Search results for: a method of problem solving.

Authors: Chi-Fang Huang, Yun-Shiow Chen, Yun-Kung Chung

Abstract:

In the past decade, artificial neural networks (ANNs) have been regarded as an instrument for problem-solving and decision-making; indeed, they have already done with a substantial efficiency and effectiveness improvement in industries and businesses. In this paper, the Back-Propagation neural Networks (BPNs) will be modulated to demonstrate the performance of the collaborative forecasting (CF) function of a Collaborative Planning, Forecasting and Replenishment (CPFR®) system. CPFR functions the balance between the sufficient product supply and the necessary customer demand in a Supply and Demand Chain (SDC). Several classical standard BPN will be grouped, collaborated and exploited for the easy implementation of the proposed modular ANN framework based on the topology of a SDC. Each individual BPN is applied as a modular tool to perform the task of forecasting SKUs (Stock-Keeping Units) levels that are managed and supervised at a POS (point of sale), a wholesaler, and a manufacturer in an SDC. The proposed modular BPN-based CF system will be exemplified and experimentally verified using lots of datasets of the simulated SDC. The experimental results showed that a complex CF problem can be divided into a group of simpler sub-problems based on the single independent trading partners distributed over SDC, and its SKU forecasting accuracy was satisfied when the system forecasted values compared to the original simulated SDC data. The primary task of implementing an autonomous CF involves the study of supervised ANN learning methodology which aims at making “knowledgeable" decision for the best SKU sales plan and stocks management.

Keywords: CPFR, artificial neural networks, global logistics, supply and demand chain.

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Authors: J. Cheeneebash, V. Beeharry, A. Gopaul

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The aim of this paper is to express the input-output matrix as a linear ordering problem which is classified as an NP-hard problem. We then use a Tabu search algorithm to find the best permutation among sectors in the input-output matrix that will give an optimal solution. This optimal permutation can be useful in designing policies and strategies for economists and government in their goal of maximizing the gross domestic product.

Keywords: Input-Output matrix, linear ordering problem, Tabusearch.

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Authors: Adam Roman

Abstract:

Finding synchronizing sequences for the finite automata is a very important problem in many practical applications (part orienters in industry, reset problem in biocomputing theory, network issues etc). Problem of finding the shortest synchronizing sequence is NP-hard, so polynomial algorithms probably can work only as heuristic ones. In this paper we propose two versions of polynomial algorithms which work better than well-known Eppstein-s Greedy and Cycle algorithms.

Keywords: Synchronizing words, reset sequences, Černý Conjecture

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Authors: L. Khan mohammadi, J. Vaseghi Amiri, B. Navayi neya , M. Davoodi

Abstract:

Because of the reservoir effect, dynamic analysis of concrete dams is more involved than other common structures. This problem is mostly sourced by the differences between reservoir water, dam body and foundation material behaviors. To account for the reservoir effect in dynamic analysis of concrete gravity dams, two methods are generally employed. Eulerian method in reservoir modeling gives rise to a set of coupled equations, whereas in Lagrangian method, the same equations for dam and foundation structure are used. The Purpose of this paper is to evaluate and study possible advantages and disadvantages of both methods. Specifically, application of the above methods in the analysis of dam-foundationreservoir systems is leveraged to calculate the hydrodynamic pressure on dam faces. Within the frame work of dam- foundationreservoir systems, dam displacement under earthquake for various dimensions and characteristics are also studied. The results of both Lagrangian and Eulerian methods in effects of loading frequency, boundary condition and foundation elasticity modulus are quantitatively evaluated and compared. Our analyses show that each method has individual advantages and disadvantages. As such, in any particular case, one of the two methods may prove more suitable as presented in the results section of this study.

