Search results for: Local weighted kernel

Authors: Ibrahim A. El rube, Mohamed T. El Sonni, Soha S. Saleh

Abstract:

the cursive nature of the Arabic writing makes it difficult to accurately segment characters or even deal with the whole word efficiently. Therefore, in this paper, a printed Arabic sub-word recognition system is proposed. The suggested algorithm utilizes geometrical moments as descriptors for the separated sub-words. Three types of moments are investigated and applied to the printed sub-word images after dividing each image into multiple parts using windowing. Since moments are global descriptors, the windowing mechanism allows the moments to be applied to local regions of the sub-word. The local-global mixture of the proposed scheme increases the discrimination power of the moments while keeping the simplicity and ease of use of moments.

Keywords: Arabic sub-word recognition, windowing, aspectratio, moments.

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Authors: Hala S. Mekawy

Abstract:

Affordable housing delivery for low and lower middle income families is a prominent problem in many developing countries; governments alone are unable to address this challenge due to diverse financial and regulatory constraints, and the private sector's contribution is rare and assists only middle-income households even when institutional and legal reforms are conducted to persuade it to go down market. Also, the market-enabling policy measures advocated by the World Bank since the early nineties have been strongly criticized and proven to be inappropriate to developing country contexts, where it is highly unlikely that the formal private sector can reach low income population. In addition to governments and private developers, affordable housing delivery systems involve an intricate network of relationships between a diverse range of actors. Collaboration between them was proven to be vital, and hence, an approach towards partnership schemes for affordable housing delivery has emerged. The basic premise of this paper is that addressing housing affordability challenges in Egypt demands direct public support, as markets and market actors alone would never succeed in delivering decent affordable housing to low and lower middle income groups. It argues that this support would ideally be through local level partnership schemes, with a leading decentralized local government role, and partners being identified according to specific local conditions. It attempts to identify major attributes that would ensure the fulfillment of the goals of such schemes in the Egyptian context. This is based upon evidence from diversified worldwide experiences, in addition to the main outcomes of a questionnaire that was conducted to specialists and chief actors in the field.

Keywords: Affordable housing, partnership schemes.

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Authors: Muhammad T. Alam, Zheng Da Wu

Abstract:

In this research, we propose a weighted class based queuing (WCBQ) mechanism to provide class differentiation and to reduce the load for the IMS (IP Multimedia Subsystem) presence server (PS). The tasks of admission controller for the PS are demonstrated. Analysis and simulation models are developed to quantify the performance of WCBQ scheme. An optimized dropping time frame has been developed based on which some of the preexisting messages are dropped from the PS-buffer. Cost functions are developed and simulation comparison has been performed with FCFS (First Come First Served) scheme. The results show that the PS benefits significantly from the proposed queuing and dropping algorithm (WCBQ) during heavy traffic.

Keywords: Admission control, presence, queuing.

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Authors: Jiashang Jiang, Yongxin Yuan

Abstract:

In this paper we develop an efficient numerical method for the finite-element model updating of damped gyroscopic systems based on incomplete complex modal measured data. It is assumed that the analytical mass and stiffness matrices are correct and only the damping and gyroscopic matrices need to be updated. By solving a constrained optimization problem, the optimal corrected symmetric damping matrix and skew-symmetric gyroscopic matrix complied with the required eigenvalue equation are found under a weighted Frobenius norm sense.

Keywords: Model updating, damped gyroscopic system, partially prescribed spectral information.

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Authors: Amandeep Singh Dhaliwal

Abstract:

Networking solutions, particularly wireless local area networks have revolutionized the technological advancement. Wireless Local Area Networks (WLANs) have gained a lot of popularity as they provide location-independent network access between computing devices. There are a number of access methods used in Wireless Networks among which DCF and PCF are the fundamental access methods. This paper emphasizes on the impact of DCF and PCF access mechanisms on the performance of the IEEE 802.11a, 802.11b and 802.11g standards. On the basis of various parameters viz. throughput, delay, load etc performance is evaluated between these three standards using above mentioned access mechanisms. Analysis revealed a superior throughput performance with low delays for 802.11g standard as compared to 802.11 a/b standard using both DCF and PCF access methods.

Keywords: DCF, IEEE, PCF, WLAN.

