 3 months. Active mechanical properties were quantified as the contractile force generated in the presence of 120 mmol/l KCl. Passive mechanical properties (a tissue's ability to resist an applied force) were measured using a multiaxial protocol. Vaginal contractility decreased by 80% following implantation with the Gynemesh PS (P = 0.001), 48% after SmartMesh (P = 0.001), 68% after UltraPro Parallel (P = 0.001) and was highly variable after UltraPro Perpendicular (P = 0.16). The tissue contribution to the passive mechanical behaviour of the MVC was drastically reduced for Gynemesh PS (P = 0.003), but not for SmartMesh (P = 0.9) or UltraPro independent of the direction of implantation (P = 0.68 and P = 0.66, respectively). Deterioration of the mechanical properties of the vagina was highest following implantation with the stiffest mesh, Gynemesh PS. Such a decrease associated with implantation of a device of increased stiffness is consistent with findings from other systems employing prostheses for support. © 2013 The Authors BJOG An International Journal of Obstetrics and Gynaecology © 2013 RCOG.

Extending a CAD-Based Cartesian Mesh Generator for the Lattice Boltzmann Method

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cantrell, J Nathan; Inclan, Eric J; Joshi, Abhijit S

2012-01-01

This paper describes the development of a custom preprocessor for the PaRAllel Thermal Hydraulics simulations using Advanced Mesoscopic methods (PRATHAM) code based on an open-source mesh generator, CartGen [1]. PRATHAM is a three-dimensional (3D) lattice Boltzmann method (LBM) based parallel flow simulation software currently under development at the Oak Ridge National Laboratory. The LBM algorithm in PRATHAM requires a uniform, coordinate system-aligned, non-body-fitted structured mesh for its computational domain. CartGen [1], which is a GNU-licensed open source code, already comes with some of the above needed functionalities. However, it needs to be further extended to fully support the LBM specificmore » preprocessing requirements. Therefore, CartGen is being modified to (i) be compiler independent while converting a neutral-format STL (Stereolithography) CAD geometry to a uniform structured Cartesian mesh, (ii) provide a mechanism for PRATHAM to import the mesh and identify the fluid/solid domains, and (iii) provide a mechanism to visually identify and tag the domain boundaries on which to apply different boundary conditions.« less

Capu and Spire assemble a cytoplasmic actin mesh that maintains microtubule organization in the Drosophila oocyte.

PubMed

Dahlgaard, Katja; Raposo, Alexandre A S F; Niccoli, Teresa; St Johnston, Daniel

2007-10-01

Mutants in the actin nucleators Cappuccino and Spire disrupt the polarized microtubule network in the Drosophila oocyte that defines the anterior-posterior axis, suggesting that microtubule organization depends on actin. Here, we show that Cappuccino and Spire organize an isotropic mesh of actin filaments in the oocyte cytoplasm. capu and spire mutants lack this mesh, whereas overexpressed truncated Cappuccino stabilizes the mesh in the presence of Latrunculin A and partially rescues spire mutants. Spire overexpression cannot rescue capu mutants, but prevents actin mesh disassembly at stage 10B and blocks late cytoplasmic streaming. We also show that the actin mesh regulates microtubules indirectly, by inhibiting kinesin-dependent cytoplasmic flows. Thus, the Capu pathway controls alternative states of the oocyte cytoplasm: when active, it assembles an actin mesh that suppresses kinesin motility to maintain a polarized microtubule cytoskeleton. When inactive, unrestrained kinesin movement generates flows that wash microtubules to the cortex.

Generating a Simulated Fluid Flow over a Surface Using Anisotropic Diffusion

NASA Technical Reports Server (NTRS)

Rodriguez, David L. (Inventor); Sturdza, Peter (Inventor)

2016-01-01

A fluid-flow simulation over a computer-generated surface is generated using a diffusion technique. The surface is comprised of a surface mesh of polygons. A boundary-layer fluid property is obtained for a subset of the polygons of the surface mesh. A gradient vector is determined for a selected polygon, the selected polygon belonging to the surface mesh but not one of the subset of polygons. A maximum and minimum diffusion rate is determined along directions determined using the gradient vector corresponding to the selected polygon. A diffusion-path vector is defined between a point in the selected polygon and a neighboring point in a neighboring polygon. An updated fluid property is determined for the selected polygon using a variable diffusion rate, the variable diffusion rate based on the minimum diffusion rate, maximum diffusion rate, and the gradient vector.

Analysis of dynamic behavior of multiple-stage planetary gear train used in wind driven generator.

PubMed

Wang, Jungang; Wang, Yong; Huo, Zhipu

2014-01-01

A dynamic model of multiple-stage planetary gear train composed of a two-stage planetary gear train and a one-stage parallel axis gear is proposed to be used in wind driven generator to analyze the influence of revolution speed and mesh error on dynamic load sharing characteristic based on the lumped parameter theory. Dynamic equation of the model is solved using numerical method to analyze the uniform load distribution of the system. It is shown that the load sharing property of the system is significantly affected by mesh error and rotational speed; load sharing coefficient and change rate of internal and external meshing of the system are of obvious difference from each other. The study provides useful theoretical guideline for the design of the multiple-stage planetary gear train of wind driven generator.

Analysis of Dynamic Behavior of Multiple-Stage Planetary Gear Train Used in Wind Driven Generator

PubMed Central

Wang, Jungang; Wang, Yong; Huo, Zhipu

2014-01-01

A dynamic model of multiple-stage planetary gear train composed of a two-stage planetary gear train and a one-stage parallel axis gear is proposed to be used in wind driven generator to analyze the influence of revolution speed and mesh error on dynamic load sharing characteristic based on the lumped parameter theory. Dynamic equation of the model is solved using numerical method to analyze the uniform load distribution of the system. It is shown that the load sharing property of the system is significantly affected by mesh error and rotational speed; load sharing coefficient and change rate of internal and external meshing of the system are of obvious difference from each other. The study provides useful theoretical guideline for the design of the multiple-stage planetary gear train of wind driven generator. PMID:24511295

Large-eddy simulation of propeller noise

NASA Astrophysics Data System (ADS)

Keller, Jacob; Mahesh, Krishnan

2016-11-01

We will discuss our ongoing work towards developing the capability to predict far field sound from the large-eddy simulation of propellers. A porous surface Ffowcs-Williams and Hawkings (FW-H) acoustic analogy, with a dynamic endcapping method (Nitzkorski and Mahesh, 2014) is developed for unstructured grids in a rotating frame of reference. The FW-H surface is generated automatically using Delaunay triangulation and is representative of the underlying volume mesh. The approach is validated for tonal trailing edge sound from a NACA 0012 airfoil. LES of flow around a propeller at design advance ratio is compared to experiment and good agreement is obtained. Results for the emitted far field sound will be discussed. This work is supported by ONR.

Spectral-element simulations of wave propagation in complex exploration-industry models: Mesh generation and forward simulations

NASA Astrophysics Data System (ADS)

Nissen-Meyer, T.; Luo, Y.; Morency, C.; Tromp, J.

2008-12-01

Seismic-wave propagation in exploration-industry settings has seen major research and development efforts for decades, yet large-scale applications have often been limited to 2D or 3D finite-difference, (visco- )acoustic wave propagation due to computational limitations. We explore the possibility of including all relevant physical signatures in the wavefield using the spectral- element method (SPECFEM3D, SPECFEM2D), thereby accounting for acoustic, (visco-)elastic, poroelastic, anisotropic wave propagation in meshes which honor all crucial discontinuities. Mesh design is the crux of the problem, and we use CUBIT (Sandia Laboratories) to generate unstructured quadrilateral 2D and hexahedral 3D meshes for these complex background models. While general hexahedral mesh generation is an unresolved problem, we are able to accommodate most of the relevant settings (e.g., layer-cake models, salt bodies, overthrusting faults, and strong topography) with respectively tailored workflows. 2D simulations show localized, characteristic wave effects due to these features that shall be helpful in designing survey acquisition geometries in a relatively economic fashion. We address some of the fundamental issues this comprehensive modeling approach faces regarding its feasibility: Assessing geological structures in terms of the necessity to honor the major structural units, appropriate velocity model interpolation, quality control of the resultant mesh, and computational cost for realistic settings up to frequencies of 40 Hz. The solution to this forward problem forms the basis for subsequent 2D and 3D adjoint tomography within this context, which is the subject of a companion paper.

Microscreen radiation shield for thermoelectric generator

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hunt, T.K.; Novak, R.F.; McBride, J.R.

1990-08-14

This patent describes a radiation shield adapted to be interposed between a reaction zone and a means for condensing an alkali metal vapor in a thermoelectric generator for converting heat energy directly to electrical energy. The radiation shield comprises woven wire mesh screen, the spacing between the wires forming the mesh screen being such that the radiation shield reflects thermal radiation while permitting the passage of alkali metal vapor therethrough.

Real-time terrain storage generation from multiple sensors towards mobile robot operation interface.

PubMed

Song, Wei; Cho, Seoungjae; Xi, Yulong; Cho, Kyungeun; Um, Kyhyun

2014-01-01

A mobile robot mounted with multiple sensors is used to rapidly collect 3D point clouds and video images so as to allow accurate terrain modeling. In this study, we develop a real-time terrain storage generation and representation system including a nonground point database (PDB), ground mesh database (MDB), and texture database (TDB). A voxel-based flag map is proposed for incrementally registering large-scale point clouds in a terrain model in real time. We quantize the 3D point clouds into 3D grids of the flag map as a comparative table in order to remove the redundant points. We integrate the large-scale 3D point clouds into a nonground PDB and a node-based terrain mesh using the CPU. Subsequently, we program a graphics processing unit (GPU) to generate the TDB by mapping the triangles in the terrain mesh onto the captured video images. Finally, we produce a nonground voxel map and a ground textured mesh as a terrain reconstruction result. Our proposed methods were tested in an outdoor environment. Our results show that the proposed system was able to rapidly generate terrain storage and provide high resolution terrain representation for mobile mapping services and a graphical user interface between remote operators and mobile robots.

Real-Time Terrain Storage Generation from Multiple Sensors towards Mobile Robot Operation Interface

PubMed Central

Cho, Seoungjae; Xi, Yulong; Cho, Kyungeun

2014-01-01

A mobile robot mounted with multiple sensors is used to rapidly collect 3D point clouds and video images so as to allow accurate terrain modeling. In this study, we develop a real-time terrain storage generation and representation system including a nonground point database (PDB), ground mesh database (MDB), and texture database (TDB). A voxel-based flag map is proposed for incrementally registering large-scale point clouds in a terrain model in real time. We quantize the 3D point clouds into 3D grids of the flag map as a comparative table in order to remove the redundant points. We integrate the large-scale 3D point clouds into a nonground PDB and a node-based terrain mesh using the CPU. Subsequently, we program a graphics processing unit (GPU) to generate the TDB by mapping the triangles in the terrain mesh onto the captured video images. Finally, we produce a nonground voxel map and a ground textured mesh as a terrain reconstruction result. Our proposed methods were tested in an outdoor environment. Our results show that the proposed system was able to rapidly generate terrain storage and provide high resolution terrain representation for mobile mapping services and a graphical user interface between remote operators and mobile robots. PMID:25101321

Accuracy of methods for calculating volumetric wear from coordinate measuring machine data of retrieved metal-on-metal hip joint implants.

PubMed

Lu, Zhen; McKellop, Harry A

2014-03-01

This study compared the accuracy and sensitivity of several numerical methods employing spherical or plane triangles for calculating the volumetric wear of retrieved metal-on-metal hip joint implants from coordinate measuring machine measurements. Five methods, one using spherical triangles and four using plane triangles to represent the bearing and the best-fit surfaces, were assessed and compared on a perfect hemisphere model and a hemi-ellipsoid model (i.e. unworn models), computer-generated wear models and wear-tested femoral balls, with point spacings of 0.5, 1, 2 and 3 mm. The results showed that the algorithm (Method 1) employing spherical triangles to represent the bearing surface and to scale the mesh to the best-fit surfaces produced adequate accuracy for the wear volume with point spacings of 0.5, 1, 2 and 3 mm. The algorithms (Methods 2-4) using plane triangles to represent the bearing surface and to scale the mesh to the best-fit surface also produced accuracies that were comparable to that with spherical triangles. In contrast, if the bearing surface was represented with a mesh of plane triangles and the best-fit surface was taken as a smooth surface without discretization (Method 5), the algorithm produced much lower accuracy with a point spacing of 0.5 mm than Methods 1-4 with a point spacing of 3 mm.

Nanofiber Orientation and Surface Functionalization Modulate Human Mesenchymal Stem Cell Behavior In Vitro

PubMed Central

Kolambkar, Yash M.; Bajin, Mehmet; Wojtowicz, Abigail; Hutmacher, Dietmar W.; García, Andrés J.

2014-01-01

Electrospun nanofiber meshes have emerged as a new generation of scaffold membranes possessing a number of features suitable for tissue regeneration. One of these features is the flexibility to modify their structure and composition to orchestrate specific cellular responses. In this study, we investigated the effects of nanofiber orientation and surface functionalization on human mesenchymal stem cell (hMSC) migration and osteogenic differentiation. We used an in vitro model to examine hMSC migration into a cell-free zone on nanofiber meshes and mitomycin C treatment to assess the contribution of proliferation to the observed migration. Poly (ɛ-caprolactone) meshes with oriented topography were created by electrospinning aligned nanofibers on a rotating mandrel, while randomly oriented controls were collected on a stationary collector. Both aligned and random meshes were coated with a triple-helical, type I collagen-mimetic peptide, containing the glycine-phenylalanine-hydroxyproline-glycine-glutamate-arginine (GFOGER) motif. Our results indicate that nanofiber GFOGER peptide functionalization and orientation modulate cellular behavior, individually, and in combination. GFOGER significantly enhanced the migration, proliferation, and osteogenic differentiation of hMSCs on nanofiber meshes. Aligned nanofiber meshes displayed increased cell migration along the direction of fiber orientation compared to random meshes; however, fiber alignment did not influence osteogenic differentiation. Compared to each other, GFOGER coating resulted in a higher proliferation-driven cell migration, whereas fiber orientation appeared to generate a larger direct migratory effect. This study demonstrates that peptide surface modification and topographical cues associated with fiber alignment can be used to direct cellular behavior on nanofiber mesh scaffolds, which may be exploited for tissue regeneration. PMID:24020454

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.

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.

Combined carbon mesh and small graphite fiber brush anodes to enhance and stabilize power generation in microbial fuel cells treating domestic wastewater

NASA Astrophysics Data System (ADS)

Wu, Shijia; He, Weihua; Yang, Wulin; Ye, Yaoli; Huang, Xia; Logan, Bruce E.

2017-07-01

Microbial fuel cells (MFCs) need to have a compact architecture, but power generation using low strength domestic wastewater is unstable for closely-spaced electrode designs using thin anodes (flat mesh or small diameter graphite fiber brushes) due to oxygen crossover from the cathode. A composite anode configuration was developed to improve performance, by joining the mesh and brushes together, with the mesh used to block oxygen crossover to the brushes, and the brushes used to stabilize mesh potentials. In small, fed-batch MFCs (28 mL), the composite anode produced 20% higher power densities than MFCs using only brushes, and 150% power densities compared to carbon mesh anodes. In continuous flow tests at short hydraulic retention times (HRTs, 2 or 4 h) using larger MFCs (100 mL), composite anodes had stable performance, while brush anode MFCs exhibited power overshoot in polarization tests. Both configurations exhibited power overshoot at a longer HRT of 8 h due to lower effluent CODs. The use of composite anodes reduced biomass growth on the cathode (1.9 ± 0.2 mg) compared to only brushes (3.1 ± 0.3 mg), and increased coulombic efficiencies, demonstrating that they successfully reduced oxygen contamination of the anode and the bio-fouling of cathode.

Finite element meshing approached as a global minimization process

DOE Office of Scientific and Technical Information (OSTI.GOV)

WITKOWSKI,WALTER R.; JUNG,JOSEPH; DOHRMANN,CLARK R.

2000-03-01

The ability to generate a suitable finite element mesh in an automatic fashion is becoming the key to being able to automate the entire engineering analysis process. However, placing an all-hexahedron mesh in a general three-dimensional body continues to be an elusive goal. The approach investigated in this research is fundamentally different from any other that is known of by the authors. A physical analogy viewpoint is used to formulate the actual meshing problem which constructs a global mathematical description of the problem. The analogy used was that of minimizing the electrical potential of a system charged particles within amore » charged domain. The particles in the presented analogy represent duals to mesh elements (i.e., quads or hexes). Particle movement is governed by a mathematical functional which accounts for inter-particles repulsive, attractive and alignment forces. This functional is minimized to find the optimal location and orientation of each particle. After the particles are connected a mesh can be easily resolved. The mathematical description for this problem is as easy to formulate in three-dimensions as it is in two- or one-dimensions. The meshing algorithm was developed within CoMeT. It can solve the two-dimensional meshing problem for convex and concave geometries in a purely automated fashion. Investigation of the robustness of the technique has shown a success rate of approximately 99% for the two-dimensional geometries tested. Run times to mesh a 100 element complex geometry were typically in the 10 minute range. Efficiency of the technique is still an issue that needs to be addressed. Performance is an issue that is critical for most engineers generating meshes. It was not for this project. The primary focus of this work was to investigate and evaluate a meshing algorithm/philosophy with efficiency issues being secondary. The algorithm was also extended to mesh three-dimensional geometries. Unfortunately, only simple geometries were tested before this project ended. The primary complexity in the extension was in the connectivity problem formulation. Defining all of the interparticle interactions that occur in three-dimensions and expressing them in mathematical relationships is very difficult.« less

A QR accelerated volume-to-surface boundary condition for finite element solution of eddy current problems

DOE Office of Scientific and Technical Information (OSTI.GOV)

White, D; Fasenfest, B; Rieben, R

2006-09-08

We are concerned with the solution of time-dependent electromagnetic eddy current problems using a finite element formulation on three-dimensional unstructured meshes. We allow for multiple conducting regions, and our goal is to develop an efficient computational method that does not require a computational mesh of the air/vacuum regions. This requires a sophisticated global boundary condition specifying the total fields on the conductor boundaries. We propose a Biot-Savart law based volume-to-surface boundary condition to meet this requirement. This Biot-Savart approach is demonstrated to be very accurate. In addition, this approach can be accelerated via a low-rank QR approximation of the discretizedmore » Biot-Savart law.« less

Effect of boundary representation on viscous, separated flows in a discontinuous-Galerkin Navier-Stokes solver

NASA Astrophysics Data System (ADS)

Nelson, Daniel A.; Jacobs, Gustaaf B.; Kopriva, David A.

2016-08-01

The effect of curved-boundary representation on the physics of the separated flow over a NACA 65(1)-412 airfoil is thoroughly investigated. A method is presented to approximate curved boundaries with a high-order discontinuous-Galerkin spectral element method for the solution of the Navier-Stokes equations. Multiblock quadrilateral element meshes are constructed with the grid generation software GridPro. The boundary of a NACA 65(1)-412 airfoil, defined by a cubic natural spline, is piecewise-approximated by isoparametric polynomial interpolants that represent the edges of boundary-fitted elements. Direct numerical simulation of the airfoil is performed on a coarse mesh and fine mesh with polynomial orders ranging from four to twelve. The accuracy of the curve fitting is investigated by comparing the flows computed on curved-sided meshes with those given by straight-sided meshes. Straight-sided meshes yield irregular wakes, whereas curved-sided meshes produce a regular Karman street wake. Straight-sided meshes also produce lower lift and higher viscous drag as compared with curved-sided meshes. When the mesh is refined by reducing the sizes of the elements, the lift decrease and viscous drag increase are less pronounced. The differences in the aerodynamic performance between the straight-sided meshes and the curved-sided meshes are concluded to be the result of artificial surface roughness introduced by the piecewise-linear boundary approximation provided by the straight-sided meshes.

Modelling deformation and fracture in confectionery wafers

DOE Office of Scientific and Technical Information (OSTI.GOV)

Mohammed, Idris K.; Charalambides, Maria N.; Williams, J. Gordon

2015-01-22

The aim of this research is to model the deformation and fracture behaviour of brittle wafers often used in chocolate confectionary products. Three point bending and compression experiments were performed on beam and circular disc samples respectively to determine the 'apparent' stress-strain curves in bending and compression. The deformation of the wafer for both these testing types was observed in-situ within an SEM. The wafer is modeled analytically and numerically as a composite material with a core which is more porous than the skins. X-ray tomography was used to generate a three dimensional volume of the wafer microstructure which wasmore » then meshed and used for quantitative analysis. A linear elastic material model, with a damage function and element deletion, was used and the XMT generated architecture was loaded in compression. The output from the FE simulations correlates closely to the load-deflection deformation observed experimentally.« less

A new technique for simulating composite material

NASA Technical Reports Server (NTRS)

Volakis, John L.

1991-01-01

This project dealt with the development on new methodologies and algorithms for the multi-spectrum electromagnetic characterization of large scale nonmetallic airborne vehicles and structures. A robust, low memory, and accurate methodology was developed which is particularly suited for modern machine architectures. This is a hybrid finite element method that combines two well known numerical solution approaches. That of the finite element method for modeling volumes and the boundary integral method which yields exact boundary conditions for terminating the finite element mesh. In addition, a variety of high frequency results were generated (such as diffraction coefficients for impedance surfaces and material layers) and a class of boundary conditions were developed which hold promise for more efficient simulations. During the course of this project, nearly 25 detailed research reports were generated along with an equal number of journal papers. The reports, papers, and journal articles are listed in the appendices along with their abstracts.

Getting in touch--3D printing in forensic imaging.

PubMed

Ebert, Lars Chr; Thali, Michael J; Ross, Steffen

2011-09-10

With the increasing use of medical imaging in forensics, as well as the technological advances in rapid prototyping, we suggest combining these techniques to generate displays of forensic findings. We used computed tomography (CT), CT angiography, magnetic resonance imaging (MRI) and surface scanning with photogrammetry in conjunction with segmentation techniques to generate 3D polygon meshes. Based on these data sets, a 3D printer created colored models of the anatomical structures. Using this technique, we could create models of bone fractures, vessels, cardiac infarctions, ruptured organs as well as bitemark wounds. The final models are anatomically accurate, fully colored representations of bones, vessels and soft tissue, and they demonstrate radiologically visible pathologies. The models are more easily understood by laypersons than volume rendering or 2D reconstructions. Therefore, they are suitable for presentations in courtrooms and for educational purposes. Copyright © 2011 Elsevier Ireland Ltd. All rights reserved.

Modelling deformation and fracture in confectionery wafers

NASA Astrophysics Data System (ADS)

Mohammed, Idris K.; Charalambides, Maria N.; Williams, J. Gordon; Rasburn, John

2015-01-01

The aim of this research is to model the deformation and fracture behaviour of brittle wafers often used in chocolate confectionary products. Three point bending and compression experiments were performed on beam and circular disc samples respectively to determine the 'apparent' stress-strain curves in bending and compression. The deformation of the wafer for both these testing types was observed in-situ within an SEM. The wafer is modeled analytically and numerically as a composite material with a core which is more porous than the skins. X-ray tomography was used to generate a three dimensional volume of the wafer microstructure which was then meshed and used for quantitative analysis. A linear elastic material model, with a damage function and element deletion, was used and the XMT generated architecture was loaded in compression. The output from the FE simulations correlates closely to the load-deflection deformation observed experimentally.

A semi-automatic computer-aided method for surgical template design

NASA Astrophysics Data System (ADS)

Chen, Xiaojun; Xu, Lu; Yang, Yue; Egger, Jan

2016-02-01

This paper presents a generalized integrated framework of semi-automatic surgical template design. Several algorithms were implemented including the mesh segmentation, offset surface generation, collision detection, ruled surface generation, etc., and a special software named TemDesigner was developed. With a simple user interface, a customized template can be semi- automatically designed according to the preoperative plan. Firstly, mesh segmentation with signed scalar of vertex is utilized to partition the inner surface from the input surface mesh based on the indicated point loop. Then, the offset surface of the inner surface is obtained through contouring the distance field of the inner surface, and segmented to generate the outer surface. Ruled surface is employed to connect inner and outer surfaces. Finally, drilling tubes are generated according to the preoperative plan through collision detection and merging. It has been applied to the template design for various kinds of surgeries, including oral implantology, cervical pedicle screw insertion, iliosacral screw insertion and osteotomy, demonstrating the efficiency, functionality and generality of our method.

A semi-automatic computer-aided method for surgical template design

PubMed Central

Chen, Xiaojun; Xu, Lu; Yang, Yue; Egger, Jan

2016-01-01

This paper presents a generalized integrated framework of semi-automatic surgical template design. Several algorithms were implemented including the mesh segmentation, offset surface generation, collision detection, ruled surface generation, etc., and a special software named TemDesigner was developed. With a simple user interface, a customized template can be semi- automatically designed according to the preoperative plan. Firstly, mesh segmentation with signed scalar of vertex is utilized to partition the inner surface from the input surface mesh based on the indicated point loop. Then, the offset surface of the inner surface is obtained through contouring the distance field of the inner surface, and segmented to generate the outer surface. Ruled surface is employed to connect inner and outer surfaces. Finally, drilling tubes are generated according to the preoperative plan through collision detection and merging. It has been applied to the template design for various kinds of surgeries, including oral implantology, cervical pedicle screw insertion, iliosacral screw insertion and osteotomy, demonstrating the efficiency, functionality and generality of our method. PMID:26843434

A semi-automatic computer-aided method for surgical template design.

PubMed

Chen, Xiaojun; Xu, Lu; Yang, Yue; Egger, Jan

2016-02-04

This paper presents a generalized integrated framework of semi-automatic surgical template design. Several algorithms were implemented including the mesh segmentation, offset surface generation, collision detection, ruled surface generation, etc., and a special software named TemDesigner was developed. With a simple user interface, a customized template can be semi- automatically designed according to the preoperative plan. Firstly, mesh segmentation with signed scalar of vertex is utilized to partition the inner surface from the input surface mesh based on the indicated point loop. Then, the offset surface of the inner surface is obtained through contouring the distance field of the inner surface, and segmented to generate the outer surface. Ruled surface is employed to connect inner and outer surfaces. Finally, drilling tubes are generated according to the preoperative plan through collision detection and merging. It has been applied to the template design for various kinds of surgeries, including oral implantology, cervical pedicle screw insertion, iliosacral screw insertion and osteotomy, demonstrating the efficiency, functionality and generality of our method.

Automatic two- and three-dimensional mesh generation based on fuzzy knowledge processing

NASA Astrophysics Data System (ADS)

Yagawa, G.; Yoshimura, S.; Soneda, N.; Nakao, K.