Keywords: Lagrangian method, Eulerian method, Earthquake, Concrete gravity dam

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Authors: Wentian Shi, Daming Shi, Maysam Orouskhani, Feng Tian

Abstract:

Currently the most prevalent deep learning methods require a large amount of data for training, whereas few-shot learning tries to learn a model from limited data without extensive retraining. In this paper, we present a loss function based on triplet loss for solving few-shot problem using metric based learning. Instead of setting the margin distance in triplet loss as a constant number empirically, we propose an adaptive margin distance strategy to obtain the appropriate margin distance automatically. We implement the strategy in the deep siamese network for deep metric embedding, by utilizing an optimization approach by penalizing the worst case and rewarding the best. Our experiments on image recognition and co-segmentation model demonstrate that using our proposed triplet loss with adaptive margin distance can significantly improve the performance.

Keywords: Few-shot learning, triplet network, adaptive margin, deep learning.

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Authors: Ashok K. Satapathy, Prerana Nashine

Abstract:

Radiative heat transfer in participating medium was carried out using the finite volume method. The radiative transfer equations are formulated for absorbing and anisotropically scattering and emitting medium. The solution strategy is discussed and the conditions for computational stability are conferred. The equations have been solved for transient radiative medium and transient radiation incorporated with transient conduction. Results have been obtained for irradiation and corresponding heat fluxes for both the cases. The solutions can be used to conclude incident energy and surface heat flux. Transient solutions were obtained for a slab of heat conducting in slab and by thermal radiation. The effect of heat conduction during the transient phase is to partially equalize the internal temperature distribution. The solution procedure provides accurate temperature distributions in these regions. A finite volume procedure with variable space and time increments is used to solve the transient radiation equation. The medium in the enclosure absorbs, emits, and anisotropically scatters radiative energy. The incident radiations and the radiative heat fluxes are presented in graphical forms. The phase function anisotropy plays a significant role in the radiation heat transfer when the boundary condition is non-symmetric.

Keywords: Participating media, finite volume method, radiation coupled with conduction, heat transfer.

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Authors: Nopparat Pochai

Abstract:

Smoke discharging is a main reason of air pollution problem from industrial plants. The obstacle of a building has an affect with the air pollutant discharge. In this research, a mathematical model of the smoke dispersion from two sources and one source with a structural obstacle is considered. The governing equation of the model is an isothermal mass transfer model in a viscous fluid. The finite element method is used to approximate the solutions of the model. The triangular linear elements have been used for discretising the domain, and time integration has been carried out by semi-implicit finite difference method. The simulations of smoke dispersion in cases of one chimney and two chimneys are presented. The maximum calculated smoke concentration of both cases are compared. It is then used to make the decision for smoke discharging and air pollutant control problems on industrial area.

Keywords: Air pollution, Smoke dispersion, Finite element method, Stream function, Vorticity equation, Convection-diffusion equation, Semi-implicit method

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Authors: Alireza Fereidooni, Kamran Behdinan, Zouheir Fawaz

Abstract:

The integral form of equations of motion of composite beams subjected to varying time loads are discretized using a developed finite element model. The model consists of a straight five node twenty-two degrees of freedom beam element. The stability analysis of the beams is studied by solving the matrix form characteristic equations of the system. The principle of virtual work and the first order shear deformation theory are employed to analyze the beams with large deformation and small strains. The regions of dynamic instability of the beam are determined by solving the obtained Mathieu form of differential equations. The effects of nonconservative loads, shear stiffness, and damping parameters on stability and response of the beams are examined. Several numerical calculations are presented to compare the results with data reported by other researchers.

Keywords: Finite element beam model, Composite Beams, stability analysis

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Authors: S. Pattanapairoj, D. Chetchotsak

Abstract:

This paper proposed classification models that would be used as a proxy for hard disk drive (HDD) functional test equitant which required approximately more than two weeks to perform the HDD status classification in either “Pass" or “Fail". These models were constructed by using committee network which consisted of a number of single neural networks. This paper also included the method to solve the problem of sparseness data in failed part, which was called “enforce learning method". Our results reveal that the constructed classification models with the proposed method could perform well in the sparse data conditions and thus the models, which used a few seconds for HDD classification, could be used to substitute the HDD functional tests.