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Authors: Salinee Thumronglaohapun

Abstract:

The proper number and appropriate locations of service centers can save cost, raise revenue and gain more satisfaction from customers. Establishing service centers is high-cost and difficult to relocate. In long-term planning periods, several factors may affect the service. One of the most critical factors is uncertain demand of customers. The opened service centers need to be capable of serving customers and making a profit although the demand in each period is changed. In this work, the capacitated location-allocation problem with stochastic demand is considered. A mathematical model is formulated to determine suitable locations of service centers and their allocation to maximize total profit for multiple planning periods. Two heuristic methods, a local search and genetic algorithm, are used to solve this problem. For the local search, five different chances to choose each type of moves are applied. For the genetic algorithm, three different replacement strategies are considered. The results of applying each method to solve numerical examples are compared. Both methods reach to the same best found solution in most examples but the genetic algorithm provides better solutions in some cases.

Keywords: Location-allocation problem, stochastic demand, local search, genetic algorithm.

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Authors: Mourad Moussa, Ali Douik, Hassani Messaoud

Abstract:

In this paper, we present a comparative study between two computer vision systems for objects recognition and tracking, these algorithms describe two different approach based on regions constituted by a set of pixels which parameterized objects in shot sequences. For the image segmentation and objects detection, the FCM technique is used, the overlapping between cluster's distribution is minimized by the use of suitable color space (other that the RGB one). The first technique takes into account a priori probabilities governing the computation of various clusters to track objects. A Parzen kernel method is described and allows identifying the players in each frame, we also show the importance of standard deviation value research of the Gaussian probability density function. Region matching is carried out by an algorithm that operates on the Mahalanobis distance between region descriptors in two subsequent frames and uses singular value decomposition to compute a set of correspondences satisfying both the principle of proximity and the principle of exclusion.

Keywords: Image segmentation, objects tracking, Parzen window, singular value decomposition, target recognition.

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Authors: M. Jändel

Abstract:

A new conceptual architecture for low-level neural pattern recognition is presented. The key ideas are that the brain implements support vector machines and that support vectors are represented as memory patterns in competitive queuing memories. A binary classifier is built from two competitive queuing memories holding positive and negative valence training examples respectively. The support vector machine classification function is calculated in synchronized evaluation cycles. The kernel is computed by bisymmetric feed-forward networks feed by sensory input and by competitive queuing memories traversing the complete sequence of support vectors. Temporary summation generates the output classification. It is speculated that perception apparatus in the brain reuses structures that have evolved for enabling fluent execution of prepared action sequences so that pattern recognition is built on internalized motor programmes.

Keywords: Competitive queuing model, Olfactory system, Pattern recognition, Support vector machine, Thalamus

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Authors: Gheorghe Galben, Daniel N. Aloi

Abstract:

Recently, the Spherical Motion Models (SMM-s) have been introduced [1]. These new models have been developed for 3D local landmark-base Autonomous Navigation (AN). This paper is revealing new arguments and experimental results to support the SMM-s characteristics. The accuracy and the robustness in performing a specific task are the main concerns of the new investigations. To analyze their performances of the SMM-s, the most powerful tools of estimation theory, the extended Kalman filter (EKF) and unscented Kalman filter (UKF), which give the best estimations in noisy environments, have been employed. The Monte Carlo validation implementations used to test the stability and robustness of the models have been employed as well.

Keywords: Autonomous navigation, extended kalman filter, unscented kalman filter, localization algorithms.

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Authors: Ersin Kaya, Bulent Oran, Ahmet Arslan

Abstract:

In this study, fuzzy rule-based classifier is used for the diagnosis of congenital heart disease. Congenital heart diseases are defined as structural or functional heart disease. Medical data sets were obtained from Pediatric Cardiology Department at Selcuk University, from years 2000 to 2003. Firstly, fuzzy rules were generated by using medical data. Then the weights of fuzzy rules were calculated. Two different reasoning methods as “weighted vote method" and “singles winner method" were used in this study. The results of fuzzy classifiers were compared.

Keywords: Congenital heart disease, Fuzzy rule-basedclassifiers, Classification

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Authors: R. Pääkkönen, L. Korpinen, F. Gobba

Abstract:

The objective of our study is to investigate UV exposure in Finland through sample measurements as a typical case study in summer and winter. We measured UV-BC weighted radiation and calculated a daily dose, which is about 100–150 times the Finnish exposure limit value in summer and 1–6 times in winter. The measured ultraviolet indices varied from 0 to 7 (scale 0–18), which is less than the values obtained in countries that are located farther south from Tampere latitude of 61 degrees. In wintertime, the UV exposure was modest compared to summertime, 50–150 mW/m² and about 1–5 mW/m² in summer and winter, respectively. However, technical means to manage UV exposure in Scandinavia are also needed in summer- and springtime.

