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  • Open Access


    Numerical Inversion of Multi-Parameters in Multi-Components Reactive Solutes Transportation in an Undisturbed Soil-Column Experiment

    G.S. Li1, D. Yao2, Y.Z. Wang3, H.Y. Jiang2

    CMES-Computer Modeling in Engineering & Sciences, Vol.51, No.1, pp. 53-72, 2009, DOI:10.3970/cmes.2009.051.053

    Abstract In this paper, an undisturbed soil-column infiltrating experiment is investigated, and a mathematical model describing multi-components solutes transport behaviors in the column is put forward by combing hydro-chemical analysis with advection dispersion mechanisms, which is a group of advection-dispersion-reaction partial differential equations. Since the model involving six reaction coefficients which can not be obtained directly, an optimal perturbation regularization algorithm of determining these parameters is performed, and numerical simulations under different conditions are carried out. Furthermore, the inversion algorithm is applied to solve the real inverse problem by utilizing the measured breakthrough data. The reconstruction data basically coincide with the… More >

  • Open Access


    Cell Cycle Modeling for Budding Yeast with Stochastic Simulation Algorithms

    Tae-Hyuk Ahn1, Layne T. Watson1,2, Yang Cao1,1, Clifford A. Shaffer1, William T. Baumann3

    CMES-Computer Modeling in Engineering & Sciences, Vol.51, No.1, pp. 27-52, 2009, DOI:10.3970/cmes.2009.051.027

    Abstract For biochemical systems, where some chemical species are represented by small numbers of molecules, discrete and stochastic approaches are more appropriate than continuous and deterministic approaches. The continuous deterministic approach using ordinary differential equations is adequate for understanding the average behavior of cells, while the discrete stochastic approach accurately captures noisy events in the growth-division cycle. Since the emergence of the stochastic simulation algorithm (SSA) by Gillespie, alternative algorithms have been developed whose goal is to improve the computational efficiency of the SSA. This paper explains and empirically compares the performance of some of these SSA alternatives on a realistic… More >

  • Open Access


    Multigrid Implementation of Cellular Automata for Topology Optimization of Continuum Structures

    R. Zakhama1,2,3, M.M. Abdalla2, H. Smaoui1,3, Z. Gürdal2

    CMES-Computer Modeling in Engineering & Sciences, Vol.51, No.1, pp. 1-26, 2009, DOI:10.3970/cmes.2009.051.001

    Abstract A multigrid accelerated cellular automata algorithm for two and three dimensional continuum topology optimization problems is presented. The topology optimization problem is regularized using the traditional SIMP approach. The analysis rules are derived from the principle of minimum total potential energy, and the design rules are derived based on continuous optimality criteria interpreted as local Kuhn-Tucker conditions. Three versions of the algorithm are implemented; a cellular automata based design algorithm, a baseline multigrid algorithm for analysis acceleration and a full multigrid integrated analysis and design algorithm. It is shown that the multigrid accelerated cellular automata scheme is a powerful tool… More >

  • Open Access


    Numerical Simulations of Flows over a Pair of Cylinders at Different Arrangements using the Immersed Boundary Method

    A.R. da Silva1, A. Silveira-Neto2,3, D.A. Rade2,4, R.Francis4, E.A. Santos4

    CMES-Computer Modeling in Engineering & Sciences, Vol.50, No.3, pp. 285-304, 2009, DOI:10.3970/cmes.2009.050.285

    Abstract In the context of computational fluid dynamics a numerical investigation of incompressible flow around fixed pairs of rigid circular cylinders was carried out. The two-dimensional filtered Navier-Stokes equations with the Smagorinsky sub-grid scale model were solved using a Cartesian non-uniform grid. The immersed Boundary Method with the Virtual Physical Model was used in order to model the presence of two circular cylinders embedded in the flow. The fractional time step method was used to couple pressure and velocity fields. The simulations were carried out for Reynolds number equal to 72,000 for pitch ratio equal to 2 and different arrangements regarding… More >

  • Open Access


    Molecular Dynamics Analysis of the Instability for a Nano-Scale Liquid Thread

    Chun-Lang Yeh 1

    CMES-Computer Modeling in Engineering & Sciences, Vol.50, No.3, pp. 253-284, 2009, DOI:10.3970/cmes.2009.050.253

    Abstract This paper investigates the instability of a liquid thread by molecular dynamics (MD) simulation. The influences of liquid thread radius, fundamental cell length, and temperature are discussed. Snapshots of molecules, number of liquid particles formed, and density field are analyzed. Two linear stability criteria, namely Rayleigh's stability criterion and Kim's stability criterion, are accessed for their validity in molecular scale. It is found that a liquid thread is more unstable and produces more liquid particles in the fundamental cell when it is thinner or at a higher temperature. In addition, a liquid thread with a longer fundamental cell length is… More >

