Computer Science
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ISSN 1508-2806
e-ISSN: 2300-7036
Issue Date
2012
Volume
Vol. 13
Number
No. 2
Description
Reviewed by: Katarzyna Rycerz, Bartosz Baliś, Anna Zygmunt, Bartłomiej Śnieżyński, Marek Kisiel-Dorochinicki, Michael Schiffers, Marcin Kurdziel, Tomasz Arodź, Joanna Kołodziej, Michael Brock, Jacek Dajda, Jakub Mościcki, Krzysztof Korcyl, Piotr Bala, Michał Turała, Viet Tran, Tomasz Szepieniec, Jean-François Glicenstein, Przemysław Majewski, Benedita Malheiro
Journal Volume
Computer Science
Vol. 13 (2012)
Projects
Pages
Articles
The extension of TORQUE scheduler allowing the use of planning and optimization in grids
(Wydawnictwa AGH, 2012) Chlumský, Václav; Klusáček, Dalibor; Ruda, Mirosław
In this work we present a major extension of the open source TORQUE Resource Manager system. We have replaced a naive scheduler provided in the TORQUE distribution with complex scheduling system that allows to plan job execution ahead and predict the behavior of the system. It is based on the application of job schedule, which represents the job's execution plan. Such a functionality is very useful as the plan can be used by the users to see when and where their jobs will be executed. Moreover, created plans can be easily evaluated in order to identify possible inefficiencies. Then, repair actions can be taken immediately and the inefficiencies can be fixed, producing better schedules with respect to considered criteria.
Information extraction from chemical patents
(Wydawnictwa AGH, 2012) Romberg, Mathilde; Klenner, Alexander; Zimmermann, Marc; Bergmann, Sandra
The development of new chemicals or pharmaceuticals is preceded by an indepth analysis of published patents in this field. This information retrieval is a costly and time inefficient step when done by a human reader, yet it is mandatory for potential success of an investment. The goal of the research project UIMA-HPC is to automate and hence speed-up the process of knowledge mining about patents. Multi-threaded analysis engines, developed according to UIMA (Unstructured Information Management Architecture) standards, process texts and images in thousands of documents in parallel. UNICORE (UNiform Interface to COmputing Resources) workflow control structures make it possible to dynamically allocate resources for every given task to gain best cpu-time/realtime ratios in an HPC environment.
Practical experiences with Torque meta-scheduling in the Czech National Grid
(Wydawnictwa AGH, 2012) Tóth, Šimon; Ruda, Mirosław
The Czech National Grid Infrastructure went through a complex transition in the last year. The production environment has been switched from a commercial batch system PBSPro, which was replaced by an open source alternative Torque batch system. This paper concentrates on two aspects of this transition. First, we will present our practical experience with Torque being used as a production ready batch system. Our modified version of Torque, with all the necessary PBSPro exclusive features re-implemented and further extended with new features like cloud-like behaviour, was deployed across the entire production environment, covering the entire Czech Republic for almost a full year. In the second part, we will present our work on meta-scheduling. This involves our work on distributed architecture and cloud-grid convergence. The distributed architecture was designed to overcome the limitations of a central server setup, which was originally used and presented stability and performance issues. While this paper does not discuss the inclusion of cloud interfaces into grids, it does present the dynamic infrastructure, which is a requirement for sharing the grid infrastructure between a batch system and a cloud gateway. We are also inviting everyone to try out our fork of the Torque batch system, which is now publicly available.
Computational approach to understanding Autism Spectrum Disorders
(Wydawnictwa AGH, 2012) Duch, Włodzisław; Nowak, Wiesław; Meller, Jarosław; Osiński, Grzegorz; Dobosz, Krzysztof; Mikołajewski, Dariusz; Wójcik, Grzegorz Marcin
Every year the prevalence of Autism Spectrum of Disorders (ASD) is rising. Is there a unifying mechanism of various ASD cases at the genetic, molecular, cellular or systems level? The hypothesis advanced in this paper is focused on neural dysfunctions that lead to problems with attention in autistic people. Simulations of attractor neural networks performing cognitive functions help to assess system long-term neurodynamics. The Fuzzy Symbolic Dynamics (FSD) technique is used for the visualization of attractors in the semantic layer of the neural model of reading. Large-scale simulations of brain structures characterized by a high order of complexity requires enormous computational power, especially if biologically motivated neuron models are used to investigate the influence of cellular structure dysfunctions on the network dynamics. Such simulations have to be implemented on computer clusters in a grid-based architectures.
Heterogeneous GPU&CPU cluster for High Performance Computing in cryptography
(Wydawnictwa AGH, 2012) Marks, Michał; Jantura, Jarosław; Niewiadomska-Szynkiewicz, Ewa; Strzelczyk, Przemysław; Góźdź, Krzysztof
This paper addresses issues associated with distributed computing systems and the application of mixed GPU&CPU technology to data encryption and decryption algorithms. We describe a heterogenous cluster HGCC formed by two types of nodes: Intel processor with NVIDIA graphics processing unit and AMD processor with AMD graphics processing unit (formerly ATI), and a novel software framework that hides the heterogeneity of our cluster and provides tools for solving complex scientific and engineering problems. Finally, we present the results of numerical experiments. The considered case study is concerned with parallel implementations of selected cryptanalysis algorithms. The main goal of the paper is to show the wide applicability of the GPU&CPU technology to large scale computation and data processing.