Keywords: Ultraviolet radiation, measurement, winter, summer.

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Authors: Sorayya Malek, Mogeeb Mosleh, Sharifah M. Syed

Abstract:

In this study, Support Vector Machine (SVM) technique was applied to predict the dichotomized value of Dissolved oxygen (DO) from two freshwater lakes namely Chini and Bera Lake (Malaysia). Data sample contained 11 parameters for water quality features from year 2005 until 2009. All data parameters were used to predicate the dissolved oxygen concentration which was dichotomized into 3 different levels (High, Medium, and Low). The input parameters were ranked, and forward selection method was applied to determine the optimum parameters that yield the lowest errors, and highest accuracy. Initial results showed that pH, Water Temperature, and Conductivity are the most important parameters that significantly affect the predication of DO. Then, SVM model was applied using the Anova kernel with those parameters yielded 74% accuracy rate. We concluded that using SVM models to predicate the DO is feasible, and using dichotomized value of DO yields higher prediction accuracy than using precise DO value.

Keywords: Dissolved oxygen, Water quality, predication DO, Support Vector Machine.

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Authors: K´evin Fernagut, Olivier Flauzac, Erick M. Gallegos R, Florent Nolot

Abstract:

The adoption of modern lightweight virtualization often comes with new threats and network vulnerabilities. This paper seeks to assess this with a different approach studying the behavior of a testbed built with tools such as Kernel-based Virtual Machine (KVM), LinuX Containers (LXC) and Docker, by performing stress tests within a platform where students experiment simultaneously with cyber-attacks, and thus observe the impact on the campus network and also find the best solution for cyber-security learning. Interesting outcomes can be found in the literature comparing these technologies. It is, however, difficult to find results of the effects on the global network where experiments are carried out. Our work shows that other physical hosts and the faculty network were impacted while performing these trials. The problems found are discussed, as well as security solutions and the adoption of new network policies.

Keywords: Containerization, containers, cyber-security, cyber-attacks, isolation, performance, security, virtualization, virtual machines.

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Authors: N.A. Rashidi, S. Yusup, M.M. Ahmad

Abstract:

As the fossil fuels kept on depleting, intense research in developing hydrogen (H2) as the alternative fuel has been done to cater our tremendous demand for fuel. The potential of H2 as the ultimate clean fuel differs with the fossil fuel that releases significant amounts of carbon dioxide (CO2) into the surrounding and leads to the global warming. The experimental work was carried out to study the production of H2 from palm kernel shell steam gasification at different variables such as heating rate, steam to biomass ratio and adsorbent to biomass ratio. Maximum H2 composition which is 61% (volume basis) was obtained at heating rate of 100oCmin-1, steam/biomass of 2:1 ratio, and adsorbent/biomass of 1:1 ratio. The commercial adsorbent had been modified by utilizing the alcoholwater mixture. Characteristics of both adsorbents were investigated and it is concluded that flowability and floodability of modified CaO is significantly improved.

Keywords: Biomass gasification, Calcium oxide, Carbon dioxide capture, Sorbent flowability

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Authors: Frank Emmert Streib, Matthias Dehmer, Jing Liu, Max Mühlhauser

Abstract:

In this paper we present a method for gene ranking from DNA microarray data. More precisely, we calculate the correlation networks, which are unweighted and undirected graphs, from microarray data of cervical cancer whereas each network represents a tissue of a certain tumor stage and each node in the network represents a gene. From these networks we extract one tree for each gene by a local decomposition of the correlation network. The interpretation of a tree is that it represents the n-nearest neighbor genes on the n-th level of a tree, measured by the Dijkstra distance, and, hence, gives the local embedding of a gene within the correlation network. For the obtained trees we measure the pairwise similarity between trees rooted by the same gene from normal to cancerous tissues. This evaluates the modification of the tree topology due to progression of the tumor. Finally, we rank the obtained similarity values from all tissue comparisons and select the top ranked genes. For these genes the local neighborhood in the correlation networks changes most between normal and cancerous tissues. As a result we find that the top ranked genes are candidates suspected to be involved in tumor growth and, hence, indicates that our method captures essential information from the underlying DNA microarray data of cervical cancer.

Keywords: Graph similarity, DNA microarray data, cancer.