Keywords: Sparse data, Classifications, Committee network

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Authors: Weizhi Xu, Zhiyong Liu, Dongrui Fan, Shuai Jiao, Xiaochun Ye, Fenglong Song, Chenggang Yan

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Many-core GPUs provide high computing ability and substantial bandwidth; however, optimizing irregular applications like SpMV on GPUs becomes a difficult but meaningful task. In this paper, we propose a novel method to improve the performance of SpMV on GPUs. A new storage format called HYB-R is proposed to exploit GPU architecture more efficiently. The COO portion of the matrix is partitioned recursively into a ELL portion and a COO portion in the process of creating HYB-R format to ensure that there are as many non-zeros as possible in ELL format. The method of partitioning the matrix is an important problem for HYB-R kernel, so we also try to tune the parameters to partition the matrix for higher performance. Experimental results show that our method can get better performance than the fastest kernel (HYB) in NVIDIA-s SpMV library with as high as 17% speedup.

Keywords: GPU, HYB-R, Many-core, Performance Tuning, SpMV

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Authors: Seyed Habib A. Rahmati

Abstract:

During last decades, developing multi-objective evolutionary algorithms for optimization problems has found considerable attention. Flexible job shop scheduling problem, as an important scheduling optimization problem, has found this attention too. However, most of the multi-objective algorithms that are developed for this problem use nonprofessional approaches. In another words, most of them combine their objectives and then solve multi-objective problem through single objective approaches. Of course, except some scarce researches that uses Pareto-based algorithms. Therefore, in this paper, a new Pareto-based algorithm called controlled elitism non-dominated sorting genetic algorithm (CENSGA) is proposed for the multi-objective FJSP (MOFJSP). Our considered objectives are makespan, critical machine work load, and total work load of machines. The proposed algorithm is also compared with one the best Pareto-based algorithms of the literature on some multi-objective criteria, statistically.

Keywords: Scheduling, Flexible job shop scheduling problem, controlled elitism non-dominated sorting genetic algorithm

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Authors: Priyadarsini P.L.K, Hemalatha T.

Abstract:

In the Top Right Access point Minimum Length Corridor (TRA-MLC) problem [1], a rectangular boundary partitioned into rectilinear polygons is given and the problem is to find a corridor of least total length and it must include the top right corner of the outer rectangular boundary. A corridor is a tree containing a set of line segments lying along the outer rectangular boundary and/or on the boundary of the rectilinear polygons. The corridor must contain at least one point from the boundaries of the outer rectangle and also the rectilinear polygons. Gutierrez and Gonzalez [1] proved that the MLC problem, along with some of its restricted versions and variants, are NP-complete. In this paper, we give a shorter proof of NP-Completeness of TRA-MLC by findig the reduction in the following way.

Keywords: NP-complete, 2-connected planar graph, Grid embedding of a plane graph.

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Authors: Jihyung Kim, Taejin Kim, Sungho Park, Jun-Dong Cho

Abstract:

In this paper, the problem of reducing switching activity in on-chip buses at the stage of high-level synthesis is considered, and a high-level low power bus binding based on dynamic bit reordering is proposed. Whereas conventional methods use a fixed bit ordering between variables within a bus, the proposed method switches a bit ordering dynamically to obtain a switching activity reduction. As a result, the proposed method finds a binding solution with a smaller value of total switching activity (TSA). Experimental result shows that the proposed method obtains a binding solution having 12.0-34.9% smaller TSA compared with the conventional methods.

