Using the PGAS Programming Paradigm for Biological Sequence Alignment on a Chip Multi-Threading Architecture

The Partitioned Global Address Space (PGAS) programming paradigm offers ease-of-use in expressing parallelism through a global shared address space while emphasizing performance by providing locality awareness through the partitioning of this address space. Therefore, the interest in PGAS programming languages is growing and many new languages have emerged and are becoming ubiquitously available on nearly all modern parallel architectures. Recently, new parallel machines with multiple cores are designed for targeting high performance applications. Most of the efforts have gone into benchmarking but there are a few examples of real high performance applications running on multicore machines. In this paper, we present and evaluate a parallelization technique for implementing a local DNA sequence alignment algorithm using a PGAS based language, UPC (Unified Parallel C) on a chip multithreading architecture, the UltraSPARC T1.

The Role of Cognitive Decision Effort in Electronic Commerce Recommendation System

The purpose of this paper is to explore the role of cognitive decision effort in recommendation system, combined with indicators "information quality" and "service quality" from IS success model to exam the awareness of the user for the "recommended system performance". A total of 411 internet user answered a questionnaire assessing their attention of use and satisfaction of recommendation system in internet book store. Quantitative result indicates following research results. First, information quality of recommended system has obvious influence in consumer shopping decision-making process, and the attitude to use the system. Second, in the process of consumer's shopping decision-making, the recommendation system has no significant influence for consumers to pay lower cognitive decision-making effort. Third, e-commerce platform provides recommendations and information is necessary, but the quality of information on user needs must be considered, or they will be other competitors offer homogeneous services replaced.

Architecture, Implementation and Application of Tools for Experimental Analysis

This paper presents an architecture to assist in the development of tools to perform experimental analysis. Existing implementations of tools based on this architecture are also described in this paper. These tools are applied to the real world problem of fault attack emulation and detection in cryptographic algorithms.

A Generic e-Tutor for Graphical Problems

For a variety of safety and economic reasons, engineering undergraduates in Australia have experienced diminishing access to the real hardware that is typically the embodiment of their theoretical studies. This trend will delay the development of practical competence, decrease the ability to model and design, and suppress motivation. The author has attempted to address this concern by creating a software tool that contains both photographic images of real machinery, and sets of graphical modeling 'tools'. Academics from a range of disciplines can use the software to set tutorial tasks, and incorporate feedback comments for a range of student responses. An evaluation of the software demonstrated that students who had solved modeling problems with the aid of the electronic tutor performed significantly better in formal examinations with similar problems. The 2-D graphical diagnostic routines in the Tutor have the potential to be used in a wider range of problem-solving tasks.

Investigation of Pre-Treatment Parameters of Rye and Triticale for Bioethanol Production

This paper presents the new results of energy plant – rye and triticale at yellow ripeness and ripe, pre-treatment in high pressure steam reactor and monosaccharide extraction. There were investigated the influence of steam pressure (20 to 22 bar), retention duration (180 to 240 s) and catalytic sulphuric acid concentration strength (0 to 0.5 %) on the pre-treatment process, contents of monosaccharides (glucose, arabinose, xylose, mannose) and undesirable by-compounds (furfural and HMF) in the reactor. The study has determined that the largest amount of monosaccharides (37.2 % of glucose, 2.7 % of arabinose, 8.4 % of xylose, and 1.3 % of mannose) was received in the rye at ripe, the samples of which were mixed with 0.5 % concentration of catalytic sulphuric acid, and hydrolysed in the reactor, where the pressure was 20 bar, whereas the reaction time – 240 s.

Requirements Driven Multiple View Paradigm for Developing Security Architecture

This paper describes a paradigmatic approach to develop architecture of secure systems by describing the requirements from four different points of view: that of the owner, the administrator, the user, and the network. Deriving requirements and developing architecture implies the joint elicitation and describing the problem and the structure of the solution. The view points proposed in this paper are those we consider as requirements towards their contributions as major parties in the design, implementation, usage and maintenance of secure systems. The dramatic growth of the technology of Internet and the applications deployed in World Wide Web have lead to the situation where the security has become a very important concern in the development of secure systems. Many security approaches are currently being used in organizations. In spite of the widespread use of many different security solutions, the security remains a problem. It is argued that the approach that is described in this paper for the development of secure architecture is practical by all means. The models representing these multiple points of view are termed the requirements model (views of owner and administrator) and the operations model (views of user and network). In this paper, this multiple view paradigm is explained by first describing the specific requirements and or characteristics of secure systems (particularly in the domain of networks) and the secure architecture / system development methodology.

A Servo Control System Using the Loop Shaping Design Procedure

This paper describes an expanded system for a servo system design by using the Loop Shaping Design Procedure (LSDP). LSDP is one of the H∞ design procedure. By conducting Loop Shaping with a compensator and robust stabilization to satisfy the index function, we get the feedback controller that makes the control system stable. In this paper, we propose an expanded system for a servo system design and apply to the DC motor. The proposed method performs well in the DC motor positioning control. It has no steady-state error in the disturbance response and it has robust stability.