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Authors: E. A. Mlybari, M. S. Elbisy, A. H. Alshahri, O. M. Albarakati

Abstract:

Sea level rise threatens to increase the impact of future  storms and hurricanes on coastal communities. Accurate sea level  change prediction and supplement is an important task in determining  constructions and human activities in coastal and oceanic areas. In  this study, support vector machines (SVM) is proposed to predict  daily tidal levels along the Jeddah Coast, Saudi Arabia. The optimal  parameter values of kernel function are determined using a genetic  algorithm. The SVM results are compared with the field data and  with back propagation (BP). Among the models, the SVM is superior  to BPNN and has better generalization performance.

 

Keywords: Tides, Prediction, Support Vector Machines, Genetic Algorithm, Back-Propagation Neural Network, Risk, Hazards.

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Authors: M. H. Sedaghat, A. Zamani, S. Morshedi, R. Janamiri, M. Safdari, I. Mahdavi, A. Hosseini, A. Hatampour

Abstract:

Although lots of experiments have been done in enhanced oil recovery, the number of experiments which consider the effects of local and global heterogeneity on efficiency of enhanced oil recovery based on the polymer-surfactant flooding is low and rarely done. In this research, we have done numerous experiments of water flooding and polymer-surfactant flooding on a five spot glass micromodel in different conditions such as different positions of layers. In these experiments, five different micromodels with three different pore structures are designed. Three models with different layer orientation, one homogenous model and one heterogeneous model are designed. In order to import the effect of heterogeneity of porous media, three types of pore structures are distributed accidentally and with equal ratio throughout heterogeneous micromodel network according to random normal distribution. The results show that maximum EOR recovery factor will happen in a situation where the layers are orthogonal to the path of mainstream and the minimum EOR recovery factor will happen in a situation where the model is heterogeneous. This experiments show that in polymer-surfactant flooding, with increase of angles of layers the EOR recovery factor will increase and this recovery factor is strongly affected by local heterogeneity around the injection zone.

Keywords: Layered Reservoir, Micromodel, Local Heterogeneity, Polymer-Surfactant Flooding, Enhanced Oil Recovery.

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Authors: Panpan Xu, Shulin Sui, Zongjie Du

Abstract:

Genetic algorithm is widely used in optimization problems for its excellent global search capabilities and highly parallel processing capabilities; but, it converges prematurely and has a poor local optimization capability in actual operation. Simulated annealing algorithm can avoid the search process falling into local optimum. A hybrid genetic algorithm based on simulated annealing is designed by combining the advantages of genetic algorithm and simulated annealing algorithm. The numerical experiment represents the hybrid genetic algorithm can be applied to solve the function optimization problems efficiently.

Keywords: Genetic algorithm, Simulated annealing, Hybrid genetic algorithm, Function optimization.

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Authors: M. Nahid, A. Bajit, A. Tamtaoui, E. H. Bouyakhf

Abstract:

To model the human visual system (HVS) in the region of interest, we propose a new objective metric evaluation adapted to wavelet foveation-based image compression quality measurement, which exploits a foveation setup filter implementation technique in the DWT domain, based especially on the point and region of fixation of the human eye. This model is then used to predict the visible divergences between an original and compressed image with respect to this region field and yields an adapted and local measure error by removing all peripheral errors. The technique, which we call foveation wavelet visible difference prediction (FWVDP), is demonstrated on a number of noisy images all of which have the same local peak signal to noise ratio (PSNR), but visibly different errors. We show that the FWVDP reliably predicts the fixation areas of interest where error is masked, due to high image contrast, and the areas where the error is visible, due to low image contrast. The paper also suggests ways in which the FWVDP can be used to determine a visually optimal quantization strategy for foveation-based wavelet coefficients and to produce a quantitative local measure of image quality.

Keywords: Human Visual System, Image Quality, ImageCompression, foveation wavelet, region of interest ROI.

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Authors: Akram A. Mustafa

Abstract:

In this paper an approaches for increasing the effectiveness of error detection in computer network channels with Pulse-Amplitude Modulation (PAM) has been proposed. Proposed approaches are based on consideration of special feature of errors, which are appearances in line with PAM. The first approach consists of CRC modification specifically for line with PAM. The second approach is base of weighted checksums using. The way for checksum components coding has been developed. It has been shown that proposed checksum modification ensure superior digital data control transformation reliability for channels with PAM in compare to CRC.

Keywords: Pulse-Amplitude Modulation, checksum, transmission, discrete.

