Grid-Based Nuclear Physics Applications

Grid-Based Nuclear Physics Applications

Frans Arickx (University of Antwerp, Belgium), Jan Broeckhove (University of Antwerp, Belgium), Peter Hellinckx (University of Antwerp, Belgium), David Dewolfs (University of Antwerp, Belgium) and Kurt Vanmechelen (University of Antwerp, Belgium)
DOI: 10.4018/978-1-60566-184-1.ch019
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Abstract

Quantum structure or scattering calculations often belong to a class of computational problems involving the aggregation of a set of matrices representing a linear problem to be solved. The authors discuss a number of approaches based on cluster and grid computing, and discuss the implementations and the respective merits and shortcomings. The authors consider MPI-based cluster computing in a self-scheduling paradigm, CoBRA (a cpu-harvesting desktop grid) in a farmer-worker paradigm, and a batch-computing paradigm on BEGrid (the Belgian research grid facility). It is observed that for all paradigms an efficient implementation is possible, yielding results within a comparable time frame.
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Background

Before focusing on the actual distribution, more insight into the actual problem and the possible distribution mechanisms is essential. This section discusses the actual nuclear physics problem and gives a brief introduction to each of the used distribution mechanisms (CoBRA, BeGrid and MPI)

Key Terms in this Chapter

Globus: The Globus Alliance is a community of organizations and individuals developing fundamental technologies behind the “Grid,” which lets people share computing power, databases, instruments, and other on-line tools securely across corporate, institutional, and geographic boundaries without sacrificing local autonomy. The Globus Toolkit is an open source software toolkit used for building Grid systems and applications. It is being developed by the Globus Alliance and many others all over the world. A growing number of projects and companies are using the Globus Toolkit to unlock the potential of grids for their cause.

BEgrid: Infrastructural Grid collaboration between several universities and research institutes in Belgium. BEgrid is part of the North European ROC region of the EGEE project.

Beowulf: Beowulf Clusters are scalable performance clusters based on commodity hardware, on a private system network, with open source software (Linux) infrastructure.

MPI: MPI stands for “Message Passing Interface”, and is a standard library specification for Message Oriented Middleware without modifications to compiler or system. It was designed for parallel and high performance computing

EGEE: EGEE stands for “Enabling Grids for E-sciencE”. THe project is funded by the European Commission and aims to build on recent advances in grid technology and develop a service grid infrastructure which is available to scientists 24 hours-a-day. It currently consists of some 41,000 CPU’s and some 5 PetaByte storage space, and typically runs about 100,000 jobs concurrently.

LCG: LCG stands for “Large Hadron Collider Computing Grid”, and its mission is to build and maintain data storage and analysis infrastructure for the entire high energy physics community that will use CERN’s large hadron collider. It contributed significantly to the development of computing grids, particularly in Europe.

MPICH-G2: MPICH-G2 is a grid-enabled implementation of the MPI v1.1 standard. Using services from the Globus Toolkit® (e.g., job startup, security), MPICH-G2 allows to couple multiple machines, potentially of different architectures, to run MPI applications. MPICH-G2 automatically converts data in messages sent between machines of different architectures and supports multiprotocol communication by automatically selecting TCP for intermachine messaging and (where available) vendor-supplied MPI for intramachine messaging

MPICH2: MPICH2 is an implementation of the Message-Passing Interface (MPI). The goals of MPICH2 are to provide an MPI implementation for important platforms, including clusters, SMPs, and massively parallel processors.

