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Splitting Methods for Three-dimensional Bio-chemical Transport

Splitting Methods for Three-dimensional Bio-chemical Transport
Author: B. P. Sommeijer
Publisher:
Total Pages: 19
Release: 1996
Genre: Diffusion
ISBN:

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Abstract: "Splitting methods for the time integration of three- dimensional transport-chemistry models offer interesting prospects: second- order accuracy can be combined with sufficient stability, and the amount of implicitness can be reduced to a manageable level. Furthermore, exploiting the parallelization and vectorization features of the algorithm, a realistic simulation with many species over long time intervals becomes feasible. As an alternative to the usual splitting functions, such as co- ordinate splitting or operator splitting, we discuss in this paper a splitting function that is of hopscotch type. Both for a second-order, symmetric spatial discretization (resulting in a three-point coupling in each direction), and for a third-order, upwind discretization (giving rise to a five-point coupling, in general), we define a particular variant of this hopscotch splitting. These splitting functions will be combined with an appropriate splitting formula, resulting in second-order (in time) splitting methods. A common feature of both hopscotch splitting functions is that we have only coupling in the vertical direction, resulting in a stability behaviour that is independent of the vertical mesh size; this is an important property for transport in shallow water. Another characteristic of this hopscotch-type splitting is that it allows for an easy application of domain decomposition techniques in the horizontal directions. Two choices for the splitting formula will be presented. The resulting methods have been applied to a large-scale test problem and the numerical results will be discussed. Furthermore, we show performance results obtained on a Cray C98/4256. As part of the project TRUST (Transport and Reactions Unified by Splitting Techniques), preliminary versions of the schemes are available for benchmarking."


Hydrobiological Modelling

Hydrobiological Modelling
Author: Brian J. Williams
Publisher: Lulu.com
Total Pages: 702
Release: 2006
Genre: Science
ISBN: 1847289606

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The book describes models of aquatic ecosystems, ranging from lakes to estuaries to the deep ocean. It provides a background in the physical and biological processes, numerical methods and elementary ecosystem models. It describes two of the most widely used hydrodynamic models and presents a number of case studies. The practice of modelling in management is discussed.


A Characteristic/finite Element Algorithm for 3-D Unsteady Advection-dominated Transport Phenomena Using Unstructured Grids

A Characteristic/finite Element Algorithm for 3-D Unsteady Advection-dominated Transport Phenomena Using Unstructured Grids
Author: Mohammad-Reza Kaazempur-Mofrad
Publisher:
Total Pages: 0
Release: 1999
Genre:
ISBN:

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The goal of this work was to develop a numerical algorithm for simulation of 3-D unsteady advection-dominated transport problems using unstructured grids, and to apply the algorithm to simulate the mass transport of some physiologically-significant species in several arterial geometries. A 3-D Characteristic Galerkin scheme for solving the hyperbolic advection equation was developed and tested. The scheme projects information from the Lagrangian (departure) grid onto the Eulerian grid at Gauss quadrature points of the Eulerian elements. This Gaussian quadrature based projection makes the scheme easily and efficiently extendible to three dimensions. A variable time step technique was devised and implemented to treat the Dirichlet inlet boundary conditions. Two efficient algorithms were devised for searching for feet of the characteristics within the finite element mesh. The properties of the Characteristic Galerkin scheme were examined by several 2-D numerical tests. The scheme exhibited good phase, Accuracy and stability behaviour. An algorithm based on operator splitting was developed for solving unsteady, advection-dominated transport problems. The algorithm incorporates the 3-D Characteristic Galerkin scheme to treat advection terms, and a standard Galerkin treatment of the diffusion terms. Up to third-order operator-splitting was implemented and validated against several analytical solutions. The algorithm showed consistent error performances and demonstrated good performance in modeling advection-dominated transport problems. Capturing the thin boundary layers formed near the walls or around objects in advection-dominated problems can be a major difficulty. It is necessary from an efficiency viewpoint to use high aspect ratio elements that are thin perpendicular to the boundary/object wall and wide along it. A general strategy was devised and implemented for generating stretched tetrahedral elements needed to efficiently capture the thin boundary layers. The algorithms described above were employed to calculate mass transfer patterns in two symmetric and asymmetric stenotic arterial models with equal cross-sectional area reduction. The complex flow field due to the stenosis in the asymmetric case resulted in mass transfer patterns which were substantially different than those exhibited by the axisymmetric stenosis. This implies that accurate representation of the arterial geometries is essential in mass transfer studies. The algorithms were also applied to calculate mass transfer in a right coronary artery model with a realistic geometry. The results suggest that anatomically correct, patient-specific arterial models are needed before any conclusion is drawn towards the existence of a link between the mass transport variations and atherosclerosis.