Keywords: bit reordering, bus binding, low power, switching activity matrix

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Authors: Peyman Sindareh Esfahani, Jeffery Kurt Pieper

Abstract:

In this paper, the problem of robust model predictive control (MPC) for discrete-time linear systems in linear fractional transformation form with structured uncertainty and norm-bounded disturbance is investigated. The problem of minimization of the cost function for MPC design is converted to minimization of the worst case of the cost function. Then, this problem is reduced to minimization of an upper bound of the cost function subject to a terminal inequality satisfying the l₂-norm of the closed loop system. The characteristic of the linear fractional transformation system is taken into account, and by using some mathematical tools, the robust predictive controller design problem is turned into a linear matrix inequality minimization problem. Afterwards, a formulation which includes an integrator to improve the performance of the proposed robust model predictive controller in steady state condition is studied. The validity of the approaches is illustrated through a robust control benchmark problem.

Keywords: Linear fractional transformation, linear matrix inequality, robust model predictive control, state feedback control.

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Authors: Jason Zalev, Reza Sedaghat

Abstract:

This paper describes a complex energy signal model that is isomorphic with digital human fingerprint images. By using signal models, the problem of fingerprint matching is transformed into the signal processing problem of finding a correlation between two complex signals that differ by phase-rotation and time-scaling. A technique for minutiae matching that is independent of image translation, rotation and linear-scaling, and is resistant to missing minutiae is proposed. The method was tested using random data points. The results show that for matching prints the scaling and rotation angles are closely estimated and a stronger match will have a higher correlation.

Keywords: Affine Invariant, Fingerprint Recognition, Matching, Minutiae.

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Authors: Encarnación Álvarez, Rosa M. García-Fernández, Juan F. Muñoz, Francisco J. Blanco-Encomienda

Abstract:

The problem of estimating a proportion has important applications in the field of economics, and in general, in many areas such as social sciences. A common application in economics is the estimation of the headcount index. In this paper, we define the general headcount index as a proportion. Furthermore, we introduce a new quantitative method for estimating the headcount index. In particular, we suggest to use the logistic regression estimator for the problem of estimating the headcount index. Assuming a real data set, results derived from Monte Carlo simulation studies indicate that the logistic regression estimator can be more accurate than the traditional estimator of the headcount index.

Keywords: Poverty line, poor, risk of poverty, sample, Monte Carlo simulations.

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Authors: Daesung Moon, Woo-Yong Choi, Kiyoung Moon

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Fuzzy fingerprint vault is a recently developed cryptographic construct based on the polynomial reconstruction problem to secure critical data with the fingerprint data. However, the previous researches are not applicable to the fingerprint having a few minutiae since they use a fixed degree of the polynomial without considering the number of fingerprint minutiae. To solve this problem, we use an adaptive degree of the polynomial considering the number of minutiae extracted from each user. Also, we apply multiple polynomials to avoid the possible degradation of the security of a simple solution(i.e., using a low-degree polynomial). Based on the experimental results, our method can make the possible attack difficult 2192 times more than using a low-degree polynomial as well as verify the users having a few minutiae.

Keywords: Fuzzy vault, fingerprint recognition multiple polynomials.

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Authors: András Barta, István Vajk

Abstract:

In pattern recognition applications the low level segmentation and the high level object recognition are generally considered as two separate steps. The paper presents a method that bridges the gap between the low and the high level object recognition. It is based on a Bayesian network representation and network propagation algorithm. At the low level it uses hierarchical structure of quadratic spline wavelet image bases. The method is demonstrated for a simple circuit diagram component identification problem.

Keywords: Object recognition, Bayesian network, Wavelets, Document processing.

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Authors: R. Maier, S. Thalmann, A. Sandow

Abstract:

Organizations face challenges supporting knowledge workers due to their particular requirements for an environment supportive of their self-guided learning activities which are important to increase their productivity and to develop creative solutions to non-routine problems. Face-to-face knowledge sharing remains crucial in spite of a large number of knowledge management instruments that aim at supporting a more impersonal transfer of knowledge. This paper first describes the main criteria for a conceptual and technical solution targeted at flexible management of office space that aims at assigning those knowledge workers to the same room that are most likely to thrive when being brought together thus enhancing their knowledge work productivity. The paper reflects on lessons learned from the implementation and operation of such a solution in a project-focused organization and derives several implications for future extensions that target to foster problem solving, informal learning and personal development.