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Editorial Advisory Board
Table of Contents
Foreword
Ruth E. Shaw
Preface
Emmanuel Udoh, Frank Zhigang Wang
Acknowledgment
Emmanuel Udoh
Chapter 1
Emmanuel Udoh, Frank Zhigang Wang, Vineet R. Khare
This chapter presents a historical record of the advent of Grid with a recourse to some basic definitions commonly accepted by most researchers. It... Sample PDF
Overview of Grid Computing
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Chapter 2
Eric Aubanel
The problem of load balancing parallel applications is particularly challenging on computational grids, since the characteristics of both the... Sample PDF
Resource-Aware Load Balancing of Parallel Applications
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Chapter 3
Enis Afgan, Purushotham Bangalore
Grid computing has emerged as the next generation computing platform. Because of the resource heterogeneity that exists in the grid environment... Sample PDF
Assisting Efficient Job Planning and Scheduling in the Grid
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Chapter 4
Kuo-Chan Huang, Po-Chi Shih, Yeh-Ching Chung
Most current grid environments are established through collaboration among a group of participating sites which volunteer to provide free computing... Sample PDF
Effective Resource Allocation and Job Scheduling Mechanisms for Load Sharing in a Computational Grid
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Chapter 5
Tevfik Kosar
As the data requirements of scientific distributed applications increase, the access to remote data becomes the main performance bottleneck for... Sample PDF
Data-Aware Distributed Batch Scheduling
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Chapter 6
Gianni Pucciani, Flavia Donno, Andrea Domenici, Heinz Stockinger
Data replication is a well-known technique used in distributed systems in order to improve fault tolerance and make data access faster. Several... Sample PDF
Consistency of Replicated Datasets in Grid Computing
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Chapter 7
Ming Wu, Xian-He Sun
Rapid advancement of communication technology has changed the landscape of computing. New models of computing, such as business-on-demand, Web... Sample PDF
Quality of Service of Grid Computing
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Chapter 8
QoS in Grid Computing  (pages 75-83)
Zhihui Du, Zhili Cheng, Xiaoying Wang, Chuang Lin
This chapter first summarizes popular terms of QoS related concepts and technologies in grid computing, including SLA, End-to-End QoS Provision and... Sample PDF
QoS in Grid Computing
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Chapter 9
Kris Bubendorfer, Ben Palmer, Ian Welch
A Grid resource broker is the arbiter for access to a Grid’s computational resources and therefore its performance and functionality has a... Sample PDF
Trust and Privacy in Grid Resource Auctions
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Chapter 10
Sandro Fiore, Alessandro Negro, Salvatore Vadacca, Massimo Cafaro, Giovanni Aloisio, Roberto Barbera
Grid computing is an emerging and enabling technology allowing organizations to easily share, integrate and manage resources in a distributed... Sample PDF
An Architectural Overview of the GRelC Data Access Service
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Chapter 11
Man Wang, Zhihui Du, Zhili Cheng
Resource Management System (RMS), which manages the Grid resources and matches the applications’ requests to the proper resources, is one of the... Sample PDF
Adaptive Resource Management in Grid Environment
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Chapter 12
Vineet R. Khare, Frank Zhigang Wang
The need for a dynamic and scalable expansion of the grid infrastructure and resources and other scalability issues in terms of execution efficiency... Sample PDF
Bio-Inspired Grid Resource Management
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Chapter 13
Yuhui Deng, Frank Zhigang Wang, Na Helian
Storage Grid is a new model for deploying and managing the heterogeneous, dynamic, large-scale, and geographically distributed storage resources.... Sample PDF
Service Oriented Storage System Grid
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Chapter 14
Dominic Cherry, Maozhen Li, Man Qi
This chapter presents MediaGrid, a distributed storage system for archiving broadcast media contents. MediaGrid utilizes storage resources donated... Sample PDF
A Distributed Storage System for Archiving Broadcast Media Content
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Chapter 15
Maozhen Li, Man Qi, Bin Yu
The computational grid is rapidly evolving into a service-oriented computing infrastructure that facilitates resource sharing and large-scale... Sample PDF
Service Discovery with Rough Sets