  • Open Access


    Quasi-steady Molecular Statics Model for Simulation of Nanoscale Cutting with Different Diamond Cutters

    Zone-Ching Lin1, Jia-Rong Ye2

    CMES-Computer Modeling in Engineering & Sciences, Vol.50, No.3, pp. 227-252, 2009, DOI:10.3970/cmes.2009.050.227

    Abstract The paper develops a quasi-steady molecular statics model to analyze nanoscale cutting of copper materials by diamond cutters with different shapes. Cutting action, cutting force, equivalent strain and equivalent stress are discussed and compared. The quasi-steady molecular statics nanocutting model first assumes the trajectory of each atom of the copper workpiece being cut whenever the diamond cutter goes forward one step. It then uses the optimization search method to solve the force equilibrium equation of the Morse force in the X and Y directions when each atom moves a small distance, so as to find the new movement position of… More >

  • Open Access


    Numerical Simulation and Natural Computing applied to a Real World Traffic Optimization Case under Stress Conditions:

    M.J. Galán Moreno, J.J. Sánchez Medina, L. Álvarez Álvarez E. Rubio Royo1

    CMES-Computer Modeling in Engineering & Sciences, Vol.50, No.3, pp. 191-226, 2009, DOI:10.3970/cmes.2009.050.191

    Abstract Urban traffic is a key factor for the development of a city. There exist many different approaches facing traffic optimization. In our case we have focused on traffic lights optimization. We have designed and tested a new architecture to optimize traffic light cycle times. The purpose of this research is to demonstrate the good performance of our architecture in a congested scenario. We have simulated several congestion situations for a very large real world traffic network - "La Almozara" in Zaragoza, Spain. Our results seem encouraging in this extreme situation. As we increase the load in the network we get… More >

  • Open Access


    Wavelet Based Adaptive RBF Method for Nearly Singular Poisson-Type Problems on Irregular Domains

    Nicolas Ali Libre1,2, Arezoo Emdadi2, Edward J. Kansa3,4, Mohammad Shekarchi2, Mohammad Rahimian2

    CMES-Computer Modeling in Engineering & Sciences, Vol.50, No.2, pp. 161-190, 2009, DOI:10.3970/cmes.2009.050.161

    Abstract We present a wavelet based adaptive scheme and investigate the efficiency of this scheme for solving nearly singular potential PDEs over irregularly shaped domains. For a problem defined over Ω∈ℜd, the boundary of an irregularly shaped domain, Γ, is defined as a boundary curve that is a product of a Heaviside function along the normal direction and a piecewise continuous tangential curve. The link between the original wavelet based adaptive method presented in Libre, Emdadi, Kansa, Shekarchi, and Rahimian (2008, 2009) or LEKSR method and the generalized one is given through the use of simple Heaviside masking procedure. In addition… More >

  • Open Access


    Free Vibration Analysis of a Circular Plate with Multiple Circular Holes by Using the Multipole Trefftz Method

    Wei-Ming Lee1, Jeng-Tzong Chen2

    CMES-Computer Modeling in Engineering & Sciences, Vol.50, No.2, pp. 141-160, 2009, DOI:10.3970/cmes.2009.050.141

    Abstract This paper presents the multipole Trefftz method to derive an analytical model describing the free vibration of a circular plate with multiple circular holes. Based on the addition theorem, the solution of multipoles centered at each circle can be expressed in terms of multipoles centered at one circle, where boundary conditions are specified. In this way, a coupled infinite system of simultaneous linear algebraic equations is derived for the circular plate with multiple holes. The direct searching approach is employed in the truncated finite system to determine the natural frequencies by using the singular value decomposition (SVD). After determining the… More >

  • Open Access


    Dynamic Analysis by Meshless Local Petrov-Galerkin Formulations Considering a Time-Marching Scheme Based on Implicit Green's Functions

    D. Soares Jr.1, J. Sladek2, V. Sladek2

    CMES-Computer Modeling in Engineering & Sciences, Vol.50, No.2, pp. 115-140, 2009, DOI:10.3970/cmes.2009.050.115

    Abstract In recent years the idea of using mesh-free or mesh-less methods for numerical solution of partial differential equations has received much attention, due to their potential advantage in eliminating the costly effort of mesh generation and re-meshing. A variety of meshless methods has been proposed so far. Many of them are derived from a weak-form formulation on global domain or a set of local subdomains. In the global formulation background cells are required for the integration of the weak form. In methods based on local weak-form formulation no cells are required and therefore they are often referred to as truly… More >

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