Development of a Brain Glutamate Microbiosensor

This work attempts to improve the permselectivity of poly-ortho-phenylenediamine (PPD) coating for glutamate biosensor applications on Pt microelectrode, using constant potential amperometry and cyclic voltammetry. Percentage permeability of the modified PPD microelectrode was carried out towards hydrogen peroxide (H2O2) and ascorbic acid (AA) whereas permselectivity represents the percentage interference by AA in H2O2 detection. The 50-μm diameter Pt disk microelectrode showed a good permeability value toward H2O2 (95%) and selectivity against AA (0.01%) compared to other sizes of electrode studied here. The electrode was further modified with glutamate oxidase (GluOx) that was immobilized and cross linked with glutaraldehyde (GA, 0.125%), resulting in Pt/PPD/GluOx-GA electrode design. The maximum current density Jmax and apparent Michaelis constant, KM, obtained on Pt/PPD/GluOx-GA electrodes were 48 μA cm-2 and 50 μM, respectively. The linear region slope (LRS) was 0.96 μA cm-2 mM-1. The detection limit (LOD) for glutamate was 3.0 ± 0.6 μM. This study shows a promising glutamate microbiosensor for brain glutamate detection. 

A Compact Pi Network for Reducing Bit Error Rate in Dispersive FIR Channel Noise Model

During signal transmission, the combined effect of the transmitter filter, the transmission medium, and additive white Gaussian noise (AWGN) are included in the channel which distort and add noise to the signal. This causes the well defined signal constellation to spread causing errors in bit detection. A compact pi neural network with minimum number of nodes is proposed. The replacement of summation at each node by multiplication results in more powerful mapping. The resultant pi network is tested on six different channels.

Depth Controls of an Autonomous Underwater Vehicle by Neurocontrollers for Enhanced Situational Awareness

This paper focuses on a critical component of the situational awareness (SA), the neural control of autonomous constant depth flight of an autonomous underwater vehicle (AUV). Autonomous constant depth flight is a challenging but important task for AUVs to achieve high level of autonomy under adverse conditions. The fundamental requirement for constant depth flight is the knowledge of the depth, and a properly designed controller to govern the process. The AUV, named VORAM, is used as a model for the verification of the proposed hybrid control algorithm. Three neural network controllers, named NARMA-L2 controllers, are designed for fast and stable diving maneuvers of chosen AUV model. This hybrid control strategy for chosen AUV model has been verified by simulation of diving maneuvers using software package Simulink and demonstrated good performance for fast SA in real-time searchand- rescue operations.

Balancing of Quad Tree using Point Pattern Analysis

Point quad tree is considered as one of the most common data organizations to deal with spatial data & can be used to increase the efficiency for searching the point features. As the efficiency of the searching technique depends on the height of the tree, arbitrary insertion of the point features may make the tree unbalanced and lead to higher time of searching. This paper attempts to design an algorithm to make a nearly balanced quad tree. Point pattern analysis technique has been applied for this purpose which shows a significant enhancement of the performance and the results are also included in the paper for the sake of completeness.

A Weighted Least Square Algorithm for Low-Delay FIR Filters with Piecewise Variable Stopbands

Variable digital filters are useful for various signal processing and communication applications where the frequency characteristics, such as fractional delays and cutoff frequencies, can be varied. In this paper, we propose a design method of variable FIR digital filters with an approximate linear phase characteristic in the passband. The proposed variable FIR filters have some large attenuation in stopband and their large attenuation can be varied by spectrum parameters. In the proposed design method, a quasi-equiripple characteristic can be obtained by using an iterative weighted least square method. The usefulness of the proposed design method is verified through some examples.

Object-Oriented Simulation of Simulating Anticipatory Systems

The present paper is oriented to problems of simulation of anticipatory systems, namely those that use simulation models for the aid of anticipation. A certain analogy between use of simulation and imagining will be applied to make the explication more comprehensible. The paper will be completed by notes of problems and by some existing applications. The problems consist in the fact that simulation of the mentioned anticipatory systems end is simulation of simulating systems, i.e. in computer models handling two or more modeled time axes that should be mapped to real time flow in a nondescent manner. Languages oriented to objects, processes and blocks can be used to surmount the problems.

Domain-based Key Management Scheme for Active Network

Active network was developed to solve the problem of the current sharing-based network–difficulty in applying new technology, service or standard, and duplicated operation at several protocol layers. Active network can transport the packet loaded with the executable codes, which enables to change the state of the network node. However, if the network node is placed in the sharing-based network, security and safety issues should be resolved. To satisfy this requirement, various security aspects are required such as authentication, authorization, confidentiality and integrity. Among these security components, the core factor is the encryption key. As a result, this study is designed to propose the scheme that manages the encryption key, which is used to provide security of the comprehensive active directory, based on the domain.