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Chapter 16
Irfan Habib, Ashiq Anjum, Richard McClatchey
Due to some barriers to adoption we have not seen a proliferation of Grid Computing technologies throughout e-Science or other domains. This chapter... Sample PDF
On the Pervasive Adoption of Grid Technologies: A Grid Operating System
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Chapter 17
Kurt Vanmechelen, Jan Broeckhove, Wim Depoorter, Khalid Abdelkader
As grid computing technology moves further up the adoption curve, the issues of dealing with conflicting user requirements formulated by different... Sample PDF
Pricing Computational Resources in Grid Economies
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Chapter 18
Rosario M. Piro
Large, geographically distributed and heterogeneous computing infrastructures, such as the Grid, often span multiple organizations and... Sample PDF
Resource Usage Accounting in Grid Computing
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Chapter 19
Frans Arickx, Jan Broeckhove, Peter Hellinckx, David Dewolfs, Kurt Vanmechelen
Quantum structure or scattering calculations often belong to a class of computational problems involving the aggregation of a set of matrices... Sample PDF
Grid-Based Nuclear Physics Applications
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Chapter 20
Gabriel Aparicio, Fernando Blanco, Ignacio Blanquer, César Bonavides, Juan Luis Chaves, Miguel Embid, Álvaro Hernández
In the last years an increasing demand for Grid Infrastructures has resulted in several international collaborations. This is the case of the EELA... Sample PDF
Developing Biomedical Applications in the Framework of EELA
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Chapter 21
Gerald Schaefer, Roger Tait
Efficient approaches to computationally intensive image processing tasks are currently highly sought after. In this chapter, the authors show how a... Sample PDF
Distributed Image Processing on a Blackboard System
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Chapter 22
Daniele Andreotti, Armando Fella, Eleonora Luppi
The BaBar experiment uses data since 1999 in examining the violation of charge and parity (CP) symmetry in the field of high energy physics. This... Sample PDF
Simulated Events Production on the Grid for the BaBar Experiment
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Chapter 23
Diego Liberati
A framework is proposed that creates, uses, and communicates information, whose organizational dynamics allows performing a distributed cooperative... Sample PDF
A Framework for Semantic Grid in E-Science
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Chapter 24
Roberto Barbera, Valeria Ardizzone, Leandro Ciuffo
The Grid INFN virtual Laboratory for Dissemination Activities (GILDA) is a fully working Grid test-bed devoted to training and dissemination... Sample PDF
Grid INFN Virtual Laboratory for Dissemination Activities (GILDA)
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Chapter 25
Dirk Gorissen, Tom Dhaene, Piet Demeester, Jan Broeckhove
The simulation and optimization of complex systems is a very time consuming and computationally intensive task. Therefore, global surrogate modeling... Sample PDF
Grid Enabled Surrogate Modeling
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Chapter 26
Patrik Skogster
Grid computing is becoming as essential part of different business analysis. In traditional business computing infrastructures data transfer occurs... Sample PDF
GIS Grids and the Business Use of GIS Data
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Chapter 27
Gokop Goteng, Ashutosh Tiwari, Rajkumar Roy
The emerging grid technology provides a secured platform for multidisciplinary experts in the security intelligence profession to collaborate and... Sample PDF
Grid Computing: Combating Global Terrorism with the World Wide Grid
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Chapter 28
Salvatore Scifo
This chapter focuses on the efforts to design and develop a standard pure Java API to access the metadata service of the EGEE Grid middleware, and... Sample PDF
Accessing Grid Metadata through a Web Interface
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Chapter 29
Jyotsna Sharma
Efforts in Grid Computing, both in academia and industry, continue to grow rapidly worldwide for research, scientific and commercial purposes.... Sample PDF
Grid Computing Initiatives in India
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Chapter 30
Hai Jin, Li Qi, Jie Dai, Yaqin Luo
A grid system is usually composed of thousands of nodes which are broadly distributed in different virtual organizations. Owing to geographical... Sample PDF
Dynamic Maintenance in ChinaGrid Support Platform
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About the Contributors