Ebook: High Performance Computing for Computational Science - VECPAR 2006: 7th International Conference, Rio de Janeiro, Brazil, June 10-13, 2006, Revised Selected and Invited Papers

This book constitutes the thoroughly refereed post-proceedings of the 7th International Conference on High Performance Computing for Computational Science, VECPAR 2006, held in Rio de Janeiro, Brazil, in June 2006.

The 44 revised full papers presented together with one invited paper and 12 revised workshop papers were carefully selected during two rounds of reviewing and improvement for inclusion in the book. The papers are organized in topical sections on Grid computing, cluster computing, numerical methods, large-scale simulations in Physics, and computing in Biosciences. In addition, the book includes some of the presentations of the two associated workshops on Computational Grids and Clusters, and on High Performance Data Management in Grid Environments.

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This book constitutes the thoroughly refereed post-proceedings of the 7th International Conference on High Performance Computing for Computational Science, VECPAR 2006, held in Rio de Janeiro, Brazil, in June 2006.

The 44 revised full papers presented together with one invited paper and 12 revised workshop papers were carefully selected during two rounds of reviewing and improvement for inclusion in the book. The papers are organized in topical sections on Grid computing, cluster computing, numerical methods, large-scale simulations in Physics, and computing in Biosciences. In addition, the book includes some of the presentations of the two associated workshops on Computational Grids and Clusters, and on High Performance Data Management in Grid Environments.

Content:
Front Matter....Pages -
An Opportunistic Algorithm for Scheduling Workflows on Grids....Pages 1-12
A Service Oriented System for on Demand Dynamic Structural Analysis over Computational Grids....Pages 13-26
Scalable Desktop Grid System ....Pages 27-38
Analyzing Overheads and Scalability Characteristics of OpenMP Applications....Pages 39-51
Parallel Fuzzy c-Means Cluster Analysis....Pages 52-65
Peer-to-Peer Models for Resource Discovery in Large-Scale Grids: A Scalable Architecture....Pages 66-78
JaceV: A Programming and Execution Environment for Asynchronous Iterative Computations on Volatile Nodes....Pages 79-92
Aspect Oriented Pluggable Support for Parallel Computing....Pages 93-106
Model for Simulation of Heterogeneous High-Performance Computing Environments....Pages 107-119
On Evaluating Decentralized Parallel I/O Scheduling Strategies for Parallel File Systems....Pages 120-130
Distributed Security Constrained Optimal Power Flow Integrated to a DSM Based Energy Management System for Real Time Power Systems Security Control....Pages 131-144
Metaserver Locality and Scalability in a Distributed NFS....Pages 145-157
Top-k Query Processing in the APPA P2P System....Pages 158-171
Posterior Task Scheduling Algorithms for Heterogeneous Computing Systems....Pages 172-183
Design and Implementation of an Environment for Component-Based Parallel Programming....Pages 184-197
Anahy: A Programming Environment for Cluster Computing....Pages 198-211
DWMiner: A Tool for Mining Frequent Item Sets Efficiently in Data Warehouses....Pages 212-224
A Parallel Implementation of the K Nearest Neighbours Classifier in Three Levels: Threads, MPI Processes and the Grid....Pages 225-235
On the Use of the MMC Language to Utilize SIMD Instruction Set....Pages 236-248
A Versatile Pipelined Hardware Implementation for Encryption and Decryption Using Advanced Encryption Standard....Pages 249-259
Combinatorial Scientific Computing: The Enabling Power of Discrete Algorithms in Computational Science....Pages 260-280
Improving the Numerical Simulation of an Airflow Problem with the BlockCGSI Algorithm....Pages 281-291
EdgePack: A Parallel Vertex and Node Reordering Package for Optimizing Edge-Based Computations in Unstructured Grids....Pages 292-304
Parallel Processing of Matrix Multiplication in a CPU and GPU Heterogeneous Environment....Pages 305-318
Robust Two-Level Lower-Order Preconditioners for a Higher-Order Stokes Discretization with Highly Discontinuous Viscosities....Pages 319-333
The Impact of Parallel Programming Models on the Performance of Iterative Linear Solvers for Finite Element Applications....Pages 334-348
Efficient Parallel Algorithm for Constructing a Unit Triangular Matrix with Prescribed Singular Values....Pages 349-362
A Rewriting System for the Vectorization of Signal Transforms....Pages 363-377
High Order Fourier-Spectral Solutions to Self Adjoint Elliptic Equations....Pages 378-390
Multiresolution Simulations Using Particles....Pages 391-402
Evaluation of Several Variants of Explicitly Restarted Lanczos Eigensolvers and Their Parallel Implementations ....Pages 403-416
PyACTS: A High-Level Framework for Fast Development of High Performance Applications....Pages 417-425
Sequential and Parallel Resolution of the Two-Group Transient Neutron Diffusion Equation Using Second-Degree Iterative Methods....Pages 426-438
Enhancing the Performance of Multigrid Smoothers in Simultaneous Multithreading Architectures....Pages 439-451
Block Iterative Algorithms for the Solution of Parabolic Optimal Control Problems....Pages 452-465
Evaluation of Linear Solvers for Astrophysics Transfer Problems....Pages 466-475
Scalable Cosmological Simulations on Parallel Machines....Pages 476-489
Performance Evaluation of Scientific Applications on Modern Parallel Vector Systems....Pages 490-503
Numerical Simulation of Three-Phase Flow in Heterogeneous Porous Media....Pages 504-517
Simulation of Laser Propagation in a Plasma with a Frequency Wave Equation....Pages 518-529
A Particle Gradient Evolutionary Algorithm Based on Statistical Mechanics and Convergence Analysis....Pages 530-543
A Computational Framework for Cardiac Modeling Based on Distributed Computing and Web Applications....Pages 544-555
Triangular Clique Based Multilevel Approaches to Identify Protein Functional Modules....Pages 556-565
BioPortal: A Portal for Deployment of Bioinformatics Applications on Cluster and Grid Environments....Pages 566-578
Adaptive Distributed Metamodeling....Pages 579-588
Distributed General Logging Architecture for Grid Environments....Pages 589-600
Interoperability Between UNICORE and ITBL....Pages 601-609
Using Failure Injection Mechanisms to Experiment and Evaluate a Grid Failure Detector....Pages 610-621
Semantic-Based Service Trading: Application to Linear Algebra....Pages 622-633
Management of Services Based on a Semantic Description Within the GRID-TLSE Project....Pages 634-643
Extending the Services and Sites of Production Grids by the Support of Advanced Portals....Pages 644-655
PSO-Grid Data Replication Service....Pages 656-669
Execution Management of Scientific Models on Computational Grids....Pages 670-678
Replica Refresh Strategies in a Database Cluster....Pages 679-691
A Practical Evaluation of a Data Consistency Protocol for Efficient Visualization in Grid Applications ....Pages 692-706
Experiencing Data Grids....Pages 707-718
Back Matter....Pages -

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This book constitutes the thoroughly refereed post-proceedings of the 7th International Conference on High Performance Computing for Computational Science, VECPAR 2006, held in Rio de Janeiro, Brazil, in June 2006.

The 44 revised full papers presented together with one invited paper and 12 revised workshop papers were carefully selected during two rounds of reviewing and improvement for inclusion in the book. The papers are organized in topical sections on Grid computing, cluster computing, numerical methods, large-scale simulations in Physics, and computing in