Keywords: informal learning, knowledge work, officemanagement.

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Authors: A. V. Varfolomeeva, N. S. Tkachenko, A. G. Tishchenko

Abstract:

In this study, we addressed the problem of weak validity, implausible results, and inaccurate reporting in psychological research on different species. The theoretical basis of the study was the systems-evolutionary approach (SEA). We assumed that the root of the problem is the values and attitudes of the researchers (in particular anthropomorphism and anthropocentrism). The first aim of the study was the formulation of a research design that avoids this problem. Based on a literature review, we concluded that such design, amongst other things, should include methodics with playful components. The second aim was to conduct a series of studies on the differences in the formation of instrumental skill in rats raised and housed in different environments. As a result, we revealed that there are contradictions between some of the statements of SEA, so that it is not possible to choose one of the alternative hypotheses. We suggested that in order to get out of this problem, it is necessary to modify these provisions by aligning them with the attitude of multicentrism.

Keywords: epistemological attitudes, experimental design, validity, psychological structure, learning

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Authors: Yongxin Yuan, Hao Liu

Abstract:

In this paper, we first give the representation of the general solution of the following least-squares problem (LSP): Given matrices X ∈ Rn×p, B ∈ Rp×p and A0 ∈ Rr×r, find a matrix A ∈ Rn×n such that XT AX − B = min, s. t. A([1, r]) = A0, where A([1, r]) is the r×r leading principal submatrix of the matrix A. We then consider a best approximation problem: given an n × n matrix A˜ with A˜([1, r]) = A0, find Aˆ ∈ SE such that A˜ − Aˆ = minA∈SE A˜ − A, where SE is the solution set of LSP. We show that the best approximation solution Aˆ is unique and derive an explicit formula for it. Keyw

Keywords: Inverse problem, Least-squares solution, model updating, Singular value decomposition (SVD), Optimal approximation.

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Authors: Ahmad Rabanimotlagh

Abstract:

In this paper an ant colony optimization algorithm is developed to solve the permutation flow shop scheduling problem. In the permutation flow shop scheduling problem which has been vastly studied in the literature, there are a set of m machines and a set of n jobs. All the jobs are processed on all the machines and the sequence of jobs being processed is the same on all the machines. Here this problem is optimized considering two criteria, makespan and total flow time. Then the results are compared with the ones obtained by previously developed algorithms. Finally it is visible that our proposed approach performs best among all other algorithms in the literature.

Keywords: Scheduling, Flow shop, Ant colony optimization, Makespan, Flow time

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Authors: A. Ja, J. Belabid, A. Cheddadi

Abstract:

This paper reports the numerical simulation of doublediffusive natural convection flows within a horizontal annular filled with a saturated porous medium. The analysis concerns the influence of the different parameters governing the problem, namely, the Rayleigh number Ra, the Lewis number Le and the buoyancy ratio N, on the heat and mass transfer and on the flow structure, in the case of a fixed radius ratio R = 2. The numerical model used for the discretization of the dimensionless equations governing the problem is based on the finite difference method, using the ADI scheme. The study is focused on steady-state solutions in the cooperation situation.

Keywords: Natural convection, double-diffusion, porous medium, annular geometry, finite differences.