1992-09-01

This paper describes the development of a novel automatic FEM mesh generation algorithm based on the fuzzy knowledge processing technique. A number of local nodal patterns are stored in a nodal pattern database of the mesh generation system. These nodal patterns are determined a priori based on certain theories or past experience of experts of FEM analyses. For example, such human experts can determine certain nodal patterns suitable for stress concentration analyses of cracks, corners, holes and so on. Each nodal pattern possesses a membership function and a procedure of node placement according to this function. In the cases of the nodal patterns for stress concentration regions, the membership function which is utilized in the fuzzy knowledge processing has two meanings, i.e. the “closeness” of nodal location to each stress concentration field as well as “nodal density”. This is attributed to the fact that a denser nodal pattern is required near a stress concentration field. What a user has to do in a practical mesh generation process are to choose several local nodal patterns properly and to designate the maximum nodal density of each pattern. After those simple operations by the user, the system places the chosen nodal patterns automatically in an analysis domain and on its boundary, and connects them smoothly by the fuzzy knowledge processing technique. Then triangular or tetrahedral elements are generated by means of the advancing front method. The key issue of the present algorithm is an easy control of complex two- or three-dimensional nodal density distribution by means of the fuzzy knowledge processing technique. To demonstrate fundamental performances of the present algorithm, a prototype system was constructed with one of object-oriented languages, Smalltalk-80 on a 32-bit microcomputer, Macintosh II. The mesh generation of several two- and three-dimensional domains with cracks, holes and junctions was presented as examples.

Remodeling characteristics and collagen distribution in synthetic mesh materials explanted from human subjects after abdominal wall reconstruction: an analysis of remodeling characteristics by patient risk factors and surgical site classifications

PubMed Central

Cavallo, Jaime A.; Roma, Andres A.; Jasielec, Mateusz S.; Ousley, Jenny; Creamer, Jennifer; Pichert, Matthew D.; Baalman, Sara; Frisella, Margaret M.; Matthews, Brent D.

2014-01-01

Background The purpose of this study was to evaluate the associations between patient characteristics or surgical site classifications and the histologic remodeling scores of synthetic meshes biopsied from their abdominal wall repair sites in the first attempt to generate a multivariable risk prediction model of non-constructive remodeling. Methods Biopsies of the synthetic meshes were obtained from the abdominal wall repair sites of 51 patients during a subsequent abdominal re-exploration. Biopsies were stained with hematoxylin and eosin, and evaluated according to a semi-quantitative scoring system for remodeling characteristics (cell infiltration, cell types, extracellular matrix deposition, inflammation, fibrous encapsulation, and neovascularization) and a mean composite score (CR). Biopsies were also stained with Sirius Red and Fast Green, and analyzed to determine the collagen I:III ratio. Based on univariate analyses between subject clinical characteristics or surgical site classification and the histologic remodeling scores, cohort variables were selected for multivariable regression models using a threshold p value of ≤0.200. Results The model selection process for the extracellular matrix score yielded two variables: subject age at time of mesh implantation, and mesh classification (c-statistic = 0.842). For CR score, the model selection process yielded two variables: subject age at time of mesh implantation and mesh classification (r2 = 0.464). The model selection process for the collagen III area yielded a model with two variables: subject body mass index at time of mesh explantation and pack-year history (r2 = 0.244). Conclusion Host characteristics and surgical site assessments may predict degree of remodeling for synthetic meshes used to reinforce abdominal wall repair sites. These preliminary results constitute the first steps in generating a risk prediction model that predicts the patients and clinical circumstances for which non-constructive remodeling of an abdominal wall repair site with synthetic mesh reinforcement is most likely to occur. PMID:24442681

Automatic partitioning of unstructured meshes for the parallel solution of problems in computational mechanics

NASA Technical Reports Server (NTRS)

Farhat, Charbel; Lesoinne, Michel

1993-01-01

Most of the recently proposed computational methods for solving partial differential equations on multiprocessor architectures stem from the 'divide and conquer' paradigm and involve some form of domain decomposition. For those methods which also require grids of points or patches of elements, it is often necessary to explicitly partition the underlying mesh, especially when working with local memory parallel processors. In this paper, a family of cost-effective algorithms for the automatic partitioning of arbitrary two- and three-dimensional finite element and finite difference meshes is presented and discussed in view of a domain decomposed solution procedure and parallel processing. The influence of the algorithmic aspects of a solution method (implicit/explicit computations), and the architectural specifics of a multiprocessor (SIMD/MIMD, startup/transmission time), on the design of a mesh partitioning algorithm are discussed. The impact of the partitioning strategy on load balancing, operation count, operator conditioning, rate of convergence and processor mapping is also addressed. Finally, the proposed mesh decomposition algorithms are demonstrated with realistic examples of finite element, finite volume, and finite difference meshes associated with the parallel solution of solid and fluid mechanics problems on the iPSC/2 and iPSC/860 multiprocessors.

Robust moving mesh algorithms for hybrid stretched meshes: Application to moving boundaries problems

NASA Astrophysics Data System (ADS)

Landry, Jonathan; Soulaïmani, Azzeddine; Luke, Edward; Ben Haj Ali, Amine

2016-12-01

A robust Mesh-Mover Algorithm (MMA) approach is designed to adapt meshes of moving boundaries problems. A new methodology is developed from the best combination of well-known algorithms in order to preserve the quality of initial meshes. In most situations, MMAs distribute mesh deformation while preserving a good mesh quality. However, invalid meshes are generated when the motion is complex and/or involves multiple bodies. After studying a few MMA limitations, we propose the following approach: use the Inverse Distance Weighting (IDW) function to produce the displacement field, then apply the Geometric Element Transformation Method (GETMe) smoothing algorithms to improve the resulting mesh quality, and use an untangler to revert negative elements. The proposed approach has been proven efficient to adapt meshes for various realistic aerodynamic motions: a symmetric wing that has suffered large tip bending and twisting and the high-lift components of a swept wing that has moved to different flight stages. Finally, the fluid flow problem has been solved on meshes that have moved and they have produced results close to experimental ones. However, for situations where moving boundaries are too close to each other, more improvements need to be made or other approaches should be taken, such as an overset grid method.

An effective lattice Boltzmann flux solver on arbitrarily unstructured meshes

NASA Astrophysics Data System (ADS)

Wu, Qi-Feng; Shu, Chang; Wang, Yan; Yang, Li-Ming

2018-05-01

The recently proposed lattice Boltzmann flux solver (LBFS) is a new approach for the simulation of incompressible flow problems. It applies the finite volume method (FVM) to discretize the governing equations, and the flux at the cell interface is evaluated by local reconstruction of lattice Boltzmann solution from macroscopic flow variables at cell centers. In the previous application of the LBFS, the structured meshes have been commonly employed, which may cause inconvenience for problems with complex geometries. In this paper, the LBFS is extended to arbitrarily unstructured meshes for effective simulation of incompressible flows. Two test cases, the lid-driven flow in a triangular cavity and flow around a circular cylinder, are carried out for validation. The obtained results are compared with the data available in the literature. Good agreement has been achieved, which demonstrates the effectiveness and reliability of the LBFS in simulating flows on arbitrarily unstructured meshes.

Generating a Simulated Fluid Flow Over an Aircraft Surface Using Anisotropic Diffusion

NASA Technical Reports Server (NTRS)

Rodriguez, David L. (Inventor); Sturdza, Peter (Inventor)

2013-01-01

A fluid-flow simulation over a computer-generated aircraft surface is generated using a diffusion technique. The surface is comprised of a surface mesh of polygons. A boundary-layer fluid property is obtained for a subset of the polygons of the surface mesh. A pressure-gradient vector is determined for a selected polygon, the selected polygon belonging to the surface mesh but not one of the subset of polygons. A maximum and minimum diffusion rate is determined along directions determined using a pressure gradient vector corresponding to the selected polygon. A diffusion-path vector is defined between a point in the selected polygon and a neighboring point in a neighboring polygon. An updated fluid property is determined for the selected polygon using a variable diffusion rate, the variable diffusion rate based on the minimum diffusion rate, maximum diffusion rate, and angular difference between the diffusion-path vector and the pressure-gradient vector.

Automated variance reduction for MCNP using deterministic methods.

PubMed

Sweezy, J; Brown, F; Booth, T; Chiaramonte, J; Preeg, B

2005-01-01

In order to reduce the user's time and the computer time needed to solve deep penetration problems, an automated variance reduction capability has been developed for the MCNP Monte Carlo transport code. This new variance reduction capability developed for MCNP5 employs the PARTISN multigroup discrete ordinates code to generate mesh-based weight windows. The technique of using deterministic methods to generate importance maps has been widely used to increase the efficiency of deep penetration Monte Carlo calculations. The application of this method in MCNP uses the existing mesh-based weight window feature to translate the MCNP geometry into geometry suitable for PARTISN. The adjoint flux, which is calculated with PARTISN, is used to generate mesh-based weight windows for MCNP. Additionally, the MCNP source energy spectrum can be biased based on the adjoint energy spectrum at the source location. This method can also use angle-dependent weight windows.

Beta Testing of CFD Code for the Analysis of Combustion Systems

NASA Technical Reports Server (NTRS)

Yee, Emma; Wey, Thomas

2015-01-01

A preliminary version of OpenNCC was tested to assess its accuracy in generating steady-state temperature fields for combustion systems at atmospheric conditions using three-dimensional tetrahedral meshes. Meshes were generated from a CAD model of a single-element lean-direct injection combustor, and the latest version of OpenNCC was used to calculate combustor temperature fields. OpenNCC was shown to be capable of generating sustainable reacting flames using a tetrahedral mesh, and the subsequent results were compared to experimental results. While nonreacting flow results closely matched experimental results, a significant discrepancy was present between the code's reacting flow results and experimental results. When wide air circulation regions with high velocities were present in the model, this appeared to create inaccurately high temperature fields. Conversely, low recirculation velocities caused low temperature profiles. These observations will aid in future modification of OpenNCC reacting flow input parameters to improve the accuracy of calculated temperature fields.

Long range alpha particle detector

DOEpatents

MacArthur, Duncan W.; Wolf, Michael A.; McAtee, James L.; Unruh, Wesley P.; Cucchiara, Alfred L.; Huchton, Roger L.

1993-01-01

An alpha particle detector capable of detecting alpha radiation from distant sources. In one embodiment, a high voltage is generated in a first electrically conductive mesh while a fan draws air containing air molecules ionized by alpha particles through an air passage and across a second electrically conductive mesh. The current in the second electrically conductive mesh can be detected and used for measurement or alarm. The detector can be used for area, personnel and equipment monitoring.

Long range alpha particle detector

DOEpatents

MacArthur, D.W.; Wolf, M.A.; McAtee, J.L.; Unruh, W.P.; Cucchiara, A.L.; Huchton, R.L.

1993-02-02

An alpha particle detector capable of detecting alpha radiation from distant sources. In one embodiment, a high voltage is generated in a first electrically conductive mesh while a fan draws air containing air molecules ionized by alpha particles through an air passage and across a second electrically conductive mesh. The current in the second electrically conductive mesh can be detected and used for measurement or alarm. The detector can be used for area, personnel and equipment monitoring.

Three Dimensional Grid Generation for Complex Configurations - Recent Progress

DTIC Science & Technology

1988-03-01

Navier/Stokes finite difference calculations currently of interest. It has been amply demonstrated that the viability of a numerical solution depends...such as advanced fighters or logistic transports, where a multiblock mesh, for example, is necessary. There exist numerous reports and books on the...MESHES I 3.10 ADAPTIVE GRID SCHEMES 10 3.11 REFERENCES 12 4. CONTRIBUTIONS 13 4.1 SOLICITATION AND OVERVIEW 13 4.2 LESSONS LEARNED IN THE MESH

MeSH indexing based on automatically generated summaries.

PubMed

Jimeno-Yepes, Antonio J; Plaza, Laura; Mork, James G; Aronson, Alan R; Díaz, Alberto

2013-06-26

MEDLINE citations are manually indexed at the U.S. National Library of Medicine (NLM) using as reference the Medical Subject Headings (MeSH) controlled vocabulary. For this task, the human indexers read the full text of the article. Due to the growth of MEDLINE, the NLM Indexing Initiative explores indexing methodologies that can support the task of the indexers. Medical Text Indexer (MTI) is a tool developed by the NLM Indexing Initiative to provide MeSH indexing recommendations to indexers. Currently, the input to MTI is MEDLINE citations, title and abstract only. Previous work has shown that using full text as input to MTI increases recall, but decreases precision sharply. We propose using summaries generated automatically from the full text for the input to MTI to use in the task of suggesting MeSH headings to indexers. Summaries distill the most salient information from the full text, which might increase the coverage of automatic indexing approaches based on MEDLINE. We hypothesize that if the results were good enough, manual indexers could possibly use automatic summaries instead of the full texts, along with the recommendations of MTI, to speed up the process while maintaining high quality of indexing results. We have generated summaries of different lengths using two different summarizers, and evaluated the MTI indexing on the summaries using different algorithms: MTI, individual MTI components, and machine learning. The results are compared to those of full text articles and MEDLINE citations. Our results show that automatically generated summaries achieve similar recall but higher precision compared to full text articles. Compared to MEDLINE citations, summaries achieve higher recall but lower precision. Our results show that automatic summaries produce better indexing than full text articles. Summaries produce similar recall to full text but much better precision, which seems to indicate that automatic summaries can efficiently capture the most important contents within the original articles. The combination of MEDLINE citations and automatically generated summaries could improve the recommendations suggested by MTI. On the other hand, indexing performance might be dependent on the MeSH heading being indexed. Summarization techniques could thus be considered as a feature selection algorithm that might have to be tuned individually for each MeSH heading.

Natural gas storage with activated carbon from a bituminous coal

USGS Publications Warehouse

Sun, Jielun; Rood, M.J.; Rostam-Abadi, M.; Lizzio, A.A.

1996-01-01

Granular activated carbons ( -20 + 100 mesh; 0.149-0.84 mm) were produced by physical activation and chemical activation with KOH from an Illinois bituminous coal (IBC-106) for natural gas storage. The products were characterized by BET surface area, micropore volume, bulk density, and methane adsorption capacities. Volumetric methane adsorption capacities (Vm/Vs) of some of the granular carbons produced by physical activation are about 70 cm3/cm3 which is comparable to that of BPL, a commercial activated carbon. Vm/Vs values above 100 cm3/cm3 are obtainable by grinding the granular products to - 325 mesh (<0.044 mm). The increase in Vm/Vs is due to the increase in bulk density of the carbons. Volumetric methane adsorption capacity increases with increasing pore surface area and micropore volume when normalizing with respect to sample bulk volume. Compared with steam-activated carbons, granular carbons produced by KOH activation have higher micropore volume and higher methane adsorption capacities (g/g). Their volumetric methane adsorption capacities are lower due to their lower bulk densities. Copyright ?? 1996 Elsevier Science Ltd.

ImageParser: a tool for finite element generation from three-dimensional medical images

PubMed Central

Yin, HM; Sun, LZ; Wang, G; Yamada, T; Wang, J; Vannier, MW

2004-01-01

Background The finite element method (FEM) is a powerful mathematical tool to simulate and visualize the mechanical deformation of tissues and organs during medical examinations or interventions. It is yet a challenge to build up an FEM mesh directly from a volumetric image partially because the regions (or structures) of interest (ROIs) may be irregular and fuzzy. Methods A software package, ImageParser, is developed to generate an FEM mesh from 3-D tomographic medical images. This software uses a semi-automatic method to detect ROIs from the context of image including neighboring tissues and organs, completes segmentation of different tissues, and meshes the organ into elements. Results The ImageParser is shown to build up an FEM model for simulating the mechanical responses of the breast based on 3-D CT images. The breast is compressed by two plate paddles under an overall displacement as large as 20% of the initial distance between the paddles. The strain and tangential Young's modulus distributions are specified for the biomechanical analysis of breast tissues. Conclusion The ImageParser can successfully exact the geometry of ROIs from a complex medical image and generate the FEM mesh with customer-defined segmentation information. PMID:15461787

Simulation of a Single-Element Lean-Direct Injection Combustor Using Arbitrary Polyhedral Mesh

NASA Technical Reports Server (NTRS)

Wey, Thomas; Liu, Nan-Suey

2012-01-01

This paper summarizes procedures of generating the arbitrary polyhedral mesh as well as presents sample results from its application to the numerical solution of a single-element LDI combustor using a preliminary version of the new OpenNCC.

Mesh Intercomparisons of Fog Water Collected Yield Insight Into the Nature of Fog-Drip Collection Mechanisms

NASA Astrophysics Data System (ADS)

Fernandez, D.; Torregrosa, A.; Weiss-Penzias, P. S.; Oliphant, A. J.; Dodge, C.; Bowman, M.; Wilson, S.; Mairs, A. A.; Gravelle, M.; Barkley, T.

2016-12-01

At multiple sites across central CA, several passive fog water collectors have been deployed for the past 3 years. All of the sites employ standard Raschel polypropylene mesh as the fog collection medium and five of them also integrated a novel polypropylene mesh of German manufacture with a 3-dimensional internal structure. Additionally, six metal mesh manufactured by McMaster-Carr of various hole sizing were coated with a POSS-PEMA substance at the Massachusetts Institute of Technology and deployed in parallel with the Raschel mesh at six distinct locations. Finally, fluorine-free versions of the POSS-PEMA substance were generated by NBD Nanotechnology and coated on a much finer mesh substrate. Three of those and one control (uncoated mesh) were deployed at one of the fog collection sites for one season, along with a standard Raschel mesh. Preliminary results from one intercomparison from just one pair of mesh over two seasons seem to reveal a wind speed and also, possibly, a droplet-size dependence on the fog collection efficiency for the mesh. This study will continue to intercompare the various mesh in conjunction with the wind speed and direction data. If a collection efficiency dependence on mesh size or coating is confirmed, it may point to interesting and relevant mechanisms for fog droplet capture and collection hitherto unobserved in field conditions.

Calculation of grain boundary normals directly from 3D microstructure images

DOE PAGES

Lieberman, E. J.; Rollett, A. D.; Lebensohn, R. A.; ...

2015-03-11

The determination of grain boundary normals is an integral part of the characterization of grain boundaries in polycrystalline materials. These normal vectors are difficult to quantify due to the discretized nature of available microstructure characterization techniques. The most common method to determine grain boundary normals is by generating a surface mesh from an image of the microstructure, but this process can be slow, and is subject to smoothing issues. A new technique is proposed, utilizing first order Cartesian moments of binary indicator functions, to determine grain boundary normals directly from a voxelized microstructure image. In order to validate the accuracymore » of this technique, the surface normals obtained by the proposed method are compared to those generated by a surface meshing algorithm. Specifically, the local divergence between the surface normals obtained by different variants of the proposed technique and those generated from a surface mesh of a synthetic microstructure constructed using a marching cubes algorithm followed by Laplacian smoothing is quantified. Next, surface normals obtained with the proposed method from a measured 3D microstructure image of a Ni polycrystal are used to generate grain boundary character distributions (GBCD) for Σ3 and Σ9 boundaries, and compared to the GBCD generated using a surface mesh obtained from the same image. Finally, the results show that the proposed technique is an efficient and accurate method to determine voxelized fields of grain boundary normals.« less

Technique for Calculating Solution Derivatives With Respect to Geometry Parameters in a CFD Code

NASA Technical Reports Server (NTRS)

Mathur, Sanjay

2011-01-01

A solution has been developed to the challenges of computation of derivatives with respect to geometry, which is not straightforward because these are not typically direct inputs to the computational fluid dynamics (CFD) solver. To overcome these issues, a procedure has been devised that can be used without having access to the mesh generator, while still being applicable to all types of meshes. The basic approach is inspired by the mesh motion algorithms used to deform the interior mesh nodes in a smooth manner when the surface nodes, for example, are in a fluid structure interaction problem. The general idea is to model the mesh edges and nodes as constituting a spring-mass system. Changes to boundary node locations are propagated to interior nodes by allowing them to assume their new equilibrium positions, for instance, one where the forces on each node are in balance. The main advantage of the technique is that it is independent of the volumetric mesh generator, and can be applied to structured, unstructured, single- and multi-block meshes. It essentially reduces the problem down to defining the surface mesh node derivatives with respect to the geometry parameters of interest. For analytical geometries, this is quite straightforward. In the more general case, one would need to be able to interrogate the underlying parametric CAD (computer aided design) model and to evaluate the derivatives either analytically, or by a finite difference technique. Because the technique is based on a partial differential equation (PDE), it is applicable not only to forward mode problems (where derivatives of all the output quantities are computed with respect to a single input), but it could also be extended to the adjoint problem, either by using an analytical adjoint of the PDE or a discrete analog.

The nonlinear modified equation approach to analyzing finite difference schemes

NASA Technical Reports Server (NTRS)

Klopfer, G. H.; Mcrae, D. S.

1981-01-01

The nonlinear modified equation approach is taken in this paper to analyze the generalized Lax-Wendroff explicit scheme approximation to the unsteady one- and two-dimensional equations of gas dynamics. Three important applications of the method are demonstrated. The nonlinear modified equation analysis is used to (1) generate higher order accurate schemes, (2) obtain more accurate estimates of the discretization error for nonlinear systems of partial differential equations, and (3) generate an adaptive mesh procedure for the unsteady gas dynamic equations. Results are obtained for all three areas. For the adaptive mesh procedure, mesh point requirements for equal resolution of discontinuities were reduced by a factor of five for a 1-D shock tube problem solved by the explicit MacCormack scheme.

A computer program to generate two-dimensional grids about airfoils and other shapes by the use of Poisson's equation

NASA Technical Reports Server (NTRS)

Sorenson, R. L.

1980-01-01

A method for generating two dimensional finite difference grids about airfoils and other shapes by the use of the Poisson differential equation is developed. The inhomogeneous terms are automatically chosen such that two important effects are imposed on the grid at both the inner and outer boundaries. The first effect is control of the spacing between mesh points along mesh lines intersecting the boundaries. The second effect is control of the angles with which mesh lines intersect the boundaries. A FORTRAN computer program has been written to use this method. A description of the program, a discussion of the control parameters, and a set of sample cases are included.

Connectivity-based, all-hexahedral mesh generation method and apparatus

DOEpatents

Tautges, T.J.; Mitchell, S.A.; Blacker, T.D.; Murdoch, P.

1998-06-16

The present invention is a computer-based method and apparatus for constructing all-hexahedral finite element meshes for finite element analysis. The present invention begins with a three-dimensional geometry and an all-quadrilateral surface mesh, then constructs hexahedral element connectivity from the outer boundary inward, and then resolves invalid connectivity. The result of the present invention is a complete representation of hex mesh connectivity only; actual mesh node locations are determined later. The basic method of the present invention comprises the step of forming hexahedral elements by making crossings of entities referred to as ``whisker chords.`` This step, combined with a seaming operation in space, is shown to be sufficient for meshing simple block problems. Entities that appear when meshing more complex geometries, namely blind chords, merged sheets, and self-intersecting chords, are described. A method for detecting invalid connectivity in space, based on repeated edges, is also described, along with its application to various cases of invalid connectivity introduced and resolved by the method. 79 figs.

Connectivity-based, all-hexahedral mesh generation method and apparatus

DOEpatents

Tautges, Timothy James; Mitchell, Scott A.; Blacker, Ted D.; Murdoch, Peter

1998-01-01

The present invention is a computer-based method and apparatus for constructing all-hexahedral finite element meshes for finite element analysis. The present invention begins with a three-dimensional geometry and an all-quadrilateral surface mesh, then constructs hexahedral element connectivity from the outer boundary inward, and then resolves invalid connectivity. The result of the present invention is a complete representation of hex mesh connectivity only; actual mesh node locations are determined later. The basic method of the present invention comprises the step of forming hexahedral elements by making crossings of entities referred to as "whisker chords." This step, combined with a seaming operation in space, is shown to be sufficient for meshing simple block problems. Entities that appear when meshing more complex geometries, namely blind chords, merged sheets, and self-intersecting chords, are described. A method for detecting invalid connectivity in space, based on repeated edges, is also described, along with its application to various cases of invalid connectivity introduced and resolved by the method.

Revisiting the Least-squares Procedure for Gradient Reconstruction on Unstructured Meshes

NASA Technical Reports Server (NTRS)

Mavriplis, Dimitri J.; Thomas, James L. (Technical Monitor)

2003-01-01

The accuracy of the least-squares technique for gradient reconstruction on unstructured meshes is examined. While least-squares techniques produce accurate results on arbitrary isotropic unstructured meshes, serious difficulties exist for highly stretched meshes in the presence of surface curvature. In these situations, gradients are typically under-estimated by up to an order of magnitude. For vertex-based discretizations on triangular and quadrilateral meshes, and cell-centered discretizations on quadrilateral meshes, accuracy can be recovered using an inverse distance weighting in the least-squares construction. For cell-centered discretizations on triangles, both the unweighted and weighted least-squares constructions fail to provide suitable gradient estimates for highly stretched curved meshes. Good overall flow solution accuracy can be retained in spite of poor gradient estimates, due to the presence of flow alignment in exactly the same regions where the poor gradient accuracy is observed. However, the use of entropy fixes has the potential for generating large but subtle discretization errors.

Comparison of a lightweight polypropylene mesh (Optilene® LP) and a large-pore knitted PTFE mesh (GORE® INFINIT® mesh)--Biocompatibility in a standardized endoscopic extraperitoneal hernia model.

PubMed

Jacob, Dietmar A; Schug-Pass, Christine; Sommerer, Florian; Tannapfel, Andrea; Lippert, Hans; Köckerling, Ferdinand

2012-02-01

The use of a mesh with good biocompatibility properties is of decisive importance for the avoidance of recurrences and chronic pain in endoscopic hernia repair surgery. As we know from numerous experiments and clinical experience, large-pore, lightweight polypropylene meshes possess the best biocompatibility. However, large-pore meshes of different polymers may be used as well and might be an alternative solution. Utilizing a totally extraperitoneal technique in an established animal model, 20 domestic pigs were implanted with either a lightweight large-pore polypropylene (PP) mesh (Optilene® LP) or a medium-weight large-pore knitted polytetrafluorethylene (PTFE) mesh (GORE® INFINIT® mesh). After 94 days, the pigs were sacrificed and postmortem diagnostic laparoscopy was performed, followed by explantation of the specimens for macroscopic, histological and immunohistochemical evaluation. The mean mesh shrinkage rate was 14.2% for Optilene® LP vs. 24.7% for INFINIT® mesh (p = 0.017). The partial volume of the inflammatory cells was 11.2% for Optilene® LP vs. 13.9% for INFINIT (n.s.). CD68 was significantly higher for INFINIT (11.8% vs. 5.6%, p = 0.007). The markers of cell turnover, namely Ki67 and the apoptotic index, were comparable at 6.4% vs. 12.4% (n.s.) and 1.6% vs. 2.0% (n.s.). In the extracellular matrix, TGF-β was 35.4% for Optilene® LP and 31.0% for INFINIT® (n.s.). Collagen I (pos/300 μm) deposits were 117.8 and 114.9, respectively. In our experimental examinations, Optilene® LP and INFINIT® showed a comparable biocompatibility in terms of chronic inflammatory reaction; however, the shrinkage rate was significantly higher for INFINIT® after 3 months. The higher shrinkage rate of INFINIT® should be taken into account when choosing the mesh size for an adequate hernia overlap.