Motivated Support Vector Regression with Structural Prior Knowledge

It-s known that incorporating prior knowledge into support vector regression (SVR) can help to improve the approximation performance. Most of researches are concerned with the incorporation of knowledge in form of numerical relationships. Little work, however, has been done to incorporate the prior knowledge on the structural relationships among the variables (referred as to Structural Prior Knowledge, SPK). This paper explores the incorporation of SPK in SVR by constructing appropriate admissible support vector kernel (SV kernel) based on the properties of reproducing kernel (R.K). Three-levels specifications of SPK are studies with the corresponding sub-levels of prior knowledge that can be considered for the method. These include Hierarchical SPK (HSPK), Interactional SPK (ISPK) consisting of independence, global and local interaction, Functional SPK (FSPK) composed of exterior-FSPK and interior-FSPK. A convenient tool for describing the SPK, namely Description Matrix of SPK is introduced. Subsequently, a new SVR, namely Motivated Support Vector Regression (MSVR) whose structure is motivated in part by SPK, is proposed. Synthetic examples show that it is possible to incorporate a wide variety of SPK and helpful to improve the approximation performance in complex cases. The benefits of MSVR are finally shown on a real-life military application, Air-toground battle simulation, which shows great potential for MSVR to the complex military applications.

The Experimental and Numerical Analysis of a Lightpipe using a Simulation Software

A lightpipe is an about 99 percent specular reflective mirror pipe or duct that is used for the transmission of the daylight from the outside into a building. The lightpipes are usually used in the daylighting buildings, in the residential, industrial and commercial sectors. This paper is about the performances of a lightpipe installed in a laboratory (3 m x 2.6 m x 3 m) without windows. The aim is to analyse the luminous intensity distribution for several sky/sun conditions. The lightpipe was monitored during the year 2006. The lightpipe is 1 m long and the diameter of the top collector and of the internal diffuser device is 0.25 m. In the laboratory there are seven illuminance sensors: one external is located on the roof of the laboratory and six internal sensors are connected to a data acquisition system. The internal sensors are positioned under the internal diffusive device at an height of 0.85 m from the floor to simulate a working plane. The numerical data are obtained through a simulation software. This paper shows the comparison between the experimental and numerical results concerning the behavior of the lightpipe.

Using Data Mining for Learning and Clustering FCM

Fuzzy Cognitive Maps (FCMs) have successfully been applied in numerous domains to show relations between essential components. In some FCM, there are more nodes, which related to each other and more nodes means more complex in system behaviors and analysis. In this paper, a novel learning method used to construct FCMs based on historical data and by using data mining and DEMATEL method, a new method defined to reduce nodes number. This method cluster nodes in FCM based on their cause and effect behaviors.

Personalisation of SOA Registry Query Results: Implementation, Performance Analysis and Scalability Evaluation

Service discovery is a very important component of Service Oriented Architectures (SOA). This paper presents two alternative approaches to customise the query results of private service registry such as Universal Description, Discovery and Integration (UDDI). The customisation is performed based on some pre-defined and/or real-time changing parameters. This work identifies the requirements, designs and additional mechanisms that must be applied to UDDI in order to support this customisation capability. We also detail the implements of the approaches and examine its performance and scalability. Based on our experimental results, we conclude that both approaches can be used to customise registry query results, but by storing personalization parameters in external resource will yield better performance and but less scalable when size of query results increases. We believe these approaches when combined with semantics enabled service registry will enhance the service discovery methods within a private UDDI registry environment.

Performance Analysis of MC-SS for the Indoor BPLC Systems

power-line networks are promise infrastructure for broadband services provision to end users. However, the network performance is affected by stochastic channel changing which is due to load impedances, number of branches and branched line lengths. It has been proposed that multi-carrier modulations techniques such as orthogonal frequency division multiplexing (OFDM), Multi-Carrier Spread Spectrum (MC-SS), wavelet OFDM can be used in such environment. This paper investigates the performance of different indoor topologies of power-line networks that uses MC-SS modulation scheme.It is observed that when a branch is added in the link between sending and receiving end of an indoor channel an average of 2.5dB power loss is found. In additional, when the branch is added at a node an average of 1dB power loss is found. Additionally when the terminal impedances of the branch change from line characteristic impedance to impedance either higher or lower values the channel performances were tremendously improved. For example changing terminal load from characteristic impedance (85 .) to 5 . the signal to noise ratio (SNR) required to attain the same performances were decreased from 37dB to 24dB respectively. Also, changing the terminal load from channel characteristic impedance (85 .) to very higher impedance (1600 .) the SNR required to maintain the same performances were decreased from 37dB to 23dB. The result concludes that MC-SS performs better compared with OFDM techniques in all aspects and especially when the channel is terminated in either higher or lower impedances.