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Authors: Amir Hossein Davami, Ali Gholami, Ebrahim Panahpour

Abstract:

Although, it is a long time that human know about the importance of environment in life, but at the last decade of 20 century, the space that was full of hot scientific, collegial and political were made in environmental challenge, So much that, this problem not only disarrange the peace and security of life, but also it has threatened human existence. One of the problems in last years that are significant for authorities is unsatisfactory achieved results against of using huge cost for magnificent environmental projects. This subject leads thinker to this thought that for solving the environmental problems it is needed new methods include of sociology, ethics and philosophic, etc. methods apart of technical affairs. Environment ethics is a new branch of philosophic ethics discussion that discusses about the ethics relationship between humans and universe that is around them. By notifying to the above considered affairs, in today world, necessity of environmental ethics for environment management is reduplicated. In the following the article has been focused on environmental ethics role and environmental management methods and techniques for developing it.

Keywords: Environmental ethics and philosophy, Environmental challenges, Management techniques, Ethical values.

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Authors: M. De Filippo, J. S. Kuang

Abstract:

In construction industry, reinforced concrete (RC) slabs represent fundamental elements of buildings and bridges. Different methods are available for analysing the structural behaviour of slabs. In the early ages of last century, the yield-line method has been proposed to attempt to solve such problem. Simple geometry problems could easily be solved by using traditional hand analyses which include plasticity theories. Nowadays, advanced finite element (FE) analyses have mainly found their way into applications of many engineering fields due to the wide range of geometries to which they can be applied. In such cases, the application of an elastic or a plastic constitutive model would completely change the approach of the analysis itself. Elastic methods are popular due to their easy applicability to automated computations. However, elastic analyses are limited since they do not consider any aspect of the material behaviour beyond its yield limit, which turns to be an essential aspect of RC structural performance. Furthermore, their applicability to non-linear analysis for modeling plastic behaviour gives very reliable results. Per contra, this type of analysis is computationally quite expensive, i.e. not well suited for solving daily engineering problems. In the past years, many researchers have worked on filling this gap between easy-to-implement elastic methods and computationally complex plastic analyses. This paper aims at proposing a numerical procedure, through which a pseudo-lower bound solution, not violating the yield criterion, is achieved. The advantages of moment distribution are taken into account, hence the increase in strength provided by plastic behaviour is considered. The lower bound solution is improved by detecting over-yielded moments, which are used to artificially rule the moment distribution among the rest of the non-yielded elements. The proposed technique obeys Nielsen’s yield criterion. The outcome of this analysis provides a simple, yet accurate, and non-time-consuming tool of predicting the lower-bound solution of the collapse load of RC slabs. By using this method, structural engineers can find the fracture patterns and ultimate load bearing capacity. The collapse triggering mechanism is found by detecting yield-lines. An application to the simple case of a square clamped slab is shown, and a good match was found with the exact values of collapse load.

Keywords: Computational mechanics, lower bound method, reinforced concrete slabs, yield-line.

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Authors: A.S. Rebaï, M. Elloumi

Abstract:

The Shortest Approximate Common Superstring (SACS) problem is : Given a set of strings f={w1, w2, ... , wn}, where no wi is an approximate substring of wj, i ≠ j, find a shortest string Sa, such that, every string of f is an approximate substring of Sa. When the number of the strings n>2, the SACS problem becomes NP-complete. In this paper, we present a greedy approximation SACS algorithm. Our algorithm is a 1/2-approximation for the SACS problem. It is of complexity O(n2*(l2+log(n))) in computing time, where n is the number of the strings and l is the length of a string. Our SACS algorithm is based on computation of the Length of the Approximate Longest Overlap (LALO).

Keywords: Shortest approximate common superstring, approximation algorithms, strings overlaps, complexities.