Computing Normal Shock-Isotropic Turbulence Interaction With Tetrahedral Meshes and the Space-Time CESE Method

NASA Astrophysics Data System (ADS)

Venkatachari, Balaji Shankar; Chang, Chau-Lyan

2016-11-01

The focus of this study is scale-resolving simulations of the canonical normal shock- isotropic turbulence interaction using unstructured tetrahedral meshes and the space-time conservation element solution element (CESE) method. Despite decades of development in unstructured mesh methods and its potential benefits of ease of mesh generation around complex geometries and mesh adaptation, direct numerical or large-eddy simulations of turbulent flows are predominantly carried out using structured hexahedral meshes. This is due to the lack of consistent multi-dimensional numerical formulations in conventional schemes for unstructured meshes that can resolve multiple physical scales and flow discontinuities simultaneously. The CESE method - due to its Riemann-solver-free shock capturing capabilities, non-dissipative baseline schemes, and flux conservation in time as well as space - has the potential to accurately simulate turbulent flows using tetrahedral meshes. As part of the study, various regimes of the shock-turbulence interaction (wrinkled and broken shock regimes) will be investigated along with a study on how adaptive refinement of tetrahedral meshes benefits this problem. The research funding for this paper has been provided by Revolutionary Computational Aerosciences (RCA) subproject under the NASA Transformative Aeronautics Concepts Program (TACP).

Characterization of the mechanism of drug-drug interactions from PubMed using MeSH terms.

PubMed

Lu, Yin; Figler, Bryan; Huang, Hong; Tu, Yi-Cheng; Wang, Ju; Cheng, Feng

2017-01-01

Identifying drug-drug interaction (DDI) is an important topic for the development of safe pharmaceutical drugs and for the optimization of multidrug regimens for complex diseases such as cancer and HIV. There have been about 150,000 publications on DDIs in PubMed, which is a great resource for DDI studies. In this paper, we introduced an automatic computational method for the systematic analysis of the mechanism of DDIs using MeSH (Medical Subject Headings) terms from PubMed literature. MeSH term is a controlled vocabulary thesaurus developed by the National Library of Medicine for indexing and annotating articles. Our method can effectively identify DDI-relevant MeSH terms such as drugs, proteins and phenomena with high accuracy. The connections among these MeSH terms were investigated by using co-occurrence heatmaps and social network analysis. Our approach can be used to visualize relationships of DDI terms, which has the potential to help users better understand DDIs. As the volume of PubMed records increases, our method for automatic analysis of DDIs from the PubMed database will become more accurate.

Dose gradient curve: A new tool for evaluating dose gradient

PubMed Central

Choi, Young Eun

2018-01-01

Purpose Stereotactic radiotherapy, which delivers an ablative high radiation dose to a target volume for maximum local tumor control, requires a rapid dose fall-off outside the target volume to prevent extensive damage to nearby normal tissue. Currently, there is no tool to comprehensively evaluate the dose gradient near the target volume. We propose the dose gradient curve (DGC) as a new tool to evaluate the quality of a treatment plan with respect to the dose fall-off characteristics. Methods The average distance between two isodose surfaces was represented by the dose gradient index (DGI) estimated by a simple equation using the volume and surface area of isodose levels. The surface area was calculated by mesh generation and surface triangulation. The DGC was defined as a plot of the DGI of each dose interval as a function of the dose. Two types of DGCs, differential and cumulative, were generated. The performance of the DGC was evaluated using stereotactic radiosurgery plans for virtual targets. Results Over the range of dose distributions, the dose gradient of each dose interval was well-characterized by the DGC in an easily understandable graph format. Significant changes in the DGC were observed reflecting the differences in planning situations and various prescription doses. Conclusions The DGC is a rational method for visualizing the dose gradient as the average distance between two isodose surfaces; the shorter the distance, the steeper the dose gradient. By combining the DGC with the dose-volume histogram (DVH) in a single plot, the DGC can be utilized to evaluate not only the dose gradient but also the target coverage in routine clinical practice. PMID:29698471

Mesh generation for two-dimensional regions using the Tektronix DVST (direct view storage tube) graphics terminal

NASA Technical Reports Server (NTRS)

Gabrielson, V. K.

1975-01-01

The computer program DVMESH and the use of the Tektronix DVST graphics terminal were described for applications of preparing mesh data for use in various two-dimensional axisymmetric finite element stress analysis and heat transfer codes.

A direct Arbitrary-Lagrangian-Eulerian ADER-WENO finite volume scheme on unstructured tetrahedral meshes for conservative and non-conservative hyperbolic systems in 3D

NASA Astrophysics Data System (ADS)

Boscheri, Walter; Dumbser, Michael

2014-10-01

In this paper we present a new family of high order accurate Arbitrary-Lagrangian-Eulerian (ALE) one-step ADER-WENO finite volume schemes for the solution of nonlinear systems of conservative and non-conservative hyperbolic partial differential equations with stiff source terms on moving tetrahedral meshes in three space dimensions. A WENO reconstruction technique is used to achieve high order of accuracy in space, while an element-local space-time Discontinuous Galerkin finite element predictor on moving curved meshes is used to obtain a high order accurate one-step time discretization. Within the space-time predictor the physical element is mapped onto a reference element using a high order isoparametric approach, where the space-time basis and test functions are given by the Lagrange interpolation polynomials passing through a predefined set of space-time nodes. Since our algorithm is cell-centered, the final mesh motion is computed by using a suitable node solver algorithm. A rezoning step as well as a flattener strategy are used in some of the test problems to avoid mesh tangling or excessive element deformations that may occur when the computation involves strong shocks or shear waves. The ALE algorithm presented in this article belongs to the so-called direct ALE methods because the final Lagrangian finite volume scheme is based directly on a space-time conservation formulation of the governing PDE system, with the rezoned geometry taken already into account during the computation of the fluxes. We apply our new high order unstructured ALE schemes to the 3D Euler equations of compressible gas dynamics, for which a set of classical numerical test problems has been solved and for which convergence rates up to sixth order of accuracy in space and time have been obtained. We furthermore consider the equations of classical ideal magnetohydrodynamics (MHD) as well as the non-conservative seven-equation Baer-Nunziato model of compressible multi-phase flows with stiff relaxation source terms.

Monte Carlo charged-particle tracking and energy deposition on a Lagrangian mesh.

PubMed

Yuan, J; Moses, G A; McKenty, P W

2005-10-01

A Monte Carlo algorithm for alpha particle tracking and energy deposition on a cylindrical computational mesh in a Lagrangian hydrodynamics code used for inertial confinement fusion (ICF) simulations is presented. The straight line approximation is used to follow propagation of "Monte Carlo particles" which represent collections of alpha particles generated from thermonuclear deuterium-tritium (DT) reactions. Energy deposition in the plasma is modeled by the continuous slowing down approximation. The scheme addresses various aspects arising in the coupling of Monte Carlo tracking with Lagrangian hydrodynamics; such as non-orthogonal severely distorted mesh cells, particle relocation on the moving mesh and particle relocation after rezoning. A comparison with the flux-limited multi-group diffusion transport method is presented for a polar direct drive target design for the National Ignition Facility. Simulations show the Monte Carlo transport method predicts about earlier ignition than predicted by the diffusion method, and generates higher hot spot temperature. Nearly linear speed-up is achieved for multi-processor parallel simulations.

Creating physically-based three-dimensional microstructures: Bridging phase-field and crystal plasticity models.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lim, Hojun; Owen, Steven J.; Abdeljawad, Fadi F.

In order to better incorporate microstructures in continuum scale models, we use a novel finite element (FE) meshing technique to generate three-dimensional polycrystalline aggregates from a phase field grain growth model of grain microstructures. The proposed meshing technique creates hexahedral FE meshes that capture smooth interfaces between adjacent grains. Three dimensional realizations of grain microstructures from the phase field model are used in crystal plasticity-finite element (CP-FE) simulations of polycrystalline a -iron. We show that the interface conformal meshes significantly reduce artificial stress localizations in voxelated meshes that exhibit the so-called "wedding cake" interfaces. This framework provides a direct linkmore » between two mesoscale models - phase field and crystal plasticity - and for the first time allows mechanics simulations of polycrystalline materials using three-dimensional hexahedral finite element meshes with realistic topological features.« less

TU-AB-202-05: GPU-Based 4D Deformable Image Registration Using Adaptive Tetrahedral Mesh Modeling

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhong, Z; Zhuang, L; Gu, X

Purpose: Deformable image registration (DIR) has been employed today as an automated and effective segmentation method to transfer tumor or organ contours from the planning image to daily images, instead of manual segmentation. However, the computational time and accuracy of current DIR approaches are still insufficient for online adaptive radiation therapy (ART), which requires real-time and high-quality image segmentation, especially in a large datasets of 4D-CT images. The objective of this work is to propose a new DIR algorithm, with fast computational speed and high accuracy, by using adaptive feature-based tetrahedral meshing and GPU-based parallelization. Methods: The first step ismore » to generate the adaptive tetrahedral mesh based on the image features of a reference phase of 4D-CT, so that the deformation can be well captured and accurately diffused from the mesh vertices to voxels of the image volume. Subsequently, the deformation vector fields (DVF) and other phases of 4D-CT can be obtained by matching each phase of the target 4D-CT images with the corresponding deformed reference phase. The proposed 4D DIR method is implemented on GPU, resulting in significantly increasing the computational efficiency due to its parallel computing ability. Results: A 4D NCAT digital phantom was used to test the efficiency and accuracy of our method. Both the image and DVF results show that the fine structures and shapes of lung are well preserved, and the tumor position is well captured, i.e., 3D distance error is 1.14 mm. Compared to the previous voxel-based CPU implementation of DIR, such as demons, the proposed method is about 160x faster for registering a 10-phase 4D-CT with a phase dimension of 256×256×150. Conclusion: The proposed 4D DIR method uses feature-based mesh and GPU-based parallelism, which demonstrates the capability to compute both high-quality image and motion results, with significant improvement on the computational speed.« less

Edge delamination of composite laminates subject to combined tension and torsional loading

NASA Technical Reports Server (NTRS)

Hooper, Steven J.

1990-01-01

Delamination is a common failure mode of laminated composite materials. Edge delamination is important since it results in reduced stiffness and strength of the laminate. The tension/torsion load condition is of particular significance to the structural integrity of composite helicopter rotor systems. Material coupons can easily be tested under this type of loading in servo-hydraulic tension/torsion test stands using techniques very similar to those used for the Edge Delamination Tensile Test (EDT) delamination specimen. Edge delamination of specimens loaded in tension was successfully analyzed by several investigators using both classical laminate theory and quasi-three dimensional (Q3D) finite element techniques. The former analysis technique can be used to predict the total strain energy release rate, while the latter technique enables the calculation of the mixed-mode strain energy release rates. The Q3D analysis is very efficient since it produces a three-dimensional solution to a two-dimensional domain. A computer program was developed which generates PATRAN commands to generate the finite element model. PATRAN is a pre- and post-processor which is commonly used with a variety of finite element programs such as MCS/NASTRAN. The program creates a sufficiently dense mesh at the delamination crack tips to support a mixed-mode fracture mechanics analysis. The program creates a coarse mesh in those regions where the gradients in the stress field are low (away from the delamination regions). A transition mesh is defined between these regions. This program is capable of generating a mesh for an arbitrarily oriented matrix crack. This program significantly reduces the modeling time required to generate these finite element meshes, thus providing a realistic tool with which to investigate the tension torsion problem.

A Methodology for the Derivation of Unloaded Abdominal Aortic Aneurysm Geometry With Experimental Validation

PubMed Central

Chandra, Santanu; Gnanaruban, Vimalatharmaiyah; Riveros, Fabian; Rodriguez, Jose F.; Finol, Ender A.

2016-01-01

In this work, we present a novel method for the derivation of the unloaded geometry of an abdominal aortic aneurysm (AAA) from a pressurized geometry in turn obtained by 3D reconstruction of computed tomography (CT) images. The approach was experimentally validated with an aneurysm phantom loaded with gauge pressures of 80, 120, and 140 mm Hg. The unloaded phantom geometries estimated from these pressurized states were compared to the actual unloaded phantom geometry, resulting in mean nodal surface distances of up to 3.9% of the maximum aneurysm diameter. An in-silico verification was also performed using a patient-specific AAA mesh, resulting in maximum nodal surface distances of 8 μm after running the algorithm for eight iterations. The methodology was then applied to 12 patient-specific AAA for which their corresponding unloaded geometries were generated in 5–8 iterations. The wall mechanics resulting from finite element analysis of the pressurized (CT image-based) and unloaded geometries were compared to quantify the relative importance of using an unloaded geometry for AAA biomechanics. The pressurized AAA models underestimate peak wall stress (quantified by the first principal stress component) on average by 15% compared to the unloaded AAA models. The validation and application of the method, readily compatible with any finite element solver, underscores the importance of generating the unloaded AAA volume mesh prior to using wall stress as a biomechanical marker for rupture risk assessment. PMID:27538124

Atmospheric model development in support of SEASAT. Volume 2: Analysis models

NASA Technical Reports Server (NTRS)

Langland, R. A.

1977-01-01

As part of the SEASAT program of NASA, two sets of analysis programs were developed for the Jet Propulsion Laboratory. One set of programs produce 63 x 63 horizontal mesh analyses on a polar stereographic grid. The other set produces 187 x 187 third mesh analyses. The parameters analyzed include sea surface temperature, sea level pressure and twelve levels of upper air temperature, height and wind analyses. The analysis output is used to initialize the primitive equation forecast models.

ANSYS duplicate finite-element checker routine

NASA Technical Reports Server (NTRS)

Ortega, R.

1995-01-01

An ANSYS finite-element code routine to check for duplicated elements within the volume of a three-dimensional (3D) finite-element mesh was developed. The routine developed is used for checking floating elements within a mesh, identically duplicated elements, and intersecting elements with a common face. A space shuttle main engine alternate turbopump development high pressure oxidizer turbopump finite-element model check using the developed subroutine is discussed. Finally, recommendations are provided for duplicate element checking of 3D finite-element models.

Direction-aware Slope Limiter for 3D Cubic Grids with Adaptive Mesh Refinement

DOE PAGES

Velechovsky, Jan; Francois, Marianne M.; Masser, Thomas

2018-06-07

In the context of finite volume methods for hyperbolic systems of conservation laws, slope limiters are an effective way to suppress creation of unphysical local extrema and/or oscillations near discontinuities. We investigate properties of these limiters as applied to piecewise linear reconstructions of conservative fluid quantities in three-dimensional simulations. In particular, we are interested in linear reconstructions on Cartesian adaptively refined meshes, where a reconstructed fluid quantity at a face center depends on more than a single gradient component of the quantity. We design a new slope limiter, which combines the robustness of a minmod limiter with the accuracy ofmore » a van Leer limiter. The limiter is called Direction-Aware Limiter (DAL), because the combination is based on a principal flow direction. In particular, DAL is useful in situations where the Barth–Jespersen limiter for general meshes fails to maintain global linear functions, such as on cubic computational meshes with stencils including only faceneighboring cells. Here, we verify the new slope limiter on a suite of standard hydrodynamic test problems on Cartesian adaptively refined meshes. Lastly, we demonstrate reduced mesh imprinting; for radially symmetric problems such as the Sedov blast wave or the Noh implosion test cases, the results with DAL show better preservation of radial symmetry compared to the other standard methods on Cartesian meshes.« less

Direction-aware Slope Limiter for 3D Cubic Grids with Adaptive Mesh Refinement

DOE Office of Scientific and Technical Information (OSTI.GOV)

Velechovsky, Jan; Francois, Marianne M.; Masser, Thomas

In the context of finite volume methods for hyperbolic systems of conservation laws, slope limiters are an effective way to suppress creation of unphysical local extrema and/or oscillations near discontinuities. We investigate properties of these limiters as applied to piecewise linear reconstructions of conservative fluid quantities in three-dimensional simulations. In particular, we are interested in linear reconstructions on Cartesian adaptively refined meshes, where a reconstructed fluid quantity at a face center depends on more than a single gradient component of the quantity. We design a new slope limiter, which combines the robustness of a minmod limiter with the accuracy ofmore » a van Leer limiter. The limiter is called Direction-Aware Limiter (DAL), because the combination is based on a principal flow direction. In particular, DAL is useful in situations where the Barth–Jespersen limiter for general meshes fails to maintain global linear functions, such as on cubic computational meshes with stencils including only faceneighboring cells. Here, we verify the new slope limiter on a suite of standard hydrodynamic test problems on Cartesian adaptively refined meshes. Lastly, we demonstrate reduced mesh imprinting; for radially symmetric problems such as the Sedov blast wave or the Noh implosion test cases, the results with DAL show better preservation of radial symmetry compared to the other standard methods on Cartesian meshes.« less

A hierarchical structure for automatic meshing and adaptive FEM analysis

NASA Technical Reports Server (NTRS)

Kela, Ajay; Saxena, Mukul; Perucchio, Renato

1987-01-01

A new algorithm for generating automatically, from solid models of mechanical parts, finite element meshes that are organized as spatially addressable quaternary trees (for 2-D work) or octal trees (for 3-D work) is discussed. Because such meshes are inherently hierarchical as well as spatially addressable, they permit efficient substructuring techniques to be used for both global analysis and incremental remeshing and reanalysis. The global and incremental techniques are summarized and some results from an experimental closed loop 2-D system in which meshing, analysis, error evaluation, and remeshing and reanalysis are done automatically and adaptively are presented. The implementation of 3-D work is briefly discussed.

A critical analysis of some popular methods for the discretisation of the gradient operator in finite volume methods

NASA Astrophysics Data System (ADS)

Syrakos, Alexandros; Varchanis, Stylianos; Dimakopoulos, Yannis; Goulas, Apostolos; Tsamopoulos, John

2017-12-01

Finite volume methods (FVMs) constitute a popular class of methods for the numerical simulation of fluid flows. Among the various components of these methods, the discretisation of the gradient operator has received less attention despite its fundamental importance with regards to the accuracy of the FVM. The most popular gradient schemes are the divergence theorem (DT) (or Green-Gauss) scheme and the least-squares (LS) scheme. Both are widely believed to be second-order accurate, but the present study shows that in fact the common variant of the DT gradient is second-order accurate only on structured meshes whereas it is zeroth-order accurate on general unstructured meshes, and the LS gradient is second-order and first-order accurate, respectively. This is explained through a theoretical analysis and is confirmed by numerical tests. The schemes are then used within a FVM to solve a simple diffusion equation on unstructured grids generated by several methods; the results reveal that the zeroth-order accuracy of the DT gradient is inherited by the FVM as a whole, and the discretisation error does not decrease with grid refinement. On the other hand, use of the LS gradient leads to second-order accurate results, as does the use of alternative, consistent, DT gradient schemes, including a new iterative scheme that makes the common DT gradient consistent at almost no extra cost. The numerical tests are performed using both an in-house code and the popular public domain partial differential equation solver OpenFOAM.

Interpolation methods and the accuracy of lattice-Boltzmann mesh refinement

DOE PAGES

Guzik, Stephen M.; Weisgraber, Todd H.; Colella, Phillip; ...

2013-12-10

A lattice-Boltzmann model to solve the equivalent of the Navier-Stokes equations on adap- tively refined grids is presented. A method for transferring information across interfaces between different grid resolutions was developed following established techniques for finite- volume representations. This new approach relies on a space-time interpolation and solving constrained least-squares problems to ensure conservation. The effectiveness of this method at maintaining the second order accuracy of lattice-Boltzmann is demonstrated through a series of benchmark simulations and detailed mesh refinement studies. These results exhibit smaller solution errors and improved convergence when compared with similar approaches relying only on spatial interpolation. Examplesmore » highlighting the mesh adaptivity of this method are also provided.« less

A Novel Coarsening Method for Scalable and Efficient Mesh Generation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Yoo, A; Hysom, D; Gunney, B

2010-12-02

In this paper, we propose a novel mesh coarsening method called brick coarsening method. The proposed method can be used in conjunction with any graph partitioners and scales to very large meshes. This method reduces problem space by decomposing the original mesh into fixed-size blocks of nodes called bricks, layered in a similar way to conventional brick laying, and then assigning each node of the original mesh to appropriate brick. Our experiments indicate that the proposed method scales to very large meshes while allowing simple RCB partitioner to produce higher-quality partitions with significantly less edge cuts. Our results further indicatemore » that the proposed brick-coarsening method allows more complicated partitioners like PT-Scotch to scale to very large problem size while still maintaining good partitioning performance with relatively good edge-cut metric. Graph partitioning is an important problem that has many scientific and engineering applications in such areas as VLSI design, scientific computing, and resource management. Given a graph G = (V,E), where V is the set of vertices and E is the set of edges, (k-way) graph partitioning problem is to partition the vertices of the graph (V) into k disjoint groups such that each group contains roughly equal number of vertices and the number of edges connecting vertices in different groups is minimized. Graph partitioning plays a key role in large scientific computing, especially in mesh-based computations, as it is used as a tool to minimize the volume of communication and to ensure well-balanced load across computing nodes. The impact of graph partitioning on the reduction of communication can be easily seen, for example, in different iterative methods to solve a sparse system of linear equation. Here, a graph partitioning technique is applied to the matrix, which is basically a graph in which each edge is a non-zero entry in the matrix, to allocate groups of vertices to processors in such a way that many of matrix-vector multiplication can be performed locally on each processor and hence to minimize communication. Furthermore, a good graph partitioning scheme ensures the equal amount of computation performed on each processor. Graph partitioning is a well known NP-complete problem, and thus the most commonly used graph partitioning algorithms employ some forms of heuristics. These algorithms vary in terms of their complexity, partition generation time, and the quality of partitions, and they tend to trade off these factors. A significant challenge we are currently facing at the Lawrence Livermore National Laboratory is how to partition very large meshes on massive-size distributed memory machines like IBM BlueGene/P, where scalability becomes a big issue. For example, we have found that the ParMetis, a very popular graph partitioning tool, can only scale to 16K processors. An ideal graph partitioning method on such an environment should be fast and scale to very large meshes, while producing high quality partitions. This is an extremely challenging task, as to scale to that level, the partitioning algorithm should be simple and be able to produce partitions that minimize inter-processor communications and balance the load imposed on the processors. Our goals in this work are two-fold: (1) To develop a new scalable graph partitioning method with good load balancing and communication reduction capability. (2) To study the performance of the proposed partitioning method on very large parallel machines using actual data sets and compare the performance to that of existing methods. The proposed method achieves the desired scalability by reducing the mesh size. For this, it coarsens an input mesh into a smaller size mesh by coalescing the vertices and edges of the original mesh into a set of mega-vertices and mega-edges. A new coarsening method called brick algorithm is developed in this research. In the brick algorithm, the zones in a given mesh are first grouped into fixed size blocks called bricks. These brick are then laid in a way similar to conventional brick laying technique, which reduces the number of neighboring blocks each block needs to communicate. Contributions of this research are as follows: (1) We have developed a novel method that scales to a really large problem size while producing high quality mesh partitions; (2) We measured the performance and scalability of the proposed method on a machine of massive size using a set of actual large complex data sets, where we have scaled to a mesh with 110 million zones using our method. To the best of our knowledge, this is the largest complex mesh that a partitioning method is successfully applied to; and (3) We have shown that proposed method can reduce the number of edge cuts by as much as 65%.« less

Computational Systems for Multidisciplinary Applications

NASA Technical Reports Server (NTRS)

Soni, Bharat; Haupt, Tomasz; Koomullil, Roy; Luke, Edward; Thompson, David

2002-01-01

In this paper, we briefly describe our efforts to develop complex simulation systems. We focus first on four key infrastructure items: enterprise computational services, simulation synthesis, geometry modeling and mesh generation, and a fluid flow solver for arbitrary meshes. We conclude by presenting three diverse applications developed using these technologies.

On the Use of Parmetric-CAD Systems and Cartesian Methods for Aerodynamic Design

NASA Technical Reports Server (NTRS)

Nemec, Marian; Aftosmis, Michael J.; Pulliam, Thomas H.

2004-01-01

Automated, high-fidelity tools for aerodynamic design face critical issues in attempting to optimize real-life geometry arid in permitting radical design changes. Success in these areas promises not only significantly shorter design- cycle times, but also superior and unconventional designs. To address these issues, we investigate the use of a parmetric-CAD system in conjunction with an embedded-boundary Cartesian method. Our goal is to combine the modeling capabilities of feature-based CAD with the robustness and flexibility of component-based Cartesian volume-mesh generation for complex geometry problems. We present the development of an automated optimization frame-work with a focus on the deployment of such a CAD-based design approach in a heterogeneous parallel computing environment.

Effect of microstructure on the elasto-viscoplastic deformation of dual phase titanium structures

NASA Astrophysics Data System (ADS)

Ozturk, Tugce; Rollett, Anthony D.

2018-02-01

The present study is devoted to the creation of a process-structure-property database for dual phase titanium alloys, through a synthetic microstructure generation method and a mesh-free fast Fourier transform based micromechanical model that operates on a discretized image of the microstructure. A sensitivity analysis is performed as a precursor to determine the statistically representative volume element size for creating 3D synthetic microstructures based on additively manufactured Ti-6Al-4V characteristics, which are further modified to expand the database for features of interest, e.g., lath thickness. Sets of titanium hardening parameters are extracted from literature, and The relative effect of the chosen microstructural features is quantified through comparisons of average and local field distributions.

Solid Hydrocarbon Assisted Reduction: A New Process of Generating Micron Scale Metal Particles

DTIC Science & Technology

2015-03-01

Figure 4.  Stainless Steel Mesh and Sample Containment ................................. 14  Figure 5.  Zero Background XRD Sample Holder...from the oven. Later experiments with iron oxide employed T304 stainless steel mesh, basically fashioned into the same shape as that shown for...200X200S0021W48T by TWP Inc. in Berkeley, California. The stainless steel mesh was folded in three segments similar to the Grafoil it replaced. 14 Figure 4

The aerodynamic characteristics of vortex ingestion for the F/A-18 inlet duct

NASA Technical Reports Server (NTRS)

Anderson, Bernhard H.

1991-01-01

A Reduced Navier-Stokes (RNS) solution technique was successfully combined with the concept of partitioned geometry and mesh generation to form a very efficient 3D RNS code aimed at the analysis-design engineering environment. Partitioned geometry and mesh generation is a pre-processor to augment existing geometry and grid generation programs which allows the solver to (1) recluster an existing gridlife mesh lattice, and (2) perturb an existing gridfile definition to alter the cross-sectional shape and inlet duct centerline distribution without returning to the external geometry and grid generator. The present results provide a quantitative validation of the initial value space marching 3D RNS procedure and demonstrates accurate predictions of the engine face flow field, with a separation present in the inlet duct as well as when vortex generators are installed to supress flow separation. The present results also demonstrate the ability of the 3D RNS procedure to analyze the flow physics associated with vortex ingestion in general geometry ducts such as the F/A-18 inlet. At the conditions investigated, these interactions are basically inviscid like, i.e., the dominant aerodynamic characteristics have their origin in inviscid flow theory.