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Authors: Calin Veghes

Abstract:

The concept of privacy, seen in connection to the consumer's private space and personalization, has recently gained a higher importance as a consequence of the increasing marketing efforts of the organizations based on the capturing, processing and usage of consumer-s personal data.Paper intends to provide a definition of the consumer-s private space based on the types of personal data the consumer is willing to disclose, to assess the attitude toward personalization and to identify the means preferred by consumers to control their personal data and defend their private space. Several implications generated through the definition of the consumer-s private space are identified and weighted from both the consumers- and organizations- perspectives.

Keywords: Consumer private space, personalization, privacy.

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Authors: Garima Gupta, Daya Gupta

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Virtually all existing networked system management tools use a Manager/Agent paradigm. That is, distributed agents are deployed on managed devices to collect local information and report it back to some management unit. Even those that use standard protocols such as SNMP fall into this model. Using standard protocol has the advantage of interoperability among devices from different vendors. However, it may not be able to provide customized information that is of interest to satisfy specific management needs. In this dissertation work, different approaches are used to collect information regarding the devices attached to a Local Area Network. An SNMP aware application is being developed that will manage the discovery procedure and will be used as data collector.

Keywords: ICMP Scanner, Network Discovery, NetworkManagement, SNMP Scanner.

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Authors: Tet H. Yeap

Abstract:

An analog restricted Hopfield Network is presented in this paper. It consists of two layers of nodes, visible and hidden nodes, connected by directional weighted paths forming a bipartite graph with no intralayer connection. An energy or Lyapunov function was derived to show that the proposed network will converge to stable states. By introducing hidden nodes, the proposed network can be trained to store patterns and has increased memory capacity. Training to be an associative memory, simulation results show that the associative memory performs better than a classical Hopfield network by being able to perform better memory recall when the input is noisy.

Keywords: Associative memory, Hopfield network, Lyapunov function, Restricted Hopfield network.

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Authors: Weichang Du

Abstract:

This paper proposes a new of cloud computing for individual computer users to share applications in distributed communities, called community-based personal cloud computing (CPCC). The paper also presents a prototype design and implementation of CPCC. The users of CPCC are able to share their computing applications with other users of the community. Any member of the community is able to execute remote applications shared by other members. The remote applications behave in the same way as their local counterparts, allowing the user to enter input, receive output as well as providing the access to the local data of the user. CPCC provides a peer-to-peer (P2P) environment where each peer provides applications which can be used by the other peers that are connected CPCC.

Keywords: applications, cloud computing, services, software.

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Authors: Eda Gök

Abstract:

Peridynamics is a new modeling concept of non-local interactions for solid structures. The formulations of Peridynamic (PD) theory are based on integral equations rather than differential equations. Through, undefined equations of associated problems are avoided. PD theory might be defined as continuum version of molecular dynamics. The medium is usually modeled with mass particles bonded together. Particles interact with each other directly across finite distances through central forces named as bonds. The main assumption of this theory is that the body is composed of material points which interact with other material points within a finite distance. Although, PD theory developed for discontinuities, it gives good results for structures which have no discontinuities. In this paper, displacement control of the isotropic plate under the effect of tensile and bending loading has been investigated by means of PD theory. A MATLAB code is generated to create PD bonds and corresponding surface correction factors. Using generated MATLAB code the geometry of the specimen is generated, and the code is implemented in Finite Element Software. The results obtained from non-local continuum theory are compared with the Finite Element Analysis results and analytical solution. The results show good agreement.

Keywords: Flexural loading, non-local continuum mechanics, Peridynamic theory, solid structures, tensile loading.

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Authors: Ardhendu Behera, Denis Lalanne, Rolf Ingold

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This paper proposes a method, combining color and layout features, for identifying documents captured from lowresolution handheld devices. On one hand, the document image color density surface is estimated and represented with an equivalent ellipse and on the other hand, the document shallow layout structure is computed and hierarchically represented. The combined color and layout features are arranged in a symbolic file, which is unique for each document and is called the document-s visual signature. Our identification method first uses the color information in the signatures in order to focus the search space on documents having a similar color distribution, and finally selects the document having the most similar layout structure in the remaining search space. Finally, our experiment considers slide documents, which are often captured using handheld devices.

Keywords: Document color modeling, document visual signature, kernel density estimation, document identification.