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Authors: S. V. Kasmir Raja, P. Herbert Raj

Abstract:

The overlay approach has been widely used by many service providers for Traffic Engineering (TE) in large Internet backbones. In the overlay approach, logical connections are set up between edge nodes to form a full mesh virtual network on top of the physical topology. IP routing is then run over the virtual network. Traffic engineering objectives are achieved through carefully routing logical connections over the physical links. Although the overlay approach has been implemented in many operational networks, it has a number of well-known scaling issues. This paper proposes a new approach to achieve traffic engineering without full-mesh overlaying with the help of integrated approach and equal subset split method. Traffic engineering needs to determine the optimal routing of traffic over the existing network infrastructure by efficiently allocating resource in order to optimize traffic performance on an IP network. Even though constraint-based routing [1] of Multi-Protocol Label Switching (MPLS) is developed to address this need, since it is not widely tested or debugged, Internet Service Providers (ISPs) resort to TE methods under Open Shortest Path First (OSPF), which is the most commonly used intra-domain routing protocol. Determining OSPF link weights for optimal network performance is an NP-hard problem. As it is not possible to solve this problem, we present a subset split method to improve the efficiency and performance by minimizing the maximum link utilization in the network via a small number of link weight modifications. The results of this method are compared against results of MPLS architecture [9] and other heuristic methods.

Keywords: Constraint based routing, Link Utilization, Subsetsplit method and Traffic Engineering.

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Authors: Sheikh Muhammad Azam, Masood-ur-Rehman, Adnan Khalid Bhatti, Nadeem Daudpota

Abstract:

Very Large and/or computationally complex optimization problems sometimes require parallel or highperformance computing for achieving a reasonable time for computation. One of the most popular and most complicate problems of this family is “Traveling Salesman Problem". In this paper we have introduced a Branch & Bound based algorithm for the solution of such complicated problems. The main focus of the algorithm is to solve the “symmetric traveling salesman problem". We reviewed some of already available algorithms and felt that there is need of new algorithm which should give optimal solution or near to the optimal solution. On the basis of the use of logarithmic sampling, it was found that the proposed algorithm produced a relatively optimal solution for the problem and results excellent performance as compared with the traditional algorithms of this series.

Keywords: Parallel execution, symmetric traveling salesman problem, branch and bound algorithm, logarithmic sampling.

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Authors: Zhengsheng Wang, Jing Qi, Chuntao Liu, Yuanjun Li

Abstract:

The harmonic Arnoldi method can be used to find interior eigenpairs of large matrices. However, it has been shown that this method may converge erratically and even may fail to do so. In this paper, we present a new method for computing interior eigenpairs of large nonsymmetric matrices, which is called weighted harmonic Arnoldi method. The implementation of the method has been tested by numerical examples, the results show that the method converges fast and works with high accuracy.

Keywords: Harmonic Arnoldi method, weighted harmonic Arnoldi method, eigenpair, interior eigenproblem, non symmetric matrix.

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Authors: Razib M. Othman, Safaai Deris, Rosli M. Illias

Abstract:

Annotation of a protein sequence is pivotal for the understanding of its function. Accuracy of manual annotation provided by curators is still questionable by having lesser evidence strength and yet a hard task and time consuming. A number of computational methods including tools have been developed to tackle this challenging task. However, they require high-cost hardware, are difficult to be setup by the bioscientists, or depend on time intensive and blind sequence similarity search like Basic Local Alignment Search Tool. This paper introduces a new method of assigning highly correlated Gene Ontology terms of annotated protein sequences to partially annotated or newly discovered protein sequences. This method is fully based on Gene Ontology data and annotations. Two problems had been identified to achieve this method. The first problem relates to splitting the single monolithic Gene Ontology RDF/XML file into a set of smaller files that can be easy to assess and process. Thus, these files can be enriched with protein sequences and Inferred from Electronic Annotation evidence associations. The second problem involves searching for a set of semantically similar Gene Ontology terms to a given query. The details of macro and micro problems involved and their solutions including objective of this study are described. This paper also describes the protein sequence annotation and the Gene Ontology. The methodology of this study and Gene Ontology based protein sequence annotation tool namely extended UTMGO is presented. Furthermore, its basic version which is a Gene Ontology browser that is based on semantic similarity search is also introduced.

Keywords: automatic clustering, bioinformatics tool, gene ontology, protein sequence annotation, semantic similarity search

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