Prospects and expectations for unstructured methods

NASA Technical Reports Server (NTRS)

Baker, Timothy J.

1995-01-01

The last decade has witnessed a vigorous and sustained research effort on unstructured methods for computational fluid dynamics. Unstructured mesh generators and flow solvers have evolved to the point where they are now in use for design purposes throughout the aerospace industry. In this paper we survey the various mesh types, structured as well as unstructured, and examine their relative strengths and weaknesses. We argue that unstructured methodology does offer the best prospect for the next generation of computational fluid dynamics algorithms.

Direct metal laser sintering (DMLS) of a customized titanium mesh for prosthetically guided bone regeneration of atrophic maxillary arches.

PubMed

Ciocca, L; Fantini, M; De Crescenzio, F; Corinaldesi, G; Scotti, R

2011-11-01

This study describes a protocol for the direct manufacturing of a customized titanium mesh using CAD-CAM procedures and rapid prototyping to augment maxillary bone and minimize surgery when severe atrophy or post-oncological deformities are present. Titanium mesh and particulate autogenous plus bovine demineralised bone were planned for patient rehabilitation. Bone augmentation planning was performed using the pre-op CT data set in relation to the prosthetic demands, minimizing the bone volume to augment at the minimum necessary for implants. The containment mesh design was used to prototype the 0.6 mm thickness customized titanium mesh, by direct metal laser sintering. The levels of regenerated bone were calculated using the post-op CT data set, through comparison with the pre-op CT data set. The mean vertical height difference of the crestal bone was 2.57 mm, while the mean buccal-palatal dimension of thickness difference was 3.41 mm. All planned implants were positioned after an 8 month healing period using two-step implant surgery, and finally restored with a partial fixed prosthesis. We present a viable and reproducible method to determine the correct bone augmentation prior to implant placement and CAD-CAM to produce a customized direct laser-sintered titanium mesh that can be used for bone regeneration.

Mesh-size effects on drift sample composition as determined with a triple net sampler

USGS Publications Warehouse

Slack, K.V.; Tilley, L.J.; Kennelly, S.S.

1991-01-01

Nested nets of three different mesh apertures were used to study mesh-size effects on drift collected in a small mountain stream. The innermost, middle, and outermost nets had, respectively, 425 ??m, 209 ??m and 106 ??m openings, a design that reduced clogging while partitioning collections into three size groups. The open area of mesh in each net, from largest to smallest mesh opening, was 3.7, 5.7 and 8.0 times the area of the net mouth. Volumes of filtered water were determined with a flowmeter. The results are expressed as (1) drift retained by each net, (2) drift that would have been collected by a single net of given mesh size, and (3) the percentage of total drift (the sum of the catches from all three nets) that passed through the 425 ??m and 209 ??m nets. During a two day period in August 1986, Chironomidae larvae were dominant numerically in all 209 ??m and 106 ??m samples and midday 425 ??m samples. Large drifters (Ephemerellidae) occurred only in 425 ??m or 209 ??m nets, but the general pattern was an increase in abundance and number of taxa with decreasing mesh size. Relatively more individuals occurred in the larger mesh nets at night than during the day. The two larger mesh sizes retained 70% of the total sediment/detritus in the drift collections, and this decreased the rate of clogging of the 106 ??m net. If an objective of a sampling program is to compare drift density or drift rate between areas or sampling dates, the same mesh size should be used for all sample collection and processing. The mesh aperture used for drift collection should retain all species and life stages of significance in a study. The nested net design enables an investigator to test the adequacy of drift samples. ?? 1991 Kluwer Academic Publishers.

Application of CHAD hydrodynamics to shock-wave problems

DOE Office of Scientific and Technical Information (OSTI.GOV)

Trease, H.E.; O`Rourke, P.J.; Sahota, M.S.

1997-12-31

CHAD is the latest in a sequence of continually evolving computer codes written to effectively utilize massively parallel computer architectures and the latest grid generators for unstructured meshes. Its applications range from automotive design issues such as in-cylinder and manifold flows of internal combustion engines, vehicle aerodynamics, underhood cooling and passenger compartment heating, ventilation, and air conditioning to shock hydrodynamics and materials modeling. CHAD solves the full unsteady Navier-Stoke equations with the k-epsilon turbulence model in three space dimensions. The code has four major features that distinguish it from the earlier KIVA code, also developed at Los Alamos. First, itmore » is based on a node-centered, finite-volume method in which, like finite element methods, all fluid variables are located at computational nodes. The computational mesh efficiently and accurately handles all element shapes ranging from tetrahedra to hexahedra. Second, it is written in standard Fortran 90 and relies on automatic domain decomposition and a universal communication library written in standard C and MPI for unstructured grids to effectively exploit distributed-memory parallel architectures. Thus the code is fully portable to a variety of computing platforms such as uniprocessor workstations, symmetric multiprocessors, clusters of workstations, and massively parallel platforms. Third, CHAD utilizes a variable explicit/implicit upwind method for convection that improves computational efficiency in flows that have large velocity Courant number variations due to velocity of mesh size variations. Fourth, CHAD is designed to also simulate shock hydrodynamics involving multimaterial anisotropic behavior under high shear. The authors will discuss CHAD capabilities and show several sample calculations showing the strengths and weaknesses of CHAD.« less

Automatic, unstructured mesh optimization for simulation and assessment of tide- and surge-driven hydrodynamics in a longitudinal estuary: St. Johns River

NASA Astrophysics Data System (ADS)

Bacopoulos, Peter

2018-05-01

A localized truncation error analysis with complex derivatives (LTEA+CD) is applied recursively with advanced circulation (ADCIRC) simulations of tides and storm surge for finite element mesh optimization. Mesh optimization is demonstrated with two iterations of LTEA+CD for tidal simulation in the lower 200 km of the St. Johns River, located in northeast Florida, and achieves more than an over 50% decrease in the number of mesh nodes, relating to a twofold increase in efficiency, at a zero cost to model accuracy. The recursively generated meshes using LTEA+CD lead to successive reductions in the global cumulative truncation error associated with the model mesh. Tides are simulated with root mean square error (RMSE) of 0.09-0.21 m and index of agreement (IA) values generally in the 80s and 90s percentage ranges. Tidal currents are simulated with RMSE of 0.09-0.23 m s-1 and IA values of 97% and greater. Storm tide due to Hurricane Matthew 2016 is simulated with RMSE of 0.09-0.33 m and IA values of 75-96%. Analysis of the LTEA+CD results shows the M2 constituent to dominate the node spacing requirement in the St. Johns River, with the M4 and M6 overtides and the STEADY constituent contributing some. Friction is the predominant physical factor influencing the target element size distribution, especially along the main river stem, while frequency (inertia) and Coriolis (rotation) are supplementary contributing factors. The combination of interior- and boundary-type computational molecules, providing near-full coverage of the model domain, renders LTEA+CD an attractive mesh generation/optimization tool for complex coastal and estuarine domains. The mesh optimization procedure using LTEA+CD is automatic and extensible to other finite element-based numerical models. Discussion is provided on the scope of LTEA+CD, the starting point (mesh) of the procedure, the user-specified scaling of the LTEA+CD results, and the iteration (termination) of LTEA+CD for mesh optimization.

Automatic measurement of contact angle in pore-space images

NASA Astrophysics Data System (ADS)

AlRatrout, Ahmed; Raeini, Ali Q.; Bijeljic, Branko; Blunt, Martin J.

2017-11-01

A new approach is presented to measure the in-situ contact angle (θ) between immiscible fluids, applied to segmented pore-scale X-ray images. We first identify and mesh the fluid/fluid and fluid/solid interfaces. A Gaussian smoothing is applied to this mesh to eliminate artifacts associated with the voxelized nature of the image, while preserving large-scale features of the rock surface. Then, for the fluid/fluid interface we apply an additional smoothing and adjustment of the mesh to impose a constant curvature. We then track the three-phase contact line, and the two vectors that have a direction perpendicular to both surfaces: the contact angle is found from the dot product of these vectors where they meet at the contact line. This calculation can be applied at every point on the mesh at the contact line. We automatically generate contact angle values representing each invaded pore-element in the image with high accuracy. To validate the approach, we first study synthetic three-dimensional images of a spherical droplet of oil residing on a tilted flat solid surface surrounded by brine and show that our results are accurate to within 3° if the sphere diameter is 2 or more voxels. We then apply this method to oil/brine systems imaged at ambient temperature and reservoir pressure (10MPa) using X-ray microtomography (Singh et al., 2016). We analyse an image volume of diameter approximately 4.6 mm and 10.7 mm long, obtaining hundreds of thousands of values from a dataset with around 700 million voxels. We show that in a system of altered wettability, contact angles both less than and greater than 90° can be observed. This work provides a rapid method to provide an accurate characterization of pore-scale wettability, which is important for the design and assessment of hydrocarbon recovery and carbon dioxide storage.

High Energy Boundary Conditions for a Cartesian Mesh Euler Solver

NASA Technical Reports Server (NTRS)

Pandya, Shishir; Murman, Scott; Aftosmis, Michael

2003-01-01

Inlets and exhaust nozzles are common place in the world of flight. Yet, many aerodynamic simulation packages do not provide a method of modelling such high energy boundaries in the flow field. For the purposes of aerodynamic simulation, inlets and exhausts are often fared over and it is assumed that the flow differences resulting from this assumption are minimal. While this is an adequate assumption for the prediction of lift, the lack of a plume behind the aircraft creates an evacuated base region thus effecting both drag and pitching moment values. In addition, the flow in the base region is often mis-predicted resulting in incorrect base drag. In order to accurately predict these quantities, a method for specifying inlet and exhaust conditions needs to be available in aerodynamic simulation packages. A method for a first approximation of a plume without accounting for chemical reactions is added to the Cartesian mesh based aerodynamic simulation package CART3D. The method consists of 3 steps. In the first step, a components approach where each triangle is assigned a component number is used. Here, a method for marking the inlet or exhaust plane triangles as separate components is discussed. In step two, the flow solver is modified to accept a reference state for the components marked inlet or exhaust. In the third step, the flow solver uses these separated components and the reference state to compute the correct flow condition at that triangle. The present method is implemented in the CART3D package which consists of a set of tools for generating a Cartesian volume mesh from a set of component triangulations. The Euler equations are solved on the resulting unstructured Cartesian mesh. The present methods is implemented in this package and its usefulness is demonstrated with two validation cases. A generic missile body is also presented to show the usefulness of the method on a real world geometry.

Economic evaluation of a mentorship and enhanced supervision program to improve quality of integrated management of childhood illness care in rural Rwanda.

PubMed

Manzi, Anatole; Mugunga, Jean Claude; Iyer, Hari S; Magge, Hema; Nkikabahizi, Fulgence; Hirschhorn, Lisa R

2018-01-01

Integrated management of childhood illness (IMCI) can reduce under-5 morbidity and mortality in low-income settings. A program to strengthen IMCI practices through Mentorship and Enhanced Supervision at Health centers (MESH) was implemented in two rural districts in eastern Rwanda in 2010. We estimated cost per improvement in quality of care as measured by the difference in correct diagnosis and correct treatment at baseline and 12 months of MESH. Costs of developing and implementing MESH were estimated in 2011 United States Dollars (USD) from the provider perspective using both top-down and bottom-up approaches, from programmatic financial records and site-level data. Improvement in quality of care attributed to MESH was measured through case management observations (n = 292 cases at baseline, 413 cases at 12 months), with outcomes from the intervention already published. Sensitivity analyses were conducted to assess uncertainty under different assumptions of quality of care and patient volume. The total annual cost of MESH was US$ 27,955.74 and the average cost added by MESH per IMCI patient was US$1.06. Salary and benefits accounted for the majority of total annual costs (US$22,400 /year). Improvements in quality of care after 12 months of MESH implementation cost US$2.95 per additional child correctly diagnosed and $5.30 per additional child correctly treated. The incremental costs per additional child correctly diagnosed and child correctly treated suggest that MESH could be an affordable method for improving IMCI quality of care elsewhere in Rwanda and similar settings. Integrating MESH into existing supervision systems would further reduce costs, increasing potential for spread.

Precise segmentation of multiple organs in CT volumes using learning-based approach and information theory.

PubMed

Lu, Chao; Zheng, Yefeng; Birkbeck, Neil; Zhang, Jingdan; Kohlberger, Timo; Tietjen, Christian; Boettger, Thomas; Duncan, James S; Zhou, S Kevin

2012-01-01

In this paper, we present a novel method by incorporating information theory into the learning-based approach for automatic and accurate pelvic organ segmentation (including the prostate, bladder and rectum). We target 3D CT volumes that are generated using different scanning protocols (e.g., contrast and non-contrast, with and without implant in the prostate, various resolution and position), and the volumes come from largely diverse sources (e.g., diseased in different organs). Three key ingredients are combined to solve this challenging segmentation problem. First, marginal space learning (MSL) is applied to efficiently and effectively localize the multiple organs in the largely diverse CT volumes. Second, learning techniques, steerable features, are applied for robust boundary detection. This enables handling of highly heterogeneous texture pattern. Third, a novel information theoretic scheme is incorporated into the boundary inference process. The incorporation of the Jensen-Shannon divergence further drives the mesh to the best fit of the image, thus improves the segmentation performance. The proposed approach is tested on a challenging dataset containing 188 volumes from diverse sources. Our approach not only produces excellent segmentation accuracy, but also runs about eighty times faster than previous state-of-the-art solutions. The proposed method can be applied to CT images to provide visual guidance to physicians during the computer-aided diagnosis, treatment planning and image-guided radiotherapy to treat cancers in pelvic region.

A cellular automaton - finite volume method for the simulation of dendritic and eutectic growth in binary alloys using an adaptive mesh refinement

NASA Astrophysics Data System (ADS)

Dobravec, Tadej; Mavrič, Boštjan; Šarler, Božidar

2017-11-01

A two-dimensional model to simulate the dendritic and eutectic growth in binary alloys is developed. A cellular automaton method is adopted to track the movement of the solid-liquid interface. The diffusion equation is solved in the solid and liquid phases by using an explicit finite volume method. The computational domain is divided into square cells that can be hierarchically refined or coarsened using an adaptive mesh based on the quadtree algorithm. Such a mesh refines the regions of the domain near the solid-liquid interface, where the highest concentration gradients are observed. In the regions where the lowest concentration gradients are observed the cells are coarsened. The originality of the work is in the novel, adaptive approach to the efficient and accurate solution of the posed multiscale problem. The model is verified and assessed by comparison with the analytical results of the Lipton-Glicksman-Kurz model for the steady growth of a dendrite tip and the Jackson-Hunt model for regular eutectic growth. Several examples of typical microstructures are simulated and the features of the method as well as further developments are discussed.

Mass-corrections for the conservative coupling of flow and transport on collocated meshes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Waluga, Christian, E-mail: waluga@ma.tum.de; Wohlmuth, Barbara; Rüde, Ulrich

2016-01-15

Buoyancy-driven flow models demand a careful treatment of the mass-balance equation to avoid spurious source and sink terms in the non-linear coupling between flow and transport. In the context of finite-elements, it is therefore commonly proposed to employ sufficiently rich pressure spaces, containing piecewise constant shape functions to obtain local or even strong mass-conservation. In three-dimensional computations, this usually requires nonconforming approaches, special meshes or higher order velocities, which make these schemes prohibitively expensive for some applications and complicate the implementation into legacy code. In this paper, we therefore propose a lean and conservatively coupled scheme based on standard stabilizedmore » linear equal-order finite elements for the Stokes part and vertex-centered finite volumes for the energy equation. We show that in a weak mass-balance it is possible to recover exact conservation properties by a local flux-correction which can be computed efficiently on the control volume boundaries of the transport mesh. We discuss implementation aspects and demonstrate the effectiveness of the flux-correction by different two- and three-dimensional examples which are motivated by geophysical applications.« less

Large scale generation of micro-droplet array by vapor condensation on mesh screen piece

PubMed Central

Xie, Jian; Xu, Jinliang; He, Xiaotian; Liu, Qi

2017-01-01

We developed a novel micro-droplet array system, which is based on the distinct three dimensional mesh screen structure and sintering and oxidation induced thermal-fluid performance. Mesh screen was sintered on a copper substrate by bonding the two components. Non-uniform residue stress is generated along weft wires, with larger stress on weft wire top location than elsewhere. Oxidation of the sintered package forms micro pits with few nanograsses on weft wire top location, due to the stress corrosion mechanism. Nanograsses grow elsewhere to show hydrophobic behavior. Thus, surface-energy-gradient weft wires are formed. Cooling the structure in a wet air environment nucleates water droplets on weft wire top location, which is more “hydrophilic” than elsewhere. Droplet size is well controlled by substrate temperature, air humidity and cooling time. Because warp wires do not contact copper substrate and there is a larger conductive thermal resistance between warp wire and weft wire, warp wires contribute less to condensation but function as supporting structure. The surface energy analysis of drops along weft wires explains why droplet array can be generated on the mesh screen piece. Because the commercial material is used, the droplet system is cost effective and can be used for large scale utilization. PMID:28054635

Large scale generation of micro-droplet array by vapor condensation on mesh screen piece.

PubMed

Xie, Jian; Xu, Jinliang; He, Xiaotian; Liu, Qi

2017-01-05

We developed a novel micro-droplet array system, which is based on the distinct three dimensional mesh screen structure and sintering and oxidation induced thermal-fluid performance. Mesh screen was sintered on a copper substrate by bonding the two components. Non-uniform residue stress is generated along weft wires, with larger stress on weft wire top location than elsewhere. Oxidation of the sintered package forms micro pits with few nanograsses on weft wire top location, due to the stress corrosion mechanism. Nanograsses grow elsewhere to show hydrophobic behavior. Thus, surface-energy-gradient weft wires are formed. Cooling the structure in a wet air environment nucleates water droplets on weft wire top location, which is more "hydrophilic" than elsewhere. Droplet size is well controlled by substrate temperature, air humidity and cooling time. Because warp wires do not contact copper substrate and there is a larger conductive thermal resistance between warp wire and weft wire, warp wires contribute less to condensation but function as supporting structure. The surface energy analysis of drops along weft wires explains why droplet array can be generated on the mesh screen piece. Because the commercial material is used, the droplet system is cost effective and can be used for large scale utilization.

Large scale generation of micro-droplet array by vapor condensation on mesh screen piece

NASA Astrophysics Data System (ADS)

Xie, Jian; Xu, Jinliang; He, Xiaotian; Liu, Qi

2017-01-01

We developed a novel micro-droplet array system, which is based on the distinct three dimensional mesh screen structure and sintering and oxidation induced thermal-fluid performance. Mesh screen was sintered on a copper substrate by bonding the two components. Non-uniform residue stress is generated along weft wires, with larger stress on weft wire top location than elsewhere. Oxidation of the sintered package forms micro pits with few nanograsses on weft wire top location, due to the stress corrosion mechanism. Nanograsses grow elsewhere to show hydrophobic behavior. Thus, surface-energy-gradient weft wires are formed. Cooling the structure in a wet air environment nucleates water droplets on weft wire top location, which is more “hydrophilic” than elsewhere. Droplet size is well controlled by substrate temperature, air humidity and cooling time. Because warp wires do not contact copper substrate and there is a larger conductive thermal resistance between warp wire and weft wire, warp wires contribute less to condensation but function as supporting structure. The surface energy analysis of drops along weft wires explains why droplet array can be generated on the mesh screen piece. Because the commercial material is used, the droplet system is cost effective and can be used for large scale utilization.

MeSH Now: automatic MeSH indexing at PubMed scale via learning to rank.

PubMed

Mao, Yuqing; Lu, Zhiyong

2017-04-17

MeSH indexing is the task of assigning relevant MeSH terms based on a manual reading of scholarly publications by human indexers. The task is highly important for improving literature retrieval and many other scientific investigations in biomedical research. Unfortunately, given its manual nature, the process of MeSH indexing is both time-consuming (new articles are not immediately indexed until 2 or 3 months later) and costly (approximately ten dollars per article). In response, automatic indexing by computers has been previously proposed and attempted but remains challenging. In order to advance the state of the art in automatic MeSH indexing, a community-wide shared task called BioASQ was recently organized. We propose MeSH Now, an integrated approach that first uses multiple strategies to generate a combined list of candidate MeSH terms for a target article. Through a novel learning-to-rank framework, MeSH Now then ranks the list of candidate terms based on their relevance to the target article. Finally, MeSH Now selects the highest-ranked MeSH terms via a post-processing module. We assessed MeSH Now on two separate benchmarking datasets using traditional precision, recall and F 1 -score metrics. In both evaluations, MeSH Now consistently achieved over 0.60 in F-score, ranging from 0.610 to 0.612. Furthermore, additional experiments show that MeSH Now can be optimized by parallel computing in order to process MEDLINE documents on a large scale. We conclude that MeSH Now is a robust approach with state-of-the-art performance for automatic MeSH indexing and that MeSH Now is capable of processing PubMed scale documents within a reasonable time frame. http://www.ncbi.nlm.nih.gov/CBBresearch/Lu/Demo/MeSHNow/ .

Syringe-Injectable Electronics with a Plug-and-Play Input/Output Interface.

PubMed

Schuhmann, Thomas G; Yao, Jun; Hong, Guosong; Fu, Tian-Ming; Lieber, Charles M

2017-09-13

Syringe-injectable mesh electronics represent a new paradigm for brain science and neural prosthetics by virtue of the stable seamless integration of the electronics with neural tissues, a consequence of the macroporous mesh electronics structure with all size features similar to or less than individual neurons and tissue-like flexibility. These same properties, however, make input/output (I/O) connection to measurement electronics challenging, and work to-date has required methods that could be difficult to implement by the life sciences community. Here we present a new syringe-injectable mesh electronics design with plug-and-play I/O interfacing that is rapid, scalable, and user-friendly to nonexperts. The basic design tapers the ultraflexible mesh electronics to a narrow stem that routes all of the device/electrode interconnects to I/O pads that are inserted into a standard zero insertion force (ZIF) connector. Studies show that the entire plug-and-play mesh electronics can be delivered through capillary needles with precise targeting using microliter-scale injection volumes similar to the standard mesh electronics design. Electrical characterization of mesh electronics containing platinum (Pt) electrodes and silicon (Si) nanowire field-effect transistors (NW-FETs) demonstrates the ability to interface arbitrary devices with a contact resistance of only 3 Ω. Finally, in vivo injection into mice required only minutes for I/O connection and yielded expected local field potential (LFP) recordings from a compact head-stage compatible with chronic studies. Our results substantially lower barriers for use by new investigators and open the door for increasingly sophisticated and multifunctional mesh electronics designs for both basic and translational studies.

Effects of glass fiber mesh with different fiber content and structures on the compressive properties of complete dentures.

PubMed

Yu, Sang-Hui; Cho, Hye-Won; Oh, Seunghan; Bae, Ji-Myung

2015-06-01

No study has yet evaluated the strength of complete dentures reinforced with glass fiber meshes with different content and structures. The purpose of this study was to compare the reinforcing effects of glass fiber mesh with different content and structures with that of metal mesh in complete dentures. Two types of glass fiber mesh were used: SES mesh (SES) and glass cloth (GC2, GC3, and GC4). A metal mesh was used for comparison. The complete dentures were made by placing the reinforcement 1 mm away from the tissue surface. A control group was prepared without any reinforcement (n=10). The compressive properties were measured by a universal testing machine at a crosshead speed of 5 mm/min. The results were analyzed with the Kruskal-Wallis test and the Duncan multiple range test (α=.05). The fracture resistance of the SES group was significantly higher than that of the control, GC4, and metal groups (asymptotic P=.004), but not significantly different from the GC2 and GC3 groups. The toughness of the SES and GC3 groups was significantly higher than that of the others (asymptotic P<.001), but not significantly different from that of the GC4 group. SES and GC3, which have different structures but similar volume content, were the most effective in reinforcing complete dentures. The content of the glass fiber mesh seemed more important than the structures. Copyright © 2015 Editorial Council for the Journal of Prosthetic Dentistry. Published by Elsevier Inc. All rights reserved.

Evaluation of mechanical properties in metal wire mesh supported selective catalytic reduction (SCR) catalyst structures

NASA Astrophysics Data System (ADS)

Rajath, S.; Siddaraju, C.; Nandakishora, Y.; Roy, Sukumar

2018-04-01

The objective of this research is to evaluate certain specific mechanical properties of certain stainless steel wire mesh supported Selective catalytic reduction catalysts structures wherein the physical properties of the metal wire mesh and also its surface treatments played vital role thereby influencing the mechanical properties. As the adhesion between the stainless steel wire mesh and the catalyst material determines the bond strength and the erosion resistance of catalyst structures, surface modifications of the metal- wire mesh structure in order to facilitate the interface bonding is therefore very important to realize enhanced level of mechanical properties. One way to enhance such adhesion properties, the stainless steel wire mesh is treated with the various acids, i.e., chromic acid, phosphoric acid including certain mineral acids and combination of all those in various molar ratios that could generate surface active groups on metal surface that promotes good interface structure between the metal- wire mesh and metal oxide-based catalyst material and then the stainless steel wire mesh is dipped in the glass powder slurry containing some amount of organic binder. As a result of which the said catalyst material adheres to the metal-wire mesh surface more effectively that improves the erosion profile of supported catalysts structure including bond strength.

Investigation of Advanced Counterrotation Blade Configuration Concepts for High Speed Turboprop Systems. Task 3: Advanced Fan Section Grid Generator Final Report and Computer Program User's Manual

NASA Technical Reports Server (NTRS)

Crook, Andrew J.; Delaney, Robert A.

1991-01-01

A procedure is studied for generating three-dimensional grids for advanced turbofan engine fan section geometries. The procedure constructs a discrete mesh about engine sections containing the fan stage, an arbitrary number of axisymmetric radial flow splitters, a booster stage, and a bifurcated core/bypass flow duct with guide vanes. The mesh is an h-type grid system, the points being distributed with a transfinite interpolation scheme with axial and radial spacing being user specified. Elliptic smoothing of the grid in the meridional plane is a post-process option. The grid generation scheme is consistent with aerodynamic analyses utilizing the average-passage equation system developed by Dr. John Adamczyk of NASA Lewis. This flow solution scheme requires a series of blade specific grids each having a common axisymmetric mesh, but varying in the circumferential direction according to the geometry of the specific blade row.

Strategies Toward Automation of Overset Structured Surface Grid Generation

NASA Technical Reports Server (NTRS)

Chan, William M.