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Authors: Z. Goosen, E. J. Cilliers

Abstract:

Social sustainability, as an independent perspective of sustainable development, has gained some acknowledgement, becoming an important aspect in sustainable urban planning internationally. However, limited research aiming at promoting social sustainability within urban areas exists within the South African context. This is mainly due to the different perspectives of sustainable development (e.g., Environmental, Economic, and Social) not being equally prioritized by policy makers and supported by implementation strategies, guidelines, and planning frameworks. The enhancement of social sustainability within urban areas relies on urban dweller satisfaction and the quality of urban life. Inclusive cities with high-quality public spaces are proposed within this research through implementing the third place theory. Third places are introduced as any place other than our homes (first place) and work (second place) and have become an integrated part of sustainable urban planning. As Third Places consist of every place 'in between', the approach has taken on a large role of the everyday life of city residents, and the importance of planning for such places can only be measured through identifying and highlighting the social sustainability benefits thereof. The aim of this research paper is to introduce third place planning within the urban area to ultimately enhance social sustainability. Selected background planning approaches influencing the planning of third places will briefly be touched on, as the focus will be placed on the social sustainability benefits provided through third place planning within an urban setting. The study will commence by defining and introducing the concept of third places within urban areas as well as a discussion on social sustainability, acting as one of the three perspectives of sustainable development. This will gain the researcher an improved understanding on social sustainability in order for the study to flow into an integrated discussion of the benefits Third places provide in terms of social sustainability and the impact it has on improved quality of life within urban areas. Finally, a visual case study comparison of local and international examples of third places identified will be illustrated. These international case studies will contribute towards the conclusion of this study where a local gap analysis will be formulated, based on local third place evidence and international best practices in order to formulate a strategic planning framework on improving social sustainability through third place planning within the local South African context.

Keywords: Planning benefits, social sustainability, third places, urban area.

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Authors: Aurelian Octavian Ciucâ, Ioan Bitir-Istrate, Mircea Scripcariu

Abstract:

The rapidly increasing costs of power line extensions and fossil fuel, combined with the desire to reduce carbon dioxide emissions pushed the development of hybrid power system suited for remote locations, the purpose in mind being that of autonomous local power systems. The paper presents the suggested solution for a “high penetration" hybrid power system, it being determined by the location of the settlement and its “zero policy" on carbon dioxide emissions. The paper focuses on the technical solution and the power flow management algorithm of the system, taking into consideration local conditions of development.

Keywords: Renewable energy, hybrid power system, wind turbine, photovoltaic panels, bio-diesel cogeneration, bio-fuel.

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Authors: Endri Rama, Genci Capi, Shigenori Kawahara

Abstract:

The mobile robot ability to navigate autonomously in its environment is very important. Even though the advances in technology, robot self-localization and goal directed navigation in complex environments are still challenging tasks. In this article, we propose a novel method for robot navigation based on rat’s brain signals (Local Field Potentials). It has been well known that rats accurately and rapidly navigate in a complex space by localizing themselves in reference to the surrounding environmental cues. As the first step to incorporate the rat’s navigation strategy into the robot control, we analyzed the rats’ strategies while it navigates in a multiple Y-maze, and recorded Local Field Potentials (LFPs) simultaneously from three brain regions. Next, we processed the LFPs, and the extracted features were used as an input in the artificial neural network to predict the rat’s next location, especially in the decision-making moment, in Y-junctions. We developed an algorithm by which the robot learned to imitate the rat’s decision-making by mapping the rat’s brain signals into its own actions. Finally, the robot learned to integrate the internal states as well as external sensors in order to localize and navigate in the complex environment.

Keywords: Brain machine interface, decision-making, local field potentials, mobile robot, navigation, neural network, rat, signal processing.

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Authors: Layal Al Ait, Eduardo Corel, Kifah Tout, Burkhard Morgenstern

Abstract:

Background: Dialign is a DNA/Protein alignment tool for performing pairwise and multiple pairwise alignments through the comparison of gap-free segments (fragments) between sequence pairs. An alignment of two sequences is a chain of fragments, i.e local gap-free pairwise alignments, with the highest total score. METHOD: A new approach is defined in this article which relies on the concept of using three-dimensional fragments – i.e. local threeway alignments -- in the alignment process instead of twodimensional ones. These three-dimensional fragments are gap-free alignments constituting of equal-length segments belonging to three distinct sequences. RESULTS: The obtained results showed good improvments over the performance of DIALIGN.

Keywords: DIALIGN, Multiple sequence alignment, Threedimensional fragments.

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