2017-01-01

An outline of a strategy for automation of overset structured surface grid generation on complex geometries is described. The starting point of the process consists of an unstructured surface triangulation representation of the geometry derived from a native CAD, STEP, or IGES definition, and a set of discretized surface curves that captures all geometric features of interest. The procedure for surface grid generation is decomposed into an algebraic meshing step, a hyperbolic meshing step, and a gap-filling step. This paper will focus primarily on the high-level plan with details on the algebraic step. The algorithmic procedure for the algebraic step involves analyzing the topology of the network of surface curves, distributing grid points appropriately on these curves, identifying domains bounded by four curves that can be meshed algebraically, concatenating the resulting grids into fewer patches, and extending appropriate boundaries of the concatenated grids to provide proper overlap. Results are presented for grids created on various aerospace vehicle components.

MeSH indexing based on automatically generated summaries

PubMed Central

2013-01-01

Background MEDLINE citations are manually indexed at the U.S. National Library of Medicine (NLM) using as reference the Medical Subject Headings (MeSH) controlled vocabulary. For this task, the human indexers read the full text of the article. Due to the growth of MEDLINE, the NLM Indexing Initiative explores indexing methodologies that can support the task of the indexers. Medical Text Indexer (MTI) is a tool developed by the NLM Indexing Initiative to provide MeSH indexing recommendations to indexers. Currently, the input to MTI is MEDLINE citations, title and abstract only. Previous work has shown that using full text as input to MTI increases recall, but decreases precision sharply. We propose using summaries generated automatically from the full text for the input to MTI to use in the task of suggesting MeSH headings to indexers. Summaries distill the most salient information from the full text, which might increase the coverage of automatic indexing approaches based on MEDLINE. We hypothesize that if the results were good enough, manual indexers could possibly use automatic summaries instead of the full texts, along with the recommendations of MTI, to speed up the process while maintaining high quality of indexing results. Results We have generated summaries of different lengths using two different summarizers, and evaluated the MTI indexing on the summaries using different algorithms: MTI, individual MTI components, and machine learning. The results are compared to those of full text articles and MEDLINE citations. Our results show that automatically generated summaries achieve similar recall but higher precision compared to full text articles. Compared to MEDLINE citations, summaries achieve higher recall but lower precision. Conclusions Our results show that automatic summaries produce better indexing than full text articles. Summaries produce similar recall to full text but much better precision, which seems to indicate that automatic summaries can efficiently capture the most important contents within the original articles. The combination of MEDLINE citations and automatically generated summaries could improve the recommendations suggested by MTI. On the other hand, indexing performance might be dependent on the MeSH heading being indexed. Summarization techniques could thus be considered as a feature selection algorithm that might have to be tuned individually for each MeSH heading. PMID:23802936

GRAPE- TWO-DIMENSIONAL GRIDS ABOUT AIRFOILS AND OTHER SHAPES BY THE USE OF POISSON'S EQUATION

NASA Technical Reports Server (NTRS)

Sorenson, R. L.

1994-01-01

The ability to treat arbitrary boundary shapes is one of the most desirable characteristics of a method for generating grids, including those about airfoils. In a grid used for computing aerodynamic flow over an airfoil, or any other body shape, the surface of the body is usually treated as an inner boundary and often cannot be easily represented as an analytic function. The GRAPE computer program was developed to incorporate a method for generating two-dimensional finite-difference grids about airfoils and other shapes by the use of the Poisson differential equation. GRAPE can be used with any boundary shape, even one specified by tabulated points and including a limited number of sharp corners. The GRAPE program has been developed to be numerically stable and computationally fast. GRAPE can provide the aerodynamic analyst with an efficient and consistent means of grid generation. The GRAPE procedure generates a grid between an inner and an outer boundary by utilizing an iterative procedure to solve the Poisson differential equation subject to geometrical restraints. In this method, the inhomogeneous terms of the equation are automatically chosen such that two important effects are imposed on the grid. The first effect is control of the spacing between mesh points along mesh lines intersecting the boundaries. The second effect is control of the angles with which mesh lines intersect the boundaries. Along with the iterative solution to Poisson's equation, a technique of coarse-fine sequencing is employed to accelerate numerical convergence. GRAPE program control cards and input data are entered via the NAMELIST feature. Each variable has a default value such that user supplied data is kept to a minimum. Basic input data consists of the boundary specification, mesh point spacings on the boundaries, and mesh line angles at the boundaries. Output consists of a dataset containing the grid data and, if requested, a plot of the generated mesh. The GRAPE program is written in FORTRAN IV for batch execution and has been implemented on a CDC 6000 series computer with a central memory requirement of approximately 135K (octal) of 60 bit words. For plotted output the commercially available DISSPLA graphics software package is required. The GRAPE program was developed in 1980.

Coarsening strategies for unstructured multigrid techniques with application to anisotropic problems

NASA Technical Reports Server (NTRS)

Morano, E.; Mavriplis, D. J.; Venkatakrishnan, V.

1995-01-01

Over the years, multigrid has been demonstrated as an efficient technique for solving inviscid flow problems. However, for viscous flows, convergence rates often degrade. This is generally due to the required use of stretched meshes (i.e., the aspect-ratio AR = delta y/delta x is much less than 1) in order to capture the boundary layer near the body. Usual techniques for generating a sequence of grids that produce proper convergence rates on isotopic meshes are not adequate for stretched meshes. This work focuses on the solution of Laplace's equation, discretized through a Galerkin finite-element formulation on unstructured stretched triangular meshes. A coarsening strategy is proposed and results are discussed.

Coarsening Strategies for Unstructured Multigrid Techniques with Application to Anisotropic Problems

NASA Technical Reports Server (NTRS)

Morano, E.; Mavriplis, D. J.; Venkatakrishnan, V.

1996-01-01

Over the years, multigrid has been demonstrated as an efficient technique for solving inviscid flow problems. However, for viscous flows, convergence rates often degrade. This is generally due to the required use of stretched meshes (i.e. the aspect-ratio AR = (delta)y/(delta)x much less than 1) in order to capture the boundary layer near the body. Usual techniques for generating a sequence of grids that produce proper convergence rates on isotropic meshes are not adequate for stretched meshes. This work focuses on the solution of Laplace's equation, discretized through a Galerkin finite-element formulation on unstructured stretched triangular meshes. A coarsening strategy is proposed and results are discussed.

A template-based approach for parallel hexahedral two-refinement

DOE PAGES

Owen, Steven J.; Shih, Ryan M.; Ernst, Corey D.

2016-10-17

Here, we provide a template-based approach for generating locally refined all-hex meshes. We focus specifically on refinement of initially structured grids utilizing a 2-refinement approach where uniformly refined hexes are subdivided into eight child elements. The refinement algorithm consists of identifying marked nodes that are used as the basis for a set of four simple refinement templates. The target application for 2-refinement is a parallel grid-based all-hex meshing tool for high performance computing in a distributed environment. The result is a parallel consistent locally refined mesh requiring minimal communication and where minimum mesh quality is greater than scaled Jacobian 0.3more » prior to smoothing.« less

A template-based approach for parallel hexahedral two-refinement

DOE Office of Scientific and Technical Information (OSTI.GOV)

Owen, Steven J.; Shih, Ryan M.; Ernst, Corey D.

Here, we provide a template-based approach for generating locally refined all-hex meshes. We focus specifically on refinement of initially structured grids utilizing a 2-refinement approach where uniformly refined hexes are subdivided into eight child elements. The refinement algorithm consists of identifying marked nodes that are used as the basis for a set of four simple refinement templates. The target application for 2-refinement is a parallel grid-based all-hex meshing tool for high performance computing in a distributed environment. The result is a parallel consistent locally refined mesh requiring minimal communication and where minimum mesh quality is greater than scaled Jacobian 0.3more » prior to smoothing.« less

A smoothed two- and three-dimensional interface reconstruction method

DOE PAGES

Mosso, Stewart; Garasi, Christopher; Drake, Richard

2008-04-22

The Patterned Interface Reconstruction algorithm reduces the discontinuity between material interfaces in neighboring computational elements. This smoothing improves the accuracy of the reconstruction for smooth bodies. The method can be used in two- and three-dimensional Cartesian and unstructured meshes. Planar interfaces will be returned for planar volume fraction distributions. Finally, the algorithm is second-order accurate for smooth volume fraction distributions.

Equivalence of Fluctuation Splitting and Finite Volume for One-Dimensional Gas Dynamics

NASA Technical Reports Server (NTRS)

Wood, William A.

1997-01-01

The equivalence of the discretized equations resulting from both fluctuation splitting and finite volume schemes is demonstrated in one dimension. Scalar equations are considered for advection, diffusion, and combined advection/diffusion. Analysis of systems is performed for the Euler and Navier-Stokes equations of gas dynamics. Non-uniform mesh-point distributions are included in the analyses.

A pyramid scheme for three-dimensional diffusion equations on polyhedral meshes

NASA Astrophysics Data System (ADS)

Wang, Shuai; Hang, Xudeng; Yuan, Guangwei

2017-12-01

In this paper, a new cell-centered finite volume scheme is proposed for three-dimensional diffusion equations on polyhedral meshes, which is called as pyramid scheme (P-scheme). The scheme is designed for polyhedral cells with nonplanar cell-faces. The normal flux on a nonplanar cell-face is discretized on a planar face, which is determined by a simple optimization procedure. The resulted discrete form of the normal flux involves only cell-centered and cell-vertex unknowns, and is free from face-centered unknowns. In the case of hexahedral meshes with skewed nonplanar cell-faces, a quite simple expression is obtained for the discrete normal flux. Compared with the second order accurate O-scheme [31], the P-scheme is more robust and the discretization cost is reduced remarkably. Numerical results are presented to show the performance of the P-scheme on various kinds of distorted meshes. In particular, the P-scheme is shown to be second order accurate.

Trimming Line Design using New Development Method and One Step FEM

NASA Astrophysics Data System (ADS)

Chung, Wan-Jin; Park, Choon-Dal; Yang, Dong-yol

2005-08-01

In most of automobile panel manufacturing, trimming is generally performed prior to flanging. To find feasible trimming line is crucial in obtaining accurate edge profile after flanging. Section-based method develops blank along section planes and find trimming line by generating loop of end points. This method suffers from inaccurate results for regions with out-of-section motion. On the other hand, simulation-based method can produce more accurate trimming line by iterative strategy. However, due to limitation of time and lack of information in initial die design, it is still not widely accepted in the industry. In this study, new fast method to find feasible trimming line is proposed. One step FEM is used to analyze the flanging process because we can define the desired final shape after flanging and most of strain paths are simple in flanging. When we use one step FEM, the main obstacle is the generation of initial guess. Robust initial guess generation method is developed to handle bad-shaped mesh, very different mesh size and undercut part. The new method develops 3D triangular mesh in propagational way from final mesh onto the drawing tool surface. Also in order to remedy mesh distortion during development, energy minimization technique is utilized. Trimming line is extracted from the outer boundary after one step FEM simulation. This method shows many benefits since trimming line can be obtained in the early design stage. The developed method is successfully applied to the complex industrial applications such as flanging of fender and door outer.

Lattice-like collagen fiber meshwork in the iris stroma of the cat: a possible mechanism to generate the tension directed towards the iris root which is required for pupillary dilatation in the sympathectomized eye.

PubMed

Sakuraba, M; Yun, S; Ichinohe, N; Yonekura, H; Shoumura, K

1999-10-01

NaOH digestion technique for collagen fiber dissection and scanning electron microscopy demonstrated a lattice-like meshwork in the anterior surface of the iris stroma of the cat. The mesh threads were made of collagen fibril bundles. In the constricted pupil, the meshes were square to rhomboid with the diagonals in the direction of the radius or circumference of the iris. In the dilated pupil, however, the meshes were strongly flattened rhomboid or ellipse with a longer diagnoal or axis in the circumferential direction. At the mesh corners facing the pupillary margin or the iris root, the collagen fibril bundles were strongly bent in the iris of the constricted pupil, while they were almost straight or slightly wavy in the iris of the dilated pupil. Accumulation of elasticity tension generated by this small distortion of the iris-mesh threads in the constricted pupil was considered to generate a tension directed towards the iris root, which is required for pupillary dilatation in the sympathectomized eye. On the posterior surface of the iris stroma, numerous thin pleats tightly woven with collagen fibrils traversed straightway through the radial length of the ciliary zone of the iris in both constricted and dilated pupils. The structural changes of these pleats in miosis and mydriasis were very small compared with the meshwork of the anterior aspect of the iris. Therefore, they were considered to work mainly as an iris skeleton.

Crowned spur gears - Methods for generation and Tooth Contact Analysis. II - Generation of the pinion tooth surface by a surface of revolution

NASA Technical Reports Server (NTRS)

Litvin, F. L.; Handschuh, R. F.; Zhang, J.

1988-01-01

A method for generation of crowned pinion tooth surfaces using a surface of revolution is developed. The crowned pinion meshes with a regular involute gear and has a prescribed parabolic type of transmission errors when the gears operate in the aligned mode. When the gears are misaligned the transmission error remains parabolic with the maximum level still remaining very small (less than 0.34 arc second for the numerical examples). Tooth Contact Analysis (TCA) is used to simulate the conditions of meshing, determine the transmission error, and the bearing contact.

CFD simulation of a screw compressor including leakage flows and rotor heating

NASA Astrophysics Data System (ADS)

Spille-Kohoff, Andreas, Dr.; Hesse, Jan; El Shorbagy, Ahmed

2015-08-01

Computational Fluid Dynamics (CFD) simulations have promising potential to become an important part in the development process of positive displacement (PD) machines. CFD delivers deep insights into the flow and thermodynamic behaviour of PD machines. However, the numerical simulation of such machines is more complex compared to dynamic pumps like turbines or fans. The fluid transport in size-changing chambers with very small clearances between the rotors, and between rotors and casing, demands complex meshes that change with each time step. Additionally, the losses due to leakage flows and the heat transfer to the rotors need high-quality meshes so that automatic remeshing is almost impossible. In this paper, setup steps and results for the simulation of a dry screw compressor are shown. The rotating parts are meshed with TwinMesh, a special hexahedral meshing program for gear pumps, gerotors, lobe pumps and screw compressors. In particular, these meshes include axial and radial clearances between housing and rotors, and beside the fluid volume the rotor solids are also meshed. The CFD simulation accounts for gas flow with compressibility and turbulence effects, heat transfer between gas and rotors, and leakage flows through the clearances. We show time- resolved results for torques, forces, interlobe pressure, mass flow, and heat flow between gas and rotors, as well as time- and space-resolved results for pressure, velocity, temperature etc. for different discharge ports and working points of the screw compressor. These results are also used as thermal loads for deformation simulations of the rotors.

Accuracy Quantification of the Loci-CHEM Code for Chamber Wall Heat Transfer in a GO2/GH2 Single Element Model Problem

NASA Technical Reports Server (NTRS)

West, Jeff; Westra, Doug; Lin, Jeff; Tucker, Kevin

2006-01-01

All solutions with Loci-CHEM achieved demonstrated steady state and mesh convergence. Preconditioning had no effect on solution accuracy and typically yields a 3-5times solution speed-up. The SST turbulence model has superior performance, relative to the data in the head end region, for the rise rate and peak heat flux. It was slightly worse than the others in the downstream region where all over-predicted the data by 30-100%.There was systematic mesh refinement in the unstructured volume and structured boundary layer areas produced only minor solution differences. Mesh convergence was achieved. Overall, Loci-CHEM satisfactorily predicts heat flux rise rate and peak heat flux and significantly over predicts the downstream heat flux.

Localized ridge augmentation in the anterior maxilla using titanium mesh, an alloplast, and a nano-bone graft: a case report.

PubMed

Alagl, Adel S; Madi, Marwa

2018-05-01

Alveolar ridge deficiency is considered a major limitation for successful implant placement, as well as for the long-term success rate, especially in the anterior maxillary region. Various approaches have been developed to increase bone volume. Among those approaches, inlay and onlay grafts, alveolar ridge distraction, and guided bone regeneration have been suggested. The use of titanium mesh is a reliable method for ridge augmentation. We describe a patient who presented with a localized, combined, horizontal and vertical ridge defect in the anterior maxilla. The patient was treated using titanium mesh and alloplast material mixed with a nano-bone graft to treat the localized ridge deformity for future implant installation. The clinical and radiographic presentation, as well as relevant literature, are presented.

Numerical analysis of the formation process of aerosols in the alveoli

NASA Astrophysics Data System (ADS)

Haslbeck, Karsten; Seume, Jörg R.

2008-11-01

For a successful diagnosis of lung diseases through an analysis of non-volatile molecules in the exhaled breath, an exact understanding of the aerosol formation process is required. This process is modeled using Computational Fluid Dynamics (CFD). The model shows the interaction of the boundary surface between the streamed airway and the local epithelial liquid layer. A 2-D volume mesh of an alveolus is generated by taking into account the connection of the alveoli with the sacculi alveolares (SA). The Volume of Fluid (VOF) Method is used to model the interface between the gas and the liquid film. The non-Newtonian flow is modeled by the implementation of the Ostwald de Waele model. Surface tension is a function of the surfactant concentration. The VOF-Method allows the distribution of the concentration of the epithelial liquid layer at the surface to be traced in a transient manner. The simulations show the rupturing of the liquid film through the drop formation. Aerosol particles are ejected into the SA and do not collide with the walls. The quantity, the geometrical size as well as the velocity distributions of the generated aerosols are determined. The data presented in the paper provide the boundary conditions for future CFD analysis of the aerosol transport through the airways up to exhalation.

Collisionless stellar hydrodynamics as an efficient alternative to N-body methods

NASA Astrophysics Data System (ADS)

Mitchell, Nigel L.; Vorobyov, Eduard I.; Hensler, Gerhard

2013-01-01

The dominant constituents of the Universe's matter are believed to be collisionless in nature and thus their modelling in any self-consistent simulation is extremely important. For simulations that deal only with dark matter or stellar systems, the conventional N-body technique is fast, memory efficient and relatively simple to implement. However when extending simulations to include the effects of gas physics, mesh codes are at a distinct disadvantage compared to Smooth Particle Hydrodynamics (SPH) codes. Whereas implementing the N-body approach into SPH codes is fairly trivial, the particle-mesh technique used in mesh codes to couple collisionless stars and dark matter to the gas on the mesh has a series of significant scientific and technical limitations. These include spurious entropy generation resulting from discreteness effects, poor load balancing and increased communication overhead which spoil the excellent scaling in massively parallel grid codes. In this paper we propose the use of the collisionless Boltzmann moment equations as a means to model the collisionless material as a fluid on the mesh, implementing it into the massively parallel FLASH Adaptive Mesh Refinement (AMR) code. This approach which we term `collisionless stellar hydrodynamics' enables us to do away with the particle-mesh approach and since the parallelization scheme is identical to that used for the hydrodynamics, it preserves the excellent scaling of the FLASH code already demonstrated on peta-flop machines. We find that the classic hydrodynamic equations and the Boltzmann moment equations can be reconciled under specific conditions, allowing us to generate analytic solutions for collisionless systems using conventional test problems. We confirm the validity of our approach using a suite of demanding test problems, including the use of a modified Sod shock test. By deriving the relevant eigenvalues and eigenvectors of the Boltzmann moment equations, we are able to use high order accurate characteristic tracing methods with Riemann solvers to generate numerical solutions which show excellent agreement with our analytic solutions. We conclude by demonstrating the ability of our code to model complex phenomena by simulating the evolution of a two-armed spiral galaxy whose properties agree with those predicted by the swing amplification theory.

A New Finite Element Supersonic Kernel Function Method in Lifting Surface Theory. Volume 2. User’s Manual

DTIC Science & Technology

1976-04-01

node. A schematic flow chart of the program is shown i& Fig. 1. Description of Variables BETA COEF IANGLE 1BUF ICHECK IMAX INFO JMAX KMAX ß...MAXINT DEL IMAX JMAX XLAMDA NMODE NP NELEM ICHECK Mach number Reduced frequency Mesh spacing as measured by the length of the side of the...Number of nodes Number of elements Option parameter used to check the mesh correctness. For ICHECK = 1, a quick run is performed to print out the

Does the use of hernia mesh in surgical inguinal hernia repairs cause male infertility? A systematic review and descriptive analysis.

PubMed

Dong, Zhiyong; Kujawa, Stacy Ann; Wang, Cunchuan; Zhao, Hong

2018-04-23

The aim of this study was to systematically review the available clinical trials examining male infertility after inguinal hernias were repaired using mesh procedures. The Cochrane Library, PubMed, Embase, Web of Science, and Chinese Biomedical Medicine Database were investigated. The Jada score was used to evaluate the quality of the studies, "Oxford Centre for Evidence-based Medicine-Levels of Evidence" was used to assess the level of the trials, and descriptive analysis was used to evaluate the studies. Twenty nine related trials with a total of 36,552 patients were investigated, including seven randomized controlled trials (RCTs) with 616 patients and 10 clinical trials (1230 patients) with mesh or non-mesh repairs. The Jada score showed that there were six high quality RCTs and one low quality RCT. Levels of evidence determined from the Oxford Centre for Evidence-based Medicine further demonstrated that those six high quality RCTs also had high levels of evidence. It was found that serum testosterone, LH, and FSH levels declined in the laparoscopic group compared to the open group; however, the testicular volume only slightly increased without statistical significance. Testicular and sexual functions remained unchanged after both laparoscopic transabdominal preperitoneal hernia repair (TAPP) and totally extra-peritoneal repair (TEP). We also compared the different meshes used post-surgeries. VyproII/Timesh lightweight mesh had a diminished effect on sperm motility compared to Marlex heavyweight mesh after a one-year follow-up, but there was no effect after 3 years. Additionally, various open hernia repair procedures (Lichtenstein, mesh plug method, posterior pre-peritoneal mesh repair, and anterior tension-free repair) did not cause infertility. This systematic review suggests that hernia repair with mesh either in an open or a laparoscopic procedure has no significant effect on male fertility.

Generation of a crowned pinion tooth surface by a surface of revolution

NASA Technical Reports Server (NTRS)

Litvin, F. L.; Zhang, J.; Handschuh, R. F.

1988-01-01

A method of generating crowned pinion tooth surfaces using a surface of revolution is developed. The crowned pinion meshes with a regular involute gear and has a prescribed parabolic type of transmission errors when the gears operate in the aligned mode. When the gears are misaligned the transmission error remains parabolic with the maximum level still remaining very small (less than 0.34 arc sec for the numerical examples). Tooth contact analysis (TCA) is used to simulate the conditions of meshing, determine the transmission error, and determine the bearing contact.

Helical gears with circular arc teeth: Generation, geometry, precision and adjustment to errors, computer aided simulation of conditions of meshing and bearing contact

NASA Technical Reports Server (NTRS)

Litvin, Faydor L.; Tsay, Chung-Biau

1987-01-01

The authors have proposed a method for the generation of circular arc helical gears which is based on the application of standard equipment, worked out all aspects of the geometry of the gears, proposed methods for the computer aided simulation of conditions of meshing and bearing contact, investigated the influence of manufacturing and assembly errors, and proposed methods for the adjustment of gears to these errors. The results of computer aided solutions are illustrated with computer graphics.

Sentiment Analysis of Web Sites Related to Vaginal Mesh Use in Pelvic Reconstructive Surgery.

PubMed

Hobson, Deslyn T G; Meriwether, Kate V; Francis, Sean L; Kinman, Casey L; Stewart, J Ryan

2018-05-02

The purpose of this study was to utilize sentiment analysis to describe online opinions toward vaginal mesh. We hypothesized that sentiment in legal Web sites would be more negative than that in medical and reference Web sites. We generated a list of relevant key words related to vaginal mesh and searched Web sites using the Google search engine. Each unique uniform resource locator (URL) was sorted into 1 of 6 categories: "medical", "legal", "news/media", "patient generated", "reference", or "unrelated". Sentiment of relevant Web sites, the primary outcome, was scored on a scale of -1 to +1, and mean sentiment was compared across all categories using 1-way analysis of variance. Tukey test evaluated differences between category pairs. Google searches of 464 unique key words resulted in 11,405 URLs. Sentiment analysis was performed on 8029 relevant URLs (3472 legal, 1625 "medical", 1774 "reference", 666 "news media", 492 "patient generated"). The mean sentiment for all relevant Web sites was +0.01 ± 0.16; analysis of variance revealed significant differences between categories (P < 0.001). Web sites categorized as "legal" and "news/media" had a slightly negative mean sentiment, whereas those categorized as "medical," "reference," and "patient generated" had slightly positive mean sentiments. Tukey test showed differences between all category pairs except the "medical" versus "reference" in comparison with the largest mean difference (-0.13) seen in the "legal" versus "reference" comparison. Web sites related to vaginal mesh have an overall mean neutral sentiment, and Web sites categorized as "medical," "reference," and "patient generated" have significantly higher sentiment scores than related Web sites in "legal" and "news/media" categories.

Computed tomography landmark-based semi-automated mesh morphing and mapping techniques: generation of patient specific models of the human pelvis without segmentation.

PubMed

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

2015-04-13

Current methods for the development of pelvic finite element (FE) models generally are based upon specimen specific computed tomography (CT) data. This approach has traditionally required segmentation of CT data sets, which is time consuming and necessitates high levels of user intervention due to the complex pelvic anatomy. The purpose of this research was to develop and assess CT landmark-based semi-automated mesh morphing and mapping techniques to aid the generation and mechanical analysis of specimen-specific FE models of the pelvis without the need for segmentation. A specimen-specific pelvic FE model (source) was created using traditional segmentation methods and morphed onto a CT scan of a different (target) pelvis using a landmark-based method. The morphed model was then refined through mesh mapping by moving the nodes to the bone boundary. A second target model was created using traditional segmentation techniques. CT intensity based material properties were assigned to the morphed/mapped model and to the traditionally segmented target models. Models were analyzed to evaluate their geometric concurrency and strain patterns. Strains generated in a double-leg stance configuration were compared to experimental strain gauge data generated from the same target cadaver pelvis. CT landmark-based morphing and mapping techniques were efficiently applied to create a geometrically multifaceted specimen-specific pelvic FE model, which was similar to the traditionally segmented target model and better replicated the experimental strain results (R(2)=0.873). This study has shown that mesh morphing and mapping represents an efficient validated approach for pelvic FE model generation without the need for segmentation. Copyright © 2015 Elsevier Ltd. All rights reserved.

Note: Radial-thrust combo metal mesh foil bearing for microturbomachinery.

PubMed

Park, Cheol Hoon; Choi, Sang Kyu; Hong, Doo Euy; Yoon, Tae Gwang; Lee, Sung Hwi

2013-10-01

This Note proposes a novel radial-thrust combo metal mesh foil bearing (MMFB). Although MMFBs have advantages such as higher stiffness and damping over conventional air foil bearings, studies related to MMFBs have been limited to radial MMFBs. The novel combo MMFB is composed of a radial top foil, thrust top foils, and a ring-shaped metal mesh damper--fabricated by compressing a copper wire mesh--with metal mesh thrust pads for the thrust bearing at both side faces. In this study, the combo MMFB was fabricated in half-split type to support the rotor for a micro gas turbine generator. The manufacture and assembly process for the half-split-type combo MMFB is presented. In addition, to verify the proposed combo MMFB, motoring test results up to 250,000 rpm and axial displacements as a function of rotational speed are presented.

Parallel performance optimizations on unstructured mesh-based simulations

DOE PAGES

Sarje, Abhinav; Song, Sukhyun; Jacobsen, Douglas; ...

2015-06-01

This paper addresses two key parallelization challenges the unstructured mesh-based ocean modeling code, MPAS-Ocean, which uses a mesh based on Voronoi tessellations: (1) load imbalance across processes, and (2) unstructured data access patterns, that inhibit intra- and inter-node performance. Our work analyzes the load imbalance due to naive partitioning of the mesh, and develops methods to generate mesh partitioning with better load balance and reduced communication. Furthermore, we present methods that minimize both inter- and intranode data movement and maximize data reuse. Our techniques include predictive ordering of data elements for higher cache efficiency, as well as communication reduction approaches.more » We present detailed performance data when running on thousands of cores using the Cray XC30 supercomputer and show that our optimization strategies can exceed the original performance by over 2×. Additionally, many of these solutions can be broadly applied to a wide variety of unstructured grid-based computations.« less

A mesh gradient technique for numerical optimization

NASA Technical Reports Server (NTRS)

Willis, E. A., Jr.

1973-01-01

A class of successive-improvement optimization methods in which directions of descent are defined in the state space along each trial trajectory are considered. The given problem is first decomposed into two discrete levels by imposing mesh points. Level 1 consists of running optimal subarcs between each successive pair of mesh points. For normal systems, these optimal two-point boundary value problems can be solved by following a routine prescription if the mesh spacing is sufficiently close. A spacing criterion is given. Under appropriate conditions, the criterion value depends only on the coordinates of the mesh points, and its gradient with respect to those coordinates may be defined by interpreting the adjoint variables as partial derivatives of the criterion value function. In level 2, the gradient data is used to generate improvement steps or search directions in the state space which satisfy the boundary values and constraints of the given problem.

Large-Eddy Simulation of Internal Flow through Human Vocal Folds

NASA Astrophysics Data System (ADS)

Lasota, Martin; Šidlof, Petr

2018-06-01

The phonatory process occurs when air is expelled from the lungs through the glottis and the pressure drop causes flow-induced oscillations of the vocal folds. The flow fields created in phonation are highly unsteady and the coherent vortex structures are also generated. For accuracy it is essential to compute on humanlike computational domain and appropriate mathematical model. The work deals with numerical simulation of air flow within the space between plicae vocales and plicae vestibulares. In addition to the dynamic width of the rima glottidis, where the sound is generated, there are lateral ventriculus laryngis and sacculus laryngis included in the computational domain as well. The paper presents the results from OpenFOAM which are obtained with a large-eddy simulation using second-order finite volume discretization of incompressible Navier-Stokes equations. Large-eddy simulations with different subgrid scale models are executed on structured mesh. In these cases are used only the subgrid scale models which model turbulence via turbulent viscosity and Boussinesq approximation in subglottal and supraglottal area in larynx.

Guided bone generation in a rabbit mandible model after periosteal expansion with an osmotic tissue expander.

PubMed

Abrahamsson, Peter; Isaksson, Sten; Andersson, Gunilla

2011-11-01

To evaluate the space-maintaining capacity of titanium mesh covered by a collagen membrane after soft tissue expansion on the lateral border of the mandible in rabbits, and to assess bone quantity and quality using autogenous particulate bone or bone-substitute (Bio-Oss(®) ), and if soft tissue ingrowth can be avoided by covering the mesh with a collagen membrane. In 11 rabbits, a self-inflatable soft tissue expander was placed under the lateral mandibular periosteum via an extra-oral approach. After 2 weeks, the expanders were removed and a particulated onlay bone graft and deproteinized bovine bone mineral (DBBM) (Bio-Oss(®) ) were placed in the expanded area and covered by a titanium mesh. The bone and DBBM were separated in two compartments under the mesh with a collagen membrane in between. The mesh was then covered with a collagen membrane. After 3 months, the animals were sacrificed and specimens were collected for histology. The osmotic soft tissue expander created a subperiosteal pocket and a ridge of new bone formed at the edges of the expanded periosteum in all sites. After the healing period of 3 months, no soft tissue dehiscence was recorded. The mean bone fill was 58.1±18% in the bone grafted area and 56.9±13.7% in the DBBM area. There was no significant difference between the autologous bone graft and the DDBM under the titanium mesh with regard to the total bone area or the mineralized bone area. Scanning electron microscopy showed that new bone was growing in direct contact with the DBBM particles and the titanium mesh. There is a soft tissue ingrowth even after soft tissue expansion and protection of the titanium mesh with a collagen membrane. This study confirms that an osmotic soft tissue expander creates a surplus of periosteum and soft tissue, and that new bone can subsequently be generated under a titanium mesh with the use of an autologous bone graft or DBBM. © 2011 John Wiley & Sons A/S.

Bone resorption analysis of platelet-derived growth factor type BB application on collagen for bone grafts secured by titanium mesh over a pig jaw defect model

PubMed Central

Herford, Alan Scott; Cicciù, Marco

2012-01-01

Purpose: The aim of this investigation was to evaluate whether the addition of the platelet derived growth factor type BB (PDGF-BB) to a collagen matrix applied on a titanium mesh would favor healing and resorption onto the grafted bone. A histologic and radiographic study of two different groups (test and control) was performed. Designs: A surgical procedure was performed on 8 pigs to obtain 16 bilateral mandibular alveolar defects. All the defects were then reconstructed with a mixture of autogenous bovine bone using titanium mesh positioning. Two groups, with a total of 16 defects were created: The first to study collagen sponge and PDGF-BB and the second to control collagen only. The collagen matrix was positioned directly over the mesh and soft tissue was closed without tensions onto both groups without attempting to obtain primary closure. Possible exposure of the titanium mesh as well as the height and volume of the new bone was recorded. Results: New bone formation averaged about 6.68 mm in the test group studied; the control group had less regenerated bone at 4.62 mm. Conclusion: PDGF-BB addition to the collagen matrix induced a strong increase in hard and soft tissue healing and favored bone formation, reducing bone resorption even if the mesh was exposed. PMID:23833493

Finite Volume Algorithms for Heat Conduction

DTIC Science & Technology

2010-05-01

scalar quantity). Although (3) is relatively easy to discretize by using finite differences , its form in generalized coordinates is not. Later, we...familiar with the finite difference method for discretizing differential equations. In fact, the Newton divided difference is the numerical analog for a...expression (8) for the average derivative matches the Newton divided difference formula, so for uniform one-dimensional meshes, the finite volume and

An interactive adaptive remeshing algorithm for the two-dimensional Euler equations

NASA Technical Reports Server (NTRS)

Slack, David C.; Walters, Robert W.; Lohner, R.

1990-01-01

An interactive adaptive remeshing algorithm utilizing a frontal grid generator and a variety of time integration schemes for the two-dimensional Euler equations on unstructured meshes is presented. Several device dependent interactive graphics interfaces have been developed along with a device independent DI-3000 interface which can be employed on any computer that has the supporting software including the Cray-2 supercomputers Voyager and Navier. The time integration methods available include: an explicit four stage Runge-Kutta and a fully implicit LU decomposition. A cell-centered finite volume upwind scheme utilizing Roe's approximate Riemann solver is developed. To obtain higher order accurate results a monotone linear reconstruction procedure proposed by Barth is utilized. Results for flow over a transonic circular arc and flow through a supersonic nozzle are examined.

Characterizing mesh size distributions (MSDs) in thermosetting materials using a high-pressure system.

PubMed

Larché, J-F; Seynaeve, J-M; Voyard, G; Bussière, P-O; Gardette, J-L

2011-04-21

The thermoporosimetry method was adapted to determine the mesh size distribution of an acrylate thermoset clearcoat. This goal was achieved by increasing the solvent rate transfer by increasing the pressure and temperature. A comparison of the results obtained using this approach with those obtained by DMA (dynamic mechanical analysis) underlined the accuracy of thermoporosimetry in characterizing the macromolecular architecture of thermosets. The thermoporosimetry method was also used to analyze the effects of photoaging on cross-linking, which result from the photodegradation of the acrylate thermoset. It was found that the formation of a three-dimensional network followed by densification generates a modification of the average mesh size that leads to a dramatic decrease of the meshes of the polymer.

The Surface Pressure Response of a NACA 0015 Airfoil Immersed in Grid Turbulence. Volume 1; Characteristics of the Turbulence

NASA Technical Reports Server (NTRS)

Bereketab, Semere; Wang, Hong-Wei; Mish, Patrick; Devenport, William J.

2000-01-01

Two grids have been developed for the Virginia Tech 6 ft x 6 ft Stability wind tunnel for the purpose of generating homogeneous isotropic turbulent flows for the study of unsteady airfoil response. The first, a square bi-planar grid with a 12" mesh size and an open area ratio of 69.4%, was mounted in the wind tunnel contraction. The second grid, a metal weave with a 1.2 in. mesh size and an open area ratio of 68.2% was mounted in the tunnel test section. Detailed statistical and spectral measurements of the turbulence generated by the two grids are presented for wind tunnel free stream speeds of 10, 20, 30 and 40 m/s. These measurements show the flows to be closely homogeneous and isotropic. Both grids produce flows with a turbulence intensity of about 4% at the location planned for the airfoil leading edge. Turbulence produced by the large grid has an integral scale of some 3.2 inches here. Turbulence produced by the small grid is an order of magnitude smaller. For wavenumbers below the upper limit of the inertial subrange, the spectra and correlations measured with both grids at all speeds can be represented using the von Karman interpolation formula with a single velocity and length scale. The spectra maybe accurately represented over the entire wavenumber range by a modification of the von Karman interpolation formula that includes the effects of dissipation. These models are most accurate at the higher speeds (30 and 40 m/s).

Investigation of advanced counterrotation blade configuration concepts for high speed turboprop systems. Task 4: Advanced fan section aerodynamic analysis

NASA Technical Reports Server (NTRS)

Crook, Andrew J.; Delaney, Robert A.

1992-01-01

The purpose of this study is the development of a three-dimensional Euler/Navier-Stokes flow analysis for fan section/engine geometries containing multiple blade rows and multiple spanwise flow splitters. An existing procedure developed by Dr. J. J. Adamczyk and associates and the NASA Lewis Research Center was modified to accept multiple spanwise splitter geometries and simulate engine core conditions. The procedure was also modified to allow coarse parallelization of the solution algorithm. This document is a final report outlining the development and techniques used in the procedure. The numerical solution is based upon a finite volume technique with a four stage Runge-Kutta time marching procedure. Numerical dissipation is used to gain solution stability but is reduced in viscous dominated flow regions. Local time stepping and implicit residual smoothing are used to increase the rate of convergence. Multiple blade row solutions are based upon the average-passage system of equations. The numerical solutions are performed on an H-type grid system, with meshes being generated by the system (TIGG3D) developed earlier under this contract. The grid generation scheme meets the average-passage requirement of maintaining a common axisymmetric mesh for each blade row grid. The analysis was run on several geometry configurations ranging from one to five blade rows and from one to four radial flow splitters. Pure internal flow solutions were obtained as well as solutions with flow about the cowl/nacelle and various engine core flow conditions. The efficiency of the solution procedure was shown to be the same as the original analysis.

Material Characterization and Geometric Segmentation of a Composite Structure Using Microfocus X-Ray Computed Tomography Image-Based Finite Element Modeling

NASA Technical Reports Server (NTRS)

Abdul-Aziz, Ali; Roth, D. J.; Cotton, R.; Studor, George F.; Christiansen, Eric; Young, P. C.

2011-01-01

This study utilizes microfocus x-ray computed tomography (CT) slice sets to model and characterize the damage locations and sizes in thermal protection system materials that underwent impact testing. ScanIP/FE software is used to visualize and process the slice sets, followed by mesh generation on the segmented volumetric rendering. Then, the local stress fields around several of the damaged regions are calculated for realistic mission profiles that subject the sample to extreme temperature and other severe environmental conditions. The resulting stress fields are used to quantify damage severity and make an assessment as to whether damage that did not penetrate to the base material can still result in catastrophic failure of the structure. It is expected that this study will demonstrate that finite element modeling based on an accurate three-dimensional rendered model from a series of CT slices is an essential tool to quantify the internal macroscopic defects and damage of a complex system made out of thermal protection material. Results obtained showing details of segmented images; three-dimensional volume-rendered models, finite element meshes generated, and the resulting thermomechanical stress state due to impact loading for the material are presented and discussed. Further, this study is conducted to exhibit certain high-caliber capabilities that the nondestructive evaluation (NDE) group at NASA Glenn Research Center can offer to assist in assessing the structural durability of such highly specialized materials so improvements in their performance and capacities to handle harsh operating conditions can be made.

A multiresolution method for climate system modeling: application of spherical centroidal Voronoi tessellations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ringler, Todd; Ju, Lili; Gunzburger, Max

2008-11-14

During the next decade and beyond, climate system models will be challenged to resolve scales and processes that are far beyond their current scope. Each climate system component has its prototypical example of an unresolved process that may strongly influence the global climate system, ranging from eddy activity within ocean models, to ice streams within ice sheet models, to surface hydrological processes within land system models, to cloud processes within atmosphere models. These new demands will almost certainly result in the develop of multiresolution schemes that are able, at least regionally, to faithfully simulate these fine-scale processes. Spherical centroidal Voronoimore » tessellations (SCVTs) offer one potential path toward the development of a robust, multiresolution climate system model components. SCVTs allow for the generation of high quality Voronoi diagrams and Delaunay triangulations through the use of an intuitive, user-defined density function. In each of the examples provided, this method results in high-quality meshes where the quality measures are guaranteed to improve as the number of nodes is increased. Real-world examples are developed for the Greenland ice sheet and the North Atlantic ocean. Idealized examples are developed for ocean–ice shelf interaction and for regional atmospheric modeling. In addition to defining, developing, and exhibiting SCVTs, we pair this mesh generation technique with a previously developed finite-volume method. Our numerical example is based on the nonlinear, shallow water equations spanning the entire surface of the sphere. This example is used to elucidate both the potential benefits of this multiresolution method and the challenges ahead.« less

A deformable surface model for real-time water drop animation.

PubMed

Zhang, Yizhong; Wang, Huamin; Wang, Shuai; Tong, Yiying; Zhou, Kun

2012-08-01

A water drop behaves differently from a large water body because of its strong viscosity and surface tension under the small scale. Surface tension causes the motion of a water drop to be largely determined by its boundary surface. Meanwhile, viscosity makes the interior of a water drop less relevant to its motion, as the smooth velocity field can be well approximated by an interpolation of the velocity on the boundary. Consequently, we propose a fast deformable surface model to realistically animate water drops and their flowing behaviors on solid surfaces. Our system efficiently simulates water drop motions in a Lagrangian fashion, by reducing 3D fluid dynamics over the whole liquid volume to a deformable surface model. In each time step, the model uses an implicit mean curvature flow operator to produce surface tension effects, a contact angle operator to change droplet shapes on solid surfaces, and a set of mesh connectivity updates to handle topological changes and improve mesh quality over time. Our numerical experiments demonstrate a variety of physically plausible water drop phenomena at a real-time rate, including capillary waves when water drops collide, pinch-off of water jets, and droplets flowing over solid materials. The whole system performs orders-of-magnitude faster than existing simulation approaches that generate comparable water drop effects.

New developments in the method of space-time conservation element and solution element: Applications to the Euler and Navier-Stokes equations

NASA Technical Reports Server (NTRS)

Chang, Sin-Chung

1993-01-01

A new numerical framework for solving conservation laws is being developed. This new approach differs substantially in both concept and methodology from the well-established methods--i.e., finite difference, finite volume, finite element, and spectral methods. It is conceptually simple and designed to avoid several key limitations to the above traditional methods. An explicit model scheme for solving a simple 1-D unsteady convection-diffusion equation is constructed and used to illuminate major differences between the current method and those mentioned above. Unexpectedly, its amplification factors for the pure convection and pure diffusion cases are identical to those of the Leapfrog and the DuFort-Frankel schemes, respectively. Also, this explicit scheme and its Navier-Stokes extension have the unusual property that their stabilities are limited only by the CFL condition. Moreover, despite the fact that it does not use any flux-limiter or slope-limiter, the Navier-Stokes solver is capable of generating highly accurate shock tube solutions with shock discontinuities being resolved within one mesh interval. An accurate Euler solver also is constructed through another extension. It has many unusual properties, e.g., numerical diffusion at all mesh points can be controlled by a set of local parameters.

A family of position- and orientation-independent embedded boundary methods for viscous flow and fluid-structure interaction problems

NASA Astrophysics Data System (ADS)

Huang, Daniel Z.; De Santis, Dante; Farhat, Charbel

2018-07-01

The Finite Volume method with Exact two-material Riemann Problems (FIVER) is both a computational framework for multi-material flows characterized by large density jumps, and an Embedded Boundary Method (EBM) for computational fluid dynamics and highly nonlinear Fluid-Structure Interaction (FSI) problems. This paper deals with the EBM aspect of FIVER. For FSI problems, this EBM has already demonstrated the ability to address viscous effects along wall boundaries, and large deformations and topological changes of such boundaries. However, like for most EBMs - also known as immersed boundary methods - the performance of FIVER in the vicinity of a wall boundary can be sensitive with respect to the position and orientation of this boundary relative to the embedding mesh. This is mainly due to ill-conditioning issues that arise when an embedded interface becomes too close to a node of the embedding mesh, which may lead to spurious oscillations in the computed solution gradients at the wall boundary. This paper resolves these issues by introducing an alternative definition of the active/inactive status of a mesh node that leads to the removal of all sources of potential ill-conditioning from all spatial approximations performed by FIVER in the vicinity of a fluid-structure interface. It also makes two additional contributions. The first one is a new procedure for constructing the fluid-structure half Riemann problem underlying the semi-discretization by FIVER of the convective fluxes. This procedure eliminates one extrapolation from the conventional treatment of the wall boundary conditions and replaces it by an interpolation, which improves robustness. The second contribution is a post-processing algorithm for computing quantities of interest at the wall that achieves smoothness in the computed solution and its gradients. Lessons learned from these enhancements and contributions that are triggered by the new definition of the status of a mesh node are then generalized and exploited to eliminate from the original version of the FIVER method its sensitivities with respect to both of the position and orientation of the wall boundary relative to the embedding mesh, while maintaining the original definition of the status of a mesh node. This leads to a family of second-generation FIVER methods whose performance is illustrated in this paper for several flow and FSI problems. These include a challenging flow problem over a bird wing characterized by a feather-induced surface roughness, and a complex flexible flapping wing problem for which experimental data is available.

An 8-node tetrahedral finite element suitable for explicit transient dynamic simulations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Key, S.W.; Heinstein, M.W.; Stone, C.M.

1997-12-31

Considerable effort has been expended in perfecting the algorithmic properties of 8-node hexahedral finite elements. Today the element is well understood and performs exceptionally well when used in modeling three-dimensional explicit transient dynamic events. However, the automatic generation of all-hexahedral meshes remains an elusive achievement. The alternative of automatic generation for all-tetrahedral finite element is a notoriously poor performer, and the 10-node quadratic tetrahedral finite element while a better performer numerically is computationally expensive. To use the all-tetrahedral mesh generation extant today, the authors have explored the creation of a quality 8-node tetrahedral finite element (a four-node tetrahedral finite elementmore » enriched with four midface nodal points). The derivation of the element`s gradient operator, studies in obtaining a suitable mass lumping and the element`s performance in applications are presented. In particular, they examine the 80node tetrahedral finite element`s behavior in longitudinal plane wave propagation, in transverse cylindrical wave propagation, and in simulating Taylor bar impacts. The element only samples constant strain states and, therefore, has 12 hourglass modes. In this regard, it bears similarities to the 8-node, mean-quadrature hexahedral finite element. Given automatic all-tetrahedral meshing, the 8-node, constant-strain tetrahedral finite element is a suitable replacement for the 8-node hexahedral finite element and handbuilt meshes.« less

Simulation of a Single-Element Lean-Direct Injection Combustor Using a Polyhedral Mesh Derived from Hanging-Node Elements

NASA Technical Reports Server (NTRS)

Wey, Thomas; Liu, Nan-Suey

2013-01-01

This paper summarizes the procedures of generating a polyhedral mesh derived from hanging-node elements as well as presents sample results from its application to the numerical solution of a single element lean direct injection (LDI) combustor using an open-source version of the National Combustion Code (NCC).

2D Mesh Manipulation

DTIC Science & Technology

2011-11-01

the Poisson form of the equations can also be generated by manipulating the computational space , so forcing functions become superfluous . The...ABSTRACT Unstructured methods for region discretization have become common in computational fluid dynamics (CFD) analysis because of certain benefits...application of Winslow elliptic smoothing equations to unstructured meshes. It has been shown that it is not necessary for the computational space of

A manual for PARTI runtime primitives

NASA Technical Reports Server (NTRS)

Berryman, Harry; Saltz, Joel

1990-01-01

Primitives are presented that are designed to help users efficiently program irregular problems (e.g., unstructured mesh sweeps, sparse matrix codes, adaptive mesh partial differential equations solvers) on distributed memory machines. These primitives are also designed for use in compilers for distributed memory multiprocessors. Communications patterns are captured at runtime, and the appropriate send and receive messages are automatically generated.

Next Generation Robust Low Noise Seismometer for Nuclear Monitoring

DTIC Science & Technology

2008-09-01

of four fine platinum mesh electrodes, two anodes, and two cathodes, separated by thin polymer mesh or laser-perforated mica spacers. The stack is...cell (Abramocvich and Daragan, 1992-94): ⎟ ⎠ ⎞ ⎜ ⎝ ⎛ −− )exp(1 00 kT qU l eSDc =I (6) 2008 Monitoring Research Review: Ground-Based

A wave superposition method formulated in digital acoustic space

NASA Astrophysics Data System (ADS)

Hwang, Yong-Sin

In this thesis, a new formulation of the Wave Superposition method is proposed wherein the conventional mesh approach is replaced by a simple 3-D digital work space that easily accommodates shape optimization for minimizing or maximizing radiation efficiency. As sound quality is in demand in almost all product designs and also because of fierce competition between product manufacturers, faster and accurate computational method for shape optimization is always desired. Because the conventional Wave Superposition method relies solely on mesh geometry, it cannot accommodate fast shape changes in the design stage of a consumer product or machinery, where many iterations of shape changes are required. Since the use of a mesh hinders easy shape changes, a new approach for representing geometry is introduced by constructing a uniform lattice in a 3-D digital work space. A voxel (a portmanteau, a new word made from combining the sound and meaning, of the words, volumetric and pixel) is essentially a volume element defined by the uniform lattice, and does not require separate connectivity information as a mesh element does. In the presented method, geometry is represented with voxels that can easily adapt to shape changes, therefore it is more suitable for shape optimization. The new method was validated by computing radiated sound power of structures of simple and complex geometries and complex mode shapes. It was shown that matching volume velocity is a key component to an accurate analysis. A sensitivity study showed that it required at least 6 elements per acoustic wavelength, and a complexity study showed a minimal reduction in computational time.

Hydrogen atom kinetics in capacitively coupled plasmas

NASA Astrophysics Data System (ADS)

Nunomura, Shota; Katayama, Hirotaka; Yoshida, Isao

2017-05-01

Hydrogen (H) atom kinetics has been investigated in capacitively coupled very high frequency (VHF) discharges at powers of 16-780 mW cm-2 and H2 gas pressures of 0.1-2 Torr. The H atom density has been measured using vacuum ultra violet absorption spectroscopy (VUVAS) with a micro-discharge hollow cathode lamp as a VUV light source. The measurements have been performed in two different electrode configurations of discharges: conventional parallel-plate diode and triode with an intermediate mesh electrode. We find that in the triode configuration, the H atom density is strongly reduced across the mesh electrode. The H atom density varies from ˜1012 cm-3 to ˜1010 cm-3 by crossing the mesh with 0.2 mm in thickness and 36% in aperture ratio. The fluid model simulations for VHF discharge plasmas have been performed to study the H atom generation, diffusion and recombination kinetics. The simulations suggest that H atoms are generated in the bulk plasma, by the electron impact dissociation (e + H2 \\to e + 2H) and the ion-molecule reaction (H2 + + H2 \\to {{{H}}}3+ + H). The diffusion of H atoms is strongly limited by a mesh electrode, and thus the mesh geometry influences the spatial distribution of the H atoms. The loss of H atoms is dominated by the surface recombination.

Generation and Computerized Simulation of Meshing and Contact of Modified Involute Helical Gears

NASA Technical Reports Server (NTRS)

Litvin, Faydor L.; Chen, Ningxin; Lu, Jian

1995-01-01

The design and generation of modified involute helical gears that have a localized and stable bearing contact, and reduced noise and vibration characteristics are described. The localization of the bearing contact is achieved by the mismatch of the two generating surfaces that are used for generation of the pinion and the gear. The reduction of noise and vibration will be achieved by application of a parabolic function of transmission errors that is able to absorb the almost linear function of transmission errors caused by gear misalignment. The meshing and contact of misaligned gear drives can be analyzed by application of computer programs that have been developed. The computations confirmed the effectiveness of the proposed modification of the gear geometry. A numerical example that illustrates the developed theory is provided.

Small herbivores suppress algal accumulation on Agatti atoll, Indian Ocean

NASA Astrophysics Data System (ADS)

Cernohorsky, Nicole H.; McClanahan, Timothy R.; Babu, Idrees; Horsák, Michal

2015-12-01

Despite large herbivorous fish being generally accepted as the main group responsible for preventing algal accumulation on coral reefs, few studies have experimentally examined the relative importance of herbivore size on algal communities. This study used exclusion cages with two different mesh sizes (1 × 1 cm and 6 × 6 cm) to investigate the impact of different-sized herbivores on algal accumulation rates on the shallow (<2 m) back-reef of Agatti atoll, Lakshadweep. The fine-mesh cages excluded all visible herbivores, which had rapid and lasting effects on the benthic communities, and, after 127 d of deployment, there was a visible and significant increase in algae (mainly macroalgae) with algal volume being 13 times greater than in adjacent open areas. The coarse-mesh cages excluded larger fishes (>8 cm body depth) while allowing smaller fishes to access the plots. In contrast to the conclusions of most previous studies, the exclusion of large herbivores had no significant effect on the accumulation of benthic algae and the amount of algae present within the coarse-mesh cages was relatively consistent throughout the experimental period (around 50 % coverage and 1-2 mm height). The difference in algal accumulation between the fine-mesh and coarse-mesh cages appears to be related to the actions of small individuals from 12 herbivorous fish species (0.17 ind. m-2 and 7.7 g m-2) that were able to enter through the coarse mesh. Although restricted to a single habitat, these results suggest that when present in sufficient densities and diversity, small herbivorous fishes can prevent the accumulation of algal biomass on coral reefs.

3D streamers simulation in a pin to plane configuration using massively parallel computing

NASA Astrophysics Data System (ADS)

Plewa, J.-M.; Eichwald, O.; Ducasse, O.; Dessante, P.; Jacobs, C.; Renon, N.; Yousfi, M.

2018-03-01

This paper concerns the 3D simulation of corona discharge using high performance computing (HPC) managed with the message passing interface (MPI) library. In the field of finite volume methods applied on non-adaptive mesh grids and in the case of a specific 3D dynamic benchmark test devoted to streamer studies, the great efficiency of the iterative R&B SOR and BiCGSTAB methods versus the direct MUMPS method was clearly demonstrated in solving the Poisson equation using HPC resources. The optimization of the parallelization and the resulting scalability was undertaken as a function of the HPC architecture for a number of mesh cells ranging from 8 to 512 million and a number of cores ranging from 20 to 1600. The R&B SOR method remains at least about four times faster than the BiCGSTAB method and requires significantly less memory for all tested situations. The R&B SOR method was then implemented in a 3D MPI parallelized code that solves the classical first order model of an atmospheric pressure corona discharge in air. The 3D code capabilities were tested by following the development of one, two and four coplanar streamers generated by initial plasma spots for 6 ns. The preliminary results obtained allowed us to follow in detail the formation of the tree structure of a corona discharge and the effects of the mutual interactions between the streamers in terms of streamer velocity, trajectory and diameter. The computing time for 64 million of mesh cells distributed over 1000 cores using the MPI procedures is about 30 min ns-1, regardless of the number of streamers.

Towards an Improved Represenation of Reservoirs and Water Management in a Land Surface-Hydrology Model

NASA Astrophysics Data System (ADS)

Yassin, F.; Anis, M. R.; Razavi, S.; Wheater, H. S.

2017-12-01

Water management through reservoirs, diversions, and irrigation have significantly changed river flow regimes and basin-wide energy and water balance cycles. Failure to represent these effects limits the performance of land surface-hydrology models not only for streamflow prediction but also for the estimation of soil moisture, evapotranspiration, and feedbacks to the atmosphere. Despite recent research to improve the representation of water management in land surface models, there remains a need to develop improved modeling approaches that work in complex and highly regulated basins such as the 406,000 km2 Saskatchewan River Basin (SaskRB). A particular challenge for regional and global application is a lack of local information on reservoir operational management. To this end, we implemented a reservoir operation, water abstraction, and irrigation algorithm in the MESH land surface-hydrology model and tested it over the SaskRB. MESH is Environment Canada's Land Surface-hydrology modeling system that couples Canadian Land Surface Scheme (CLASS) with hydrological routing model. The implemented reservoir algorithm uses an inflow-outflow relationship that accounts for the physical characteristics of reservoirs (e.g., storage-area-elevation relationships) and includes simplified operational characteristics based on local information (e.g., monthly target volume and release under limited, normal, and flood storage zone). The irrigation algorithm uses the difference between actual and potential evapotranspiration to estimate irrigation water demand. This irrigation demand is supplied from the neighboring reservoirs/diversion in the river system. We calibrated the model enabled with the new reservoir and irrigation modules in a multi-objective optimization setting. Results showed that the reservoir and irrigation modules significantly improved the MESH model performance in generating streamflow and evapotranspiration across the SaskRB and that this our approach provides a basis for improved large scale hydrological modelling.

A finite element conjugate gradient FFT method for scattering

NASA Technical Reports Server (NTRS)

Collins, Jeffery D.; Zapp, John; Hsa, Chang-Yu; Volakis, John L.

1990-01-01

An extension of a two dimensional formulation is presented for a three dimensional body of revolution. With the introduction of a Fourier expansion of the vector electric and magnetic fields, a coupled two dimensional system is generated and solved via the finite element method. An exact boundary condition is employed to terminate the mesh and the fast fourier transformation (FFT) is used to evaluate the boundary integrals for low O(n) memory demand when an iterative solution algorithm is used. By virtue of the finite element method, the algorithm is applicable to structures of arbitrary material composition. Several improvements to the two dimensional algorithm are also described. These include: (1) modifications for terminating the mesh at circular boundaries without distorting the convolutionality of the boundary integrals; (2) the development of nonproprietary mesh generation routines for two dimensional applications; (3) the development of preprocessors for interfacing SDRC IDEAS with the main algorithm; and (4) the development of post-processing algorithms based on the public domain package GRAFIC to generate two and three dimensional gray level and color field maps.

Well-balanced Arbitrary-Lagrangian-Eulerian finite volume schemes on moving nonconforming meshes for the Euler equations of gas dynamics with gravity

NASA Astrophysics Data System (ADS)

Gaburro, Elena; Castro, Manuel J.; Dumbser, Michael

2018-06-01

In this work, we present a novel second-order accurate well-balanced arbitrary Lagrangian-Eulerian (ALE) finite volume scheme on moving nonconforming meshes for the Euler equations of compressible gas dynamics with gravity in cylindrical coordinates. The main feature of the proposed algorithm is the capability of preserving many of the physical properties of the system exactly also on the discrete level: besides being conservative for mass, momentum and total energy, also any known steady equilibrium between pressure gradient, centrifugal force, and gravity force can be exactly maintained up to machine precision. Perturbations around such equilibrium solutions are resolved with high accuracy and with minimal dissipation on moving contact discontinuities even for very long computational times. This is achieved by the novel combination of well-balanced path-conservative finite volume schemes, which are expressly designed to deal with source terms written via non-conservative products, with ALE schemes on moving grids, which exhibit only very little numerical dissipation on moving contact waves. In particular, we have formulated a new HLL-type and a novel Osher-type flux that are both able to guarantee the well balancing in a gas cloud rotating around a central object. Moreover, to maintain a high level of quality of the moving mesh, we have adopted a nonconforming treatment of the sliding interfaces that appear due to the differential rotation. A large set of numerical tests has been carried out in order to check the accuracy of the method close and far away from the equilibrium, both, in one- and two-space dimensions.

Recent work on material interface reconstruction

DOE Office of Scientific and Technical Information (OSTI.GOV)

Mosso, S.J.; Swartz, B.K.

1997-12-31

For the last 15 years, many Eulerian codes have relied on a series of piecewise linear interface reconstruction algorithms developed by David Youngs. In a typical Youngs` method, the material interfaces were reconstructed based upon nearly cell values of volume fractions of each material. The interfaces were locally represented by linear segments in two dimensions and by pieces of planes in three dimensions. The first step in such reconstruction was to locally approximate an interface normal. In Youngs` 3D method, a local gradient of a cell-volume-fraction function was estimated and taken to be the local interface normal. A linear interfacemore » was moved perpendicular to the now known normal until the mass behind it matched the material volume fraction for the cell in question. But for distorted or nonorthogonal meshes, the gradient normal estimate didn`t accurately match that of linear material interfaces. Moreover, curved material interfaces were also poorly represented. The authors will present some recent work in the computation of more accurate interface normals, without necessarily increasing stencil size. Their estimate of the normal is made using an iterative process that, given mass fractions for nearby cells of known but arbitrary variable density, converges in 3 or 4 passes in practice (and quadratically--like Newton`s method--in principle). The method reproduces a linear interface in both orthogonal and nonorthogonal meshes. The local linear approximation is generally 2nd-order accurate, with a 1st-order accurate normal for curved interfaces in both two and three dimensional polyhedral meshes. Recent work demonstrating the interface reconstruction for curved surfaces will /be discussed.« less

Earthquake Rupture Dynamics using Adaptive Mesh Refinement and High-Order Accurate Numerical Methods

NASA Astrophysics Data System (ADS)

Kozdon, J. E.; Wilcox, L.

2013-12-01

Our goal is to develop scalable and adaptive (spatial and temporal) numerical methods for coupled, multiphysics problems using high-order accurate numerical methods. To do so, we are developing an opensource, parallel library known as bfam (available at http://bfam.in). The first application to be developed on top of bfam is an earthquake rupture dynamics solver using high-order discontinuous Galerkin methods and summation-by-parts finite difference methods. In earthquake rupture dynamics, wave propagation in the Earth's crust is coupled to frictional sliding on fault interfaces. This coupling is two-way, required the simultaneous simulation of both processes. The use of laboratory-measured friction parameters requires near-fault resolution that is 4-5 orders of magnitude higher than that needed to resolve the frequencies of interest in the volume. This, along with earlier simulations using a low-order, finite volume based adaptive mesh refinement framework, suggest that adaptive mesh refinement is ideally suited for this problem. The use of high-order methods is motivated by the high level of resolution required off the fault in earlier the low-order finite volume simulations; we believe this need for resolution is a result of the excessive numerical dissipation of low-order methods. In bfam spatial adaptivity is handled using the p4est library and temporal adaptivity will be accomplished through local time stepping. In this presentation we will present the guiding principles behind the library as well as verification of code against the Southern California Earthquake Center dynamic rupture code validation test problems.

Adjoint-Based Mesh Adaptation for the Sonic Boom Signature Loudness

NASA Technical Reports Server (NTRS)

Rallabhandi, Sriram K.; Park, Michael A.

2017-01-01

The mesh adaptation functionality of FUN3D is utilized to obtain a mesh optimized to calculate sonic boom ground signature loudness. During this process, the coupling between the discrete-adjoints of the computational fluid dynamics tool FUN3D and the atmospheric propagation tool sBOOM is exploited to form the error estimate. This new mesh adaptation methodology will allow generation of suitable meshes adapted to reduce the estimated errors in the ground loudness, which is an optimization metric employed in supersonic aircraft design. This new output-based adaptation could allow new insights into meshing for sonic boom analysis and design, and complements existing output-based adaptation techniques such as adaptation to reduce estimated errors in off-body pressure functional. This effort could also have implications for other coupled multidisciplinary adjoint capabilities (e.g., aeroelasticity) as well as inclusion of propagation specific parameters such as prevailing winds or non-standard atmospheric conditions. Results are discussed in the context of existing methods and appropriate conclusions are drawn as to the efficacy and efficiency of the developed capability.

Time-dependent grid adaptation for meshes of triangles and tetrahedra

NASA Technical Reports Server (NTRS)

Rausch, Russ D.

1993-01-01

This paper presents in viewgraph form a method of optimizing grid generation for unsteady CFD flow calculations that distributes the numerical error evenly throughout the mesh. Adaptive meshing is used to locally enrich in regions of relatively large errors and to locally coarsen in regions of relatively small errors. The enrichment/coarsening procedures are robust for isotropic cells; however, enrichment of high aspect ratio cells may fail near boundary surfaces with relatively large curvature. The enrichment indicator worked well for the cases shown, but in general requires user supervision for a more efficient solution.

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.

Introducing Enabling Computational Tools to the Climate Sciences: Multi-Resolution Climate Modeling with Adaptive Cubed-Sphere Grids

DOE Office of Scientific and Technical Information (OSTI.GOV)

Jablonowski, Christiane

The research investigates and advances strategies how to bridge the scale discrepancies between local, regional and global phenomena in climate models without the prohibitive computational costs of global cloud-resolving simulations. In particular, the research explores new frontiers in computational geoscience by introducing high-order Adaptive Mesh Refinement (AMR) techniques into climate research. AMR and statically-adapted variable-resolution approaches represent an emerging trend for atmospheric models and are likely to become the new norm in future-generation weather and climate models. The research advances the understanding of multi-scale interactions in the climate system and showcases a pathway how to model these interactions effectively withmore » advanced computational tools, like the Chombo AMR library developed at the Lawrence Berkeley National Laboratory. The research is interdisciplinary and combines applied mathematics, scientific computing and the atmospheric sciences. In this research project, a hierarchy of high-order atmospheric models on cubed-sphere computational grids have been developed that serve as an algorithmic prototype for the finite-volume solution-adaptive Chombo-AMR approach. The foci of the investigations have lied on the characteristics of both static mesh adaptations and dynamically-adaptive grids that can capture flow fields of interest like tropical cyclones. Six research themes have been chosen. These are (1) the introduction of adaptive mesh refinement techniques into the climate sciences, (2) advanced algorithms for nonhydrostatic atmospheric dynamical cores, (3) an assessment of the interplay between resolved-scale dynamical motions and subgrid-scale physical parameterizations, (4) evaluation techniques for atmospheric model hierarchies, (5) the comparison of AMR refinement strategies and (6) tropical cyclone studies with a focus on multi-scale interactions and variable-resolution modeling. The results of this research project demonstrate significant advances in all six research areas. The major conclusions are that statically-adaptive variable-resolution modeling is currently becoming mature in the climate sciences, and that AMR holds outstanding promise for future-generation weather and climate models on high-performance computing architectures.« less

A parallel finite element simulator for ion transport through three-dimensional ion channel systems.

PubMed

Tu, Bin; Chen, Minxin; Xie, Yan; Zhang, Linbo; Eisenberg, Bob; Lu, Benzhuo

2013-09-15

A parallel finite element simulator, ichannel, is developed for ion transport through three-dimensional ion channel systems that consist of protein and membrane. The coordinates of heavy atoms of the protein are taken from the Protein Data Bank and the membrane is represented as a slab. The simulator contains two components: a parallel adaptive finite element solver for a set of Poisson-Nernst-Planck (PNP) equations that describe the electrodiffusion process of ion transport, and a mesh generation tool chain for ion channel systems, which is an essential component for the finite element computations. The finite element method has advantages in modeling irregular geometries and complex boundary conditions. We have built a tool chain to get the surface and volume mesh for ion channel systems, which consists of a set of mesh generation tools. The adaptive finite element solver in our simulator is implemented using the parallel adaptive finite element package Parallel Hierarchical Grid (PHG) developed by one of the authors, which provides the capability of doing large scale parallel computations with high parallel efficiency and the flexibility of choosing high order elements to achieve high order accuracy. The simulator is applied to a real transmembrane protein, the gramicidin A (gA) channel protein, to calculate the electrostatic potential, ion concentrations and I - V curve, with which both primitive and transformed PNP equations are studied and their numerical performances are compared. To further validate the method, we also apply the simulator to two other ion channel systems, the voltage dependent anion channel (VDAC) and α-Hemolysin (α-HL). The simulation results agree well with Brownian dynamics (BD) simulation results and experimental results. Moreover, because ionic finite size effects can be included in PNP model now, we also perform simulations using a size-modified PNP (SMPNP) model on VDAC and α-HL. It is shown that the size effects in SMPNP can effectively lead to reduced current in the channel, and the results are closer to BD simulation results. Copyright © 2013 Wiley Periodicals, Inc.

Ultrafast Phenomena 6. Proceedings of the International Conference (6th) Held in Kyoto, Japan on July 12-15, 1988. Springer Series in Chemical Physics, Volume 48

DTIC Science & Technology

1988-01-01

affected mainly by those of upper- and lower-side stacks, respectively. In the region of the wave- length longer than the resonance wavelength AAO of the...multiphoton processes in a solid aluminum target produce an aluminum ion plasma exhibiting line radiation at energies exceeding 2 keV. Another experiment...voltages of the tube photocathode and mesh were -8kV, -3kV respectively relative to the grounded anode . This gave, for a mesh to cathode spacing of 1.2mm

Performance Evaluation of Various STL File Mesh Refining Algorithms Applied for FDM-RP Process

NASA Astrophysics Data System (ADS)

Ledalla, Siva Rama Krishna; Tirupathi, Balaji; Sriram, Venkatesh

2018-06-01

Layered manufacturing machines use the stereolithography (STL) file to build parts. When a curved surface is converted from a computer aided design (CAD) file to STL, it results in a geometrical distortion and chordal error. Parts manufactured with this file, might not satisfy geometric dimensioning and tolerance requirements due to approximated geometry. Current algorithms built in CAD packages have export options to globally reduce this distortion, which leads to an increase in the file size and pre-processing time. In this work, different mesh subdivision algorithms are applied on STL file of a complex geometric features using MeshLab software. The mesh subdivision algorithms considered in this work are modified butterfly subdivision technique, loops sub division technique and general triangular midpoint sub division technique. A comparative study is made with respect to volume and the build time using the above techniques. It is found that triangular midpoint sub division algorithm is more suitable for the geometry under consideration. Only the wheel cap part is then manufactured on Stratasys MOJO FDM machine. The surface roughness of the part is measured on Talysurf surface roughness tester.

A Hybrid Numerical Analysis Method for Structural Health Monitoring

NASA Technical Reports Server (NTRS)

Forth, Scott C.; Staroselsky, Alexander

2001-01-01

A new hybrid surface-integral-finite-element numerical scheme has been developed to model a three-dimensional crack propagating through a thin, multi-layered coating. The finite element method was used to model the physical state of the coating (far field), and the surface integral method was used to model the fatigue crack growth. The two formulations are coupled through the need to satisfy boundary conditions on the crack surface and the external boundary. The coupling is sufficiently weak that the surface integral mesh of the crack surface and the finite element mesh of the uncracked volume can be set up independently. Thus when modeling crack growth, the finite element mesh can remain fixed for the duration of the simulation as the crack mesh is advanced. This method was implemented to evaluate the feasibility of fabricating a structural health monitoring system for real-time detection of surface cracks propagating in engine components. In this work, the authors formulate the hybrid surface-integral-finite-element method and discuss the mechanical issues of implementing a structural health monitoring system in an aircraft engine environment.

On physical-constraints-preserving schemes for special relativistic magnetohydrodynamics with a general equation of state

NASA Astrophysics Data System (ADS)

Wu, Kailiang; Tang, Huazhong

2018-06-01

The paper studies the physical-constraints-preserving (PCP) schemes for multi-dimensional special relativistic magnetohydrodynamics with a general equation of state (EOS) on more general meshes. It is an extension of the work (Wu and Tang in Math. Models Methods Appl. Sci. 27:1871-1928, 2017) which focuses on the ideal EOS and uniform Cartesian meshes. The general EOS without a special expression poses some additional difficulties in discussing the mathematical properties of admissible state set with the physical constraints on the fluid velocity, density and pressure. Rigorous analyses are provided for the PCP property of finite volume or discontinuous Galerkin schemes with the Lax-Friedrichs (LxF)-type flux on a general mesh with non-self-intersecting polytopes. Those are built on a more general form of generalized LxF splitting property and a different convex decomposition technique. It is shown in theory that the PCP property is closely connected with a discrete divergence-free condition, which is proposed on the general mesh and milder than that in Wu and Tang (2017).

Anisotropic diffusion in mesh-free numerical magnetohydrodynamics

NASA Astrophysics Data System (ADS)

Hopkins, Philip F.

2017-04-01

We extend recently developed mesh-free Lagrangian methods for numerical magnetohydrodynamics (MHD) to arbitrary anisotropic diffusion equations, including: passive scalar diffusion, Spitzer-Braginskii conduction and viscosity, cosmic ray diffusion/streaming, anisotropic radiation transport, non-ideal MHD (Ohmic resistivity, ambipolar diffusion, the Hall effect) and turbulent 'eddy diffusion'. We study these as implemented in the code GIZMO for both new meshless finite-volume Godunov schemes (MFM/MFV). We show that the MFM/MFV methods are accurate and stable even with noisy fields and irregular particle arrangements, and recover the correct behaviour even in arbitrarily anisotropic cases. They are competitive with state-of-the-art AMR/moving-mesh methods, and can correctly treat anisotropic diffusion-driven instabilities (e.g. the MTI and HBI, Hall MRI). We also develop a new scheme for stabilizing anisotropic tensor-valued fluxes with high-order gradient estimators and non-linear flux limiters, which is trivially generalized to AMR/moving-mesh codes. We also present applications of some of these improvements for SPH, in the form of a new integral-Godunov SPH formulation that adopts a moving-least squares gradient estimator and introduces a flux-limited Riemann problem between particles.

A preliminary study of the Caprella scaura amphipod culture for potential use in aquaculture

NASA Astrophysics Data System (ADS)

Baeza-Rojano, Elena; Calero-Cano, Sandra; Hachero-Cruzado, Ismael; Guerra-García, José Manuel

2013-10-01

The caprellid amphipod Caprella scaura Templeton, 1836 was investigated as a mass culture organism, for potential use as natural prey in aquaculture. C. scaura showed good population growth during 3 months of culturing with nauplii of Artemia sp. and microalgae as food source. A final mean population size of 12,510.67 individuals/tank and a maximum density of 10,460 individuals m- 2 were obtained; a 50-fold increase of the initial population was observed. Juveniles were the most abundant stage in the culture (86.0% of total), followed by mature females (5.4%) and immature males (3.1%). Three kinds of plastic mesh with different complexity levels were used as artificial substrates for amphipods to attach to and shelter. There were no significant differences in the total number of individuals present on each kind of mesh, although female and male adults were more abundant in folded meshes with larger pore diameter. This research demonstrated that the caprellid amphipod C. scaura may be readily cultured at high densities with a variety of mesh morphologies allowing more efficient use of tank volume and improved handling.

Toward automatic finite element analysis

NASA Technical Reports Server (NTRS)

Kela, Ajay; Perucchio, Renato; Voelcker, Herbert

1987-01-01

Two problems must be solved if the finite element method is to become a reliable and affordable blackbox engineering tool. Finite element meshes must be generated automatically from computer aided design databases and mesh analysis must be made self-adaptive. The experimental system described solves both problems in 2-D through spatial and analytical substructuring techniques that are now being extended into 3-D.

A manual for PARTI runtime primitives, revision 1

NASA Technical Reports Server (NTRS)

Das, Raja; Saltz, Joel; Berryman, Harry

1991-01-01

Primitives are presented that are designed to help users efficiently program irregular problems (e.g., unstructured mesh sweeps, sparse matrix codes, adaptive mesh partial differential equations solvers) on distributed memory machines. These primitives are also designed for use in compilers for distributed memory multiprocessors. Communications patterns are captured at runtime, and the appropriate send and receive messages are automatically generated.

Latency-Efficient Communication in Wireless Mesh Networks under Consideration of Large Interference Range

NASA Astrophysics Data System (ADS)

Xin, Qin; Yao, Xiaolan; Engelstad, Paal E.

2010-09-01

Wireless Mesh Networking is an emerging communication paradigm to enable resilient, cost-efficient and reliable services for the future-generation wireless networks. We study here the minimum-latency communication primitive of gossiping (all-to-all communication) in multi-hop ad-hoc Wireless Mesh Networks (WMNs). Each mesh node in the WMN is initially given a message and the objective is to design a minimum-latency schedule such that each mesh node distributes its message to all other mesh nodes. Minimum-latency gossiping problem is well known to be NP-hard even for the scenario in which the topology of the WMN is known to all mesh nodes in advance. In this paper, we propose a new latency-efficient approximation scheme that can accomplish gossiping task in polynomial time units in any ad-hoc WMN under consideration of Large Interference Range (LIR), e.g., the interference range is much larger than the transmission range. To the best of our knowledge, it is first time to investigate such a scenario in ad-hoc WMNs under LIR, our algorithm allows the labels (e.g., identifiers) of the mesh nodes to be polynomially large in terms of the size of the WMN, which is the first time that the scenario of large labels has been considered in ad-hoc WMNs under LIR. Furthermore, our gossiping scheme can be considered as a framework which can be easily implied to the scenario under consideration of mobility-related issues since we assume that the mesh nodes have no knowledge on the network topology even for its neighboring mesh nodes.

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.; ...

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

A short note on the use of the red-black tree in Cartesian adaptive mesh refinement algorithms

NASA Astrophysics Data System (ADS)

Hasbestan, Jaber J.; Senocak, Inanc

2017-12-01

Mesh adaptivity is an indispensable capability to tackle multiphysics problems with large disparity in time and length scales. With the availability of powerful supercomputers, there is a pressing need to extend time-proven computational techniques to extreme-scale problems. Cartesian adaptive mesh refinement (AMR) is one such method that enables simulation of multiscale, multiphysics problems. AMR is based on construction of octrees. Originally, an explicit tree data structure was used to generate and manipulate an adaptive Cartesian mesh. At least eight pointers are required in an explicit approach to construct an octree. Parent-child relationships are then used to traverse the tree. An explicit octree, however, is expensive in terms of memory usage and the time it takes to traverse the tree to access a specific node. For these reasons, implicit pointerless methods have been pioneered within the computer graphics community, motivated by applications requiring interactivity and realistic three dimensional visualization. Lewiner et al. [1] provides a concise review of pointerless approaches to generate an octree. Use of a hash table and Z-order curve are two key concepts in pointerless methods that we briefly discuss next.

Quantitative 3-D Imaging, Segmentation and Feature Extraction of the Respiratory System in Small Mammals for Computational Biophysics Simulations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Trease, Lynn L.; Trease, Harold E.; Fowler, John

2007-03-15

One of the critical steps toward performing computational biology simulations, using mesh based integration methods, is in using topologically faithful geometry derived from experimental digital image data as the basis for generating the computational meshes. Digital image data representations contain both the topology of the geometric features and experimental field data distributions. The geometric features that need to be captured from the digital image data are three-dimensional, therefore the process and tools we have developed work with volumetric image data represented as data-cubes. This allows us to take advantage of 2D curvature information during the segmentation and feature extraction process.more » The process is basically: 1) segmenting to isolate and enhance the contrast of the features that we wish to extract and reconstruct, 2) extracting the geometry of the features in an isosurfacing technique, and 3) building the computational mesh using the extracted feature geometry. “Quantitative” image reconstruction and feature extraction is done for the purpose of generating computational meshes, not just for producing graphics "screen" quality images. For example, the surface geometry that we extract must represent a closed water-tight surface.« less

A Posteriori Bounds for Linear-Functional Outputs of Crouzeix-Raviart Finite Element Discretizations of the Incompressible Stokes Problem

NASA Technical Reports Server (NTRS)

Patera, Anthony T.; Paraschivoiu, Marius

1998-01-01

We present a finite element technique for the efficient generation of lower and upper bounds to outputs which are linear functionals of the solutions to the incompressible Stokes equations in two space dimensions; the finite element discretization is effected by Crouzeix-Raviart elements, the discontinuous pressure approximation of which is central to our approach. The bounds are based upon the construction of an augmented Lagrangian: the objective is a quadratic "energy" reformulation of the desired output; the constraints are the finite element equilibrium equations (including the incompressibility constraint), and the intersubdomain continuity conditions on velocity. Appeal to the dual max-min problem for appropriately chosen candidate Lagrange multipliers then yields inexpensive bounds for the output associated with a fine-mesh discretization; the Lagrange multipliers are generated by exploiting an associated coarse-mesh approximation. In addition to the requisite coarse-mesh calculations, the bound technique requires solution only of local subdomain Stokes problems on the fine-mesh. The method is illustrated for the Stokes equations, in which the outputs of interest are the flowrate past, and the lift force on, a body immersed in a channel.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Popov, Emilian L.; Pointer, William David

This work assesses the influence of assumptions made when generating a mesh of a wire-wrappedgeometry. The contact region between a wire and its adjacent pin is commonly modeled by eitherembedding the wire to the adjacent pin or trimming the wire so that a gap separates the wire from itsadjacent pin. These models are referred to as close-gap and open-gap approaches herein and are applied totwo geometries. The first geometry consists of a single pin wire-wrapped subchannel. A polyhedral meshand a hexahedral mesh are generated. The second and third geometry are a 7-pin and a 19-pinwire-wrapped bundles meshed with polyhedral elementsmore » only. Pressure drops are obtained with theSTAR-CCM+computational fluid dynamic package. Sensitivity analyses of the mesh density, the meshtype, and the turbulent models are performed. Numerical results show that the best match to theexperimental data and to the Cheng-Todreas correlation is obtained with the combination of a hexahedralmesh, the shear stress transport (SST) turbulent model, and the open-gap approach. In the case of the 7-pingeometry, the best results are obtained with the open-gap approach and the SST turbulent model. The19-pin geometry yields contradictory results to the 7-pin geometry results, and thus will require furtherinvestigations.« less

Method and Apparatus for Virtual Interactive Medical Imaging by Multiple Remotely-Located Users

NASA Technical Reports Server (NTRS)

Ross, Muriel D. (Inventor); Twombly, Ian Alexander (Inventor); Senger, Steven O. (Inventor)

2003-01-01

A virtual interactive imaging system allows the displaying of high-resolution, three-dimensional images of medical data to a user and allows the user to manipulate the images, including rotation of images in any of various axes. The system includes a mesh component that generates a mesh to represent a surface of an anatomical object, based on a set of data of the object, such as from a CT or MRI scan or the like. The mesh is generated so as to avoid tears, or holes, in the mesh, providing very high-quality representations of topographical features of the object, particularly at high- resolution. The system further includes a virtual surgical cutting tool that enables the user to simulate the removal of a piece or layer of a displayed object, such as a piece of skin or bone, view the interior of the object, manipulate the removed piece, and reattach the removed piece if desired. The system further includes a virtual collaborative clinic component, which allows the users of multiple, remotely-located computer systems to collaboratively and simultaneously view and manipulate the high-resolution, three-dimensional images of the object in real-time.

High-Performance Flexible Transparent Electrode with an Embedded Metal Mesh Fabricated by Cost-Effective Solution Process.

PubMed

Khan, Arshad; Lee, Sangeon; Jang, Taehee; Xiong, Ze; Zhang, Cuiping; Tang, Jinyao; Guo, L Jay; Li, Wen-Di

2016-06-01

A new structure of flexible transparent electrodes is reported, featuring a metal mesh fully embedded and mechanically anchored in a flexible substrate, and a cost-effective solution-based fabrication strategy for this new transparent electrode. The embedded nature of the metal-mesh electrodes provides a series of advantages, including surface smoothness that is crucial for device fabrication, mechanical stability under high bending stress, strong adhesion to the substrate with excellent flexibility, and favorable resistance against moisture, oxygen, and chemicals. The novel fabrication process replaces vacuum-based metal deposition with an electrodeposition process and is potentially suitable for high-throughput, large-volume, and low-cost production. In particular, this strategy enables fabrication of a high-aspect-ratio (thickness to linewidth) metal mesh, substantially improving conductivity without considerably sacrificing transparency. Various prototype flexible transparent electrodes are demonstrated with transmittance higher than 90% and sheet resistance below 1 ohm sq(-1) , as well as extremely high figures of merit up to 1.5 × 10(4) , which are among the highest reported values in recent studies. Finally using our embedded metal-mesh electrode, a flexible transparent thin-film heater is demonstrated with a low power density requirement, rapid response time, and a low operating voltage. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Rebay, S.

This work is devoted to the description of an efficient unstructured mesh generation method entirely based on the Delaunay triangulation. The distinctive characteristic of the proposed method is that point positions and connections are computed simultaneously. This result is achieved by taking advantage of the sequential way in which the Bowyer-Watson algorithm computes the Delaunay triangulation. Two methods are proposed which have great geometrical flexibility, in that they allow us to treat domains of arbitrary shape and topology and to generate arbitrarily nonuniform meshes. The methods are computationally efficient and are applicable both in two and three dimensions. 11 refs.,more » 20 figs., 1 tab.« less

An Adaptive Mesh Algorithm: Mesh Structure and Generation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Scannapieco, Anthony J.

2016-06-21

The purpose of Adaptive Mesh Refinement is to minimize spatial errors over the computational space not to minimize the number of computational elements. The additional result of the technique is that it may reduce the number of computational elements needed to retain a given level of spatial accuracy. Adaptive mesh refinement is a computational technique used to dynamically select, over a region of space, a set of computational elements designed to minimize spatial error in the computational model of a physical process. The fundamental idea is to increase the mesh resolution in regions where the physical variables are represented bymore » a broad spectrum of modes in k-space, hence increasing the effective global spectral coverage of those physical variables. In addition, the selection of the spatially distributed elements is done dynamically by cyclically adjusting the mesh to follow the spectral evolution of the system. Over the years three types of AMR schemes have evolved; block, patch and locally refined AMR. In block and patch AMR logical blocks of various grid sizes are overlaid to span the physical space of interest, whereas in locally refined AMR no logical blocks are employed but locally nested mesh levels are used to span the physical space. The distinction between block and patch AMR is that in block AMR the original blocks refine and coarsen entirely in time, whereas in patch AMR the patches change location and zone size with time. The type of AMR described herein is a locally refi ned AMR. In the algorithm described, at any point in physical space only one zone exists at whatever level of mesh that is appropriate for that physical location. The dynamic creation of a locally refi ned computational mesh is made practical by a judicious selection of mesh rules. With these rules the mesh is evolved via a mesh potential designed to concentrate the nest mesh in regions where the physics is modally dense, and coarsen zones in regions where the physics is modally sparse.« less

Multi-Resolution Unstructured Grid-Generation for Geophysical Applications on the Sphere

NASA Technical Reports Server (NTRS)

Engwirda, Darren

2015-01-01

An algorithm for the generation of non-uniform unstructured grids on ellipsoidal geometries is described. This technique is designed to generate high quality triangular and polygonal meshes appropriate for general circulation modelling on the sphere, including applications to atmospheric and ocean simulation, and numerical weather predication. Using a recently developed Frontal-Delaunay-refinement technique, a method for the construction of high-quality unstructured ellipsoidal Delaunay triangulations is introduced. A dual polygonal grid, derived from the associated Voronoi diagram, is also optionally generated as a by-product. Compared to existing techniques, it is shown that the Frontal-Delaunay approach typically produces grids with near-optimal element quality and smooth grading characteristics, while imposing relatively low computational expense. Initial results are presented for a selection of uniform and non-uniform ellipsoidal grids appropriate for large-scale geophysical applications. The use of user-defined mesh-sizing functions to generate smoothly graded, non-uniform grids is discussed.

Infrared Light Structured Sensor 3D Approach to Estimate Kidney Volume: A Validation Study.

PubMed

Garisto, Juan; Bertolo, Riccardo; Dagenais, Julien; Kaouk, Jihad

2018-06-26

To validate a new procedure for the three-dimensional (3D) estimation of total renal parenchyma volume (RPV) using a structured-light infrared laser sensor. To evaluate the accuracy of the sensor for assessing renal volume, we performed three experiments. Twenty freshly excised porcine kidneys were obtained. Experiment A, the water displacement method was used to obtain a determination of the RPV after immersing every kidney into 0.9% saline. Thereafter a structured sensor (Occipital, San Francisco, CA, USA) was used to scan the kidney. Kidney sample surface was presented initially as a mesh and then imported into MeshLab (Visual Computing Lab, Pisa, Italy) software to obtain the surface volume. Experiment B, a partial excision of the kidney with measurement of the excised volume and remnant was performed. Experiment C, a renorrhaphy of the remnant kidney was performed then measured. Bias and limits of agreement (LOA) were determined using the Bland-Altman method. Reliability was assessed using the intraclass correlation coefficient (ICC). Experiment A, the sensor bias was -1.95 mL (LOA: -19.5 to 15.59, R2= 0.410) with slightly overestimating the volumes. Experiment B, remnant kidney after partial excision and excised kidney volume were measured showing a sensor bias of -0.5 mL (LOA -5.34 to 4.20, R2= 0.490) and -0.6 mL (LOA: -1.97.08 to 0.77, R2= 0.561), respectively. Experiment C, the sensor bias was -0.89 mL (LOA -12.9 to 11.1, R2= 0.888). ICC was 0.9998. The sensor is a reliable method for assessing total renal volume with high levels of accuracy. Copyright © 2018. Published by Elsevier Inc.

DeepMeSH: deep semantic representation for improving large-scale MeSH indexing.

PubMed

Peng, Shengwen; You, Ronghui; Wang, Hongning; Zhai, Chengxiang; Mamitsuka, Hiroshi; Zhu, Shanfeng

2016-06-15

Medical Subject Headings (MeSH) indexing, which is to assign a set of MeSH main headings to citations, is crucial for many important tasks in biomedical text mining and information retrieval. Large-scale MeSH indexing has two challenging aspects: the citation side and MeSH side. For the citation side, all existing methods, including Medical Text Indexer (MTI) by National Library of Medicine and the state-of-the-art method, MeSHLabeler, deal with text by bag-of-words, which cannot capture semantic and context-dependent information well. We propose DeepMeSH that incorporates deep semantic information for large-scale MeSH indexing. It addresses the two challenges in both citation and MeSH sides. The citation side challenge is solved by a new deep semantic representation, D2V-TFIDF, which concatenates both sparse and dense semantic representations. The MeSH side challenge is solved by using the 'learning to rank' framework of MeSHLabeler, which integrates various types of evidence generated from the new semantic representation. DeepMeSH achieved a Micro F-measure of 0.6323, 2% higher than 0.6218 of MeSHLabeler and 12% higher than 0.5637 of MTI, for BioASQ3 challenge data with 6000 citations. The software is available upon request. zhusf@fudan.edu.cn Supplementary data are available at Bioinformatics online. © The Author 2016. Published by Oxford University Press.

Numerical evaluation of moiré pattern in touch sensor module with electrode mesh structure in oblique view

NASA Astrophysics Data System (ADS)

Pournoury, M.; Zamiri, A.; Kim, T. Y.; Yurlov, V.; Oh, K.

2016-03-01

Capacitive touch sensor screen with the metal materials has recently become qualified for substitution of ITO; however several obstacles still have to be solved. One of the most important issues is moiré phenomenon. The visibility problem of the metal-mesh, in touch sensor module (TSM) is numerically considered in this paper. Based on human eye contract sensitivity function (CSF), moiré pattern of TSM electrode mesh structure is simulated with MATLAB software for 8 inch screen display in oblique view. Standard deviation of the generated moiré by the superposition of electrode mesh and screen image is calculated to find the optimal parameters which provide the minimum moiré visibility. To create the screen pixel array and mesh electrode, rectangular function is used. The filtered image, in frequency domain, is obtained by multiplication of Fourier transform of the finite mesh pattern (product of screen pixel and mesh electrode) with the calculated CSF function for three different observer distances (L=200, 300 and 400 mm). It is observed that the discrepancy between analytical and numerical results is less than 0.6% for 400 mm viewer distance. Moreover, in the case of oblique view due to considering the thickness of the finite film between mesh electrodes and screen, different points of minimum standard deviation of moiré pattern are predicted compared to normal view.

Algebraic grid generation with corner singularities

NASA Technical Reports Server (NTRS)

Vinokur, M.; Lombard, C. K.

1983-01-01

A simple noniterative algebraic procedure is presented for generating smooth computational meshes on a quadrilateral topology. Coordinate distribution and normal derivative are provided on all boundaries, one of which may include a slope discontinuity. The boundary conditions are sufficient to guarantee continuity of global meshes formed of joined patches generated by the procedure. The method extends to 3-D. The procedure involves a synthesis of prior techniques stretching functions, cubic blending functions, and transfinite interpolation - to which is added the functional form of the corner solution. The procedure introduces the concept of generalized blending, which is implemented as an automatic scaling of the boundary derivatives for effective interpolation. Some implications of the treatment at boundaries for techniques solving elliptic PDE's are discussed in an Appendix.

Electromagnetic forward modelling for realistic Earth models using unstructured tetrahedral meshes and a meshfree approach

NASA Astrophysics Data System (ADS)

Farquharson, C.; Long, J.; Lu, X.; Lelievre, P. G.

2017-12-01

Real-life geology is complex, and so, even when allowing for the diffusive, low resolution nature of geophysical electromagnetic methods, we need Earth models that can accurately represent this complexity when modelling and inverting electromagnetic data. This is particularly the case for the scales, detail and conductivity contrasts involved in mineral and hydrocarbon exploration and development, but also for the larger scale of lithospheric studies. Unstructured tetrahedral meshes provide a flexible means of discretizing a general, arbitrary Earth model. This is important when wanting to integrate a geophysical Earth model with a geological Earth model parameterized in terms of surfaces. Finite-element and finite-volume methods can be derived for computing the electric and magnetic fields in a model parameterized using an unstructured tetrahedral mesh. A number of such variants have been proposed and have proven successful. However, the efficiency and accuracy of these methods can be affected by the "quality" of the tetrahedral discretization, that is, how many of the tetrahedral cells in the mesh are long, narrow and pointy. This is particularly the case if one wants to use an iterative technique to solve the resulting linear system of equations. One approach to deal with this issue is to develop sophisticated model and mesh building and manipulation capabilities in order to ensure that any mesh built from geological information is of sufficient quality for the electromagnetic modelling. Another approach is to investigate other methods of synthesizing the electromagnetic fields. One such example is a "meshfree" approach in which the electromagnetic fields are synthesized using a mesh that is distinct from the mesh used to parameterized the Earth model. There are then two meshes, one describing the Earth model and one used for the numerical mathematics of computing the fields. This means that there are no longer any quality requirements on the model mesh, which makes the process of building a geophysical Earth model from a geological model much simpler. In this presentation we will explore the issues that arise when working with realistic Earth models and when synthesizing geophysical electromagnetic data for them. We briefly consider meshfree methods as a possible means of alleviating some of these issues.

Parallel Performance Optimizations on Unstructured Mesh-based Simulations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sarje, Abhinav; Song, Sukhyun; Jacobsen, Douglas

2015-01-01

© The Authors. Published by Elsevier B.V. This paper addresses two key parallelization challenges the unstructured mesh-based ocean modeling code, MPAS-Ocean, which uses a mesh based on Voronoi tessellations: (1) load imbalance across processes, and (2) unstructured data access patterns, that inhibit intra- and inter-node performance. Our work analyzes the load imbalance due to naive partitioning of the mesh, and develops methods to generate mesh partitioning with better load balance and reduced communication. Furthermore, we present methods that minimize both inter- and intranode data movement and maximize data reuse. Our techniques include predictive ordering of data elements for higher cachemore » efficiency, as well as communication reduction approaches. We present detailed performance data when running on thousands of cores using the Cray XC30 supercomputer and show that our optimization strategies can exceed the original performance by over 2×. Additionally, many of these solutions can be broadly applied to a wide variety of unstructured grid-based computations.« less

Charged particle tracking through electrostatic wire meshes using the finite element method

DOE Office of Scientific and Technical Information (OSTI.GOV)

Devlin, L. J.; Karamyshev, O.; Welsch, C. P., E-mail: carsten.welsch@cockcroft.ac.uk

Wire meshes are used across many disciplines to accelerate and focus charged particles, however, analytical solutions are non-exact and few codes exist which simulate the exact fields around a mesh with physical sizes. A tracking code based in Matlab-Simulink using field maps generated using finite element software has been developed which tracks electrons or ions through electrostatic wire meshes. The fields around such a geometry are presented as an analytical expression using several basic assumptions, however, it is apparent that computational calculations are required to obtain realistic values of electric potential and fields, particularly when multiple wire meshes are deployed.more » The tracking code is flexible in that any quantitatively describable particle distribution can be used for both electrons and ions as well as other benefits such as ease of export to other programs for analysis. The code is made freely available and physical examples are highlighted where this code could be beneficial for different applications.« less

Three dimensional unstructured multigrid for the Euler equations

NASA Technical Reports Server (NTRS)

Mavriplis, D. J.

1991-01-01

The three dimensional Euler equations are solved on unstructured tetrahedral meshes using a multigrid strategy. The driving algorithm consists of an explicit vertex-based finite element scheme, which employs an edge-based data structure to assemble the residuals. The multigrid approach employs a sequence of independently generated coarse and fine meshes to accelerate the convergence to steady-state of the fine grid solution. Variables, residuals and corrections are passed back and forth between the various grids of the sequence using linear interpolation. The addresses and weights for interpolation are determined in a preprocessing stage using linear interpolation. The addresses and weights for interpolation are determined in a preprocessing stage using an efficient graph traversal algorithm. The preprocessing operation is shown to require a negligible fraction of the CPU time required by the overall solution procedure, while gains in overall solution efficiencies greater than an order of magnitude are demonstrated on meshes containing up to 350,000 vertices. Solutions using globally regenerated fine meshes as well as adaptively refined meshes are given.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Burke, Timothy P.; Martz, Roger L.; Kiedrowski, Brian C.

New unstructured mesh capabilities in MCNP6 (developmental version during summer 2012) show potential for conducting multi-physics analyses by coupling MCNP to a finite element solver such as Abaqus/CAE[2]. Before these new capabilities can be utilized, the ability of MCNP to accurately estimate eigenvalues and pin powers using an unstructured mesh must first be verified. Previous work to verify the unstructured mesh capabilities in MCNP was accomplished using the Godiva sphere [1], and this work attempts to build on that. To accomplish this, a criticality benchmark and a fuel assembly benchmark were used for calculations in MCNP using both the Constructivemore » Solid Geometry (CSG) native to MCNP and the unstructured mesh geometry generated using Abaqus/CAE. The Big Ten criticality benchmark [3] was modeled due to its geometry being similar to that of a reactor fuel pin. The C5G7 3-D Mixed Oxide (MOX) Fuel Assembly Benchmark [4] was modeled to test the unstructured mesh capabilities on a reactor-type problem.« less

Weakly supervised automatic segmentation and 3D modeling of the knee joint from MR images

NASA Astrophysics Data System (ADS)

Amami, Amal; Ben Azouz, Zouhour

2013-12-01

Automatic segmentation and 3D modeling of the knee joint from MR images, is a challenging task. Most of the existing techniques require the tedious manual segmentation of a training set of MRIs. We present an approach that necessitates the manual segmentation of one MR image. It is based on a volumetric active appearance model. First, a dense tetrahedral mesh is automatically created on a reference MR image that is arbitrary selected. Second, a pairwise non-rigid registration between each MRI from a training set and the reference MRI is computed. The non-rigid registration is based on a piece-wise affine deformation using the created tetrahedral mesh. The minimum description length is then used to bring all the MR images into a correspondence. An average image and tetrahedral mesh, as well as a set of main modes of variations, are generated using the established correspondence. Any manual segmentation of the average MRI can be mapped to other MR images using the AAM. The proposed approach has the advantage of simultaneously generating 3D reconstructions of the surface as well as a 3D solid model of the knee joint. The generated surfaces and tetrahedral meshes present the interesting property of fulfilling a correspondence between different MR images. This paper shows preliminary results of the proposed approach. It demonstrates the automatic segmentation and 3D reconstruction of a knee joint obtained by mapping a manual segmentation of a reference image.

A recent advance in the automatic indexing of the biomedical literature.

PubMed

Névéol, Aurélie; Shooshan, Sonya E; Humphrey, Susanne M; Mork, James G; Aronson, Alan R

2009-10-01

The volume of biomedical literature has experienced explosive growth in recent years. This is reflected in the corresponding increase in the size of MEDLINE, the largest bibliographic database of biomedical citations. Indexers at the US National Library of Medicine (NLM) need efficient tools to help them accommodate the ensuing workload. After reviewing issues in the automatic assignment of Medical Subject Headings (MeSH terms) to biomedical text, we focus more specifically on the new subheading attachment feature for NLM's Medical Text Indexer (MTI). Natural Language Processing, statistical, and machine learning methods of producing automatic MeSH main heading/subheading pair recommendations were assessed independently and combined. The best combination achieves 48% precision and 30% recall. After validation by NLM indexers, a suitable combination of the methods presented in this paper was integrated into MTI as a subheading attachment feature producing MeSH indexing recommendations compliant with current state-of-the-art indexing practice.

Toward Automatic Verification of Goal-Oriented Flow Simulations

NASA Technical Reports Server (NTRS)

Nemec, Marian; Aftosmis, Michael J.

2014-01-01

We demonstrate the power of adaptive mesh refinement with adjoint-based error estimates in verification of simulations governed by the steady Euler equations. The flow equations are discretized using a finite volume scheme on a Cartesian mesh with cut cells at the wall boundaries. The discretization error in selected simulation outputs is estimated using the method of adjoint-weighted residuals. Practical aspects of the implementation are emphasized, particularly in the formulation of the refinement criterion and the mesh adaptation strategy. Following a thorough code verification example, we demonstrate simulation verification of two- and three-dimensional problems. These involve an airfoil performance database, a pressure signature of a body in supersonic flow and a launch abort with strong jet interactions. The results show reliable estimates and automatic control of discretization error in all simulations at an affordable computational cost. Moreover, the approach remains effective even when theoretical assumptions, e.g., steady-state and solution smoothness, are relaxed.

Robust adaptive 3-D segmentation of vessel laminae from fluorescence confocal microscope images and parallel GPU implementation.

PubMed

Narayanaswamy, Arunachalam; Dwarakapuram, Saritha; Bjornsson, Christopher S; Cutler, Barbara M; Shain, William; Roysam, Badrinath

2010-03-01

This paper presents robust 3-D algorithms to segment vasculature that is imaged by labeling laminae, rather than the lumenal volume. The signal is weak, sparse, noisy, nonuniform, low-contrast, and exhibits gaps and spectral artifacts, so adaptive thresholding and Hessian filtering based methods are not effective. The structure deviates from a tubular geometry, so tracing algorithms are not effective. We propose a four step approach. The first step detects candidate voxels using a robust hypothesis test based on a model that assumes Poisson noise and locally planar geometry. The second step performs an adaptive region growth to extract weakly labeled and fine vessels while rejecting spectral artifacts. To enable interactive visualization and estimation of features such as statistical confidence, local curvature, local thickness, and local normal, we perform the third step. In the third step, we construct an accurate mesh representation using marching tetrahedra, volume-preserving smoothing, and adaptive decimation algorithms. To enable topological analysis and efficient validation, we describe a method to estimate vessel centerlines using a ray casting and vote accumulation algorithm which forms the final step of our algorithm. Our algorithm lends itself to parallel processing, and yielded an 8 x speedup on a graphics processor (GPU). On synthetic data, our meshes had average error per face (EPF) values of (0.1-1.6) voxels per mesh face for peak signal-to-noise ratios from (110-28 dB). Separately, the error from decimating the mesh to less than 1% of its original size, the EPF was less than 1 voxel/face. When validated on real datasets, the average recall and precision values were found to be 94.66% and 94.84%, respectively.

Modeling hemodynamics in intracranial aneurysms: Comparing accuracy of CFD solvers based on finite element and finite volume schemes.

PubMed

Botti, Lorenzo; Paliwal, Nikhil; Conti, Pierangelo; Antiga, Luca; Meng, Hui

2018-06-01

Image-based computational fluid dynamics (CFD) has shown potential to aid in the clinical management of intracranial aneurysms (IAs) but its adoption in the clinical practice has been missing, partially due to lack of accuracy assessment and sensitivity analysis. To numerically solve the flow-governing equations CFD solvers generally rely on two spatial discretization schemes: Finite Volume (FV) and Finite Element (FE). Since increasingly accurate numerical solutions are obtained by different means, accuracies and computational costs of FV and FE formulations cannot be compared directly. To this end, in this study we benchmark two representative CFD solvers in simulating flow in a patient-specific IA model: (1) ANSYS Fluent, a commercial FV-based solver and (2) VMTKLab multidGetto, a discontinuous Galerkin (dG) FE-based solver. The FV solver's accuracy is improved by increasing the spatial mesh resolution (134k, 1.1m, 8.6m and 68.5m tetrahedral element meshes). The dGFE solver accuracy is increased by increasing the degree of polynomials (first, second, third and fourth degree) on the base 134k tetrahedral element mesh. Solutions from best FV and dGFE approximations are used as baseline for error quantification. On average, velocity errors for second-best approximations are approximately 1cm/s for a [0,125]cm/s velocity magnitude field. Results show that high-order dGFE provide better accuracy per degree of freedom but worse accuracy per Jacobian non-zero entry as compared to FV. Cross-comparison of velocity errors demonstrates asymptotic convergence of both solvers to the same numerical solution. Nevertheless, the discrepancy between under-resolved velocity fields suggests that mesh independence is reached following different paths. This article is protected by copyright. All rights reserved.

A Parallel Cartesian Approach for External Aerodynamics of Vehicles with Complex Geometry

NASA Technical Reports Server (NTRS)

Aftosmis, M. J.; Berger, M. J.; Adomavicius, G.

2001-01-01

This workshop paper presents the current status in the development of a new approach for the solution of the Euler equations on Cartesian meshes with embedded boundaries in three dimensions on distributed and shared memory architectures. The approach uses adaptively refined Cartesian hexahedra to fill the computational domain. Where these cells intersect the geometry, they are cut by the boundary into arbitrarily shaped polyhedra which receive special treatment by the solver. The presentation documents a newly developed multilevel upwind solver based on a flexible domain-decomposition strategy. One novel aspect of the work is its use of space-filling curves (SFC) for memory efficient on-the-fly parallelization, dynamic re-partitioning and automatic coarse mesh generation. Within each subdomain the approach employs a variety reordering techniques so that relevant data are on the same page in memory permitting high-performance on cache-based processors. Details of the on-the-fly SFC based partitioning are presented as are construction rules for the automatic coarse mesh generation. After describing the approach, the paper uses model problems and 3- D configurations to both verify and validate the solver. The model problems demonstrate that second-order accuracy is maintained despite the presence of the irregular cut-cells in the mesh. In addition, it examines both parallel efficiency and convergence behavior. These investigations demonstrate a parallel speed-up in excess of 28 on 32 processors of an SGI Origin 2000 system and confirm that mesh partitioning has no effect on convergence behavior.

Fluorine Generator

DTIC Science & Technology

1975-04-02

Vapor Pressure 7 Dissociation of Fluorine at 4.5 Atmospheres 28 8 -325 Mesh Crystalline Boron, Alfa/Ventron 37 9 -325 Mesh Crystalline Boron, AEE...J^—i^.^/.^.^^;. ma* ^m^*^*ml*mm^mmm’**m*, • ww "-rrm-^r- The significant product, arsenic trifluoride (AsF ), was available in...of the condensation problem, equilibrium was considered at the following precombustor pressures: (1) 0.85 and 4.5 atmospheres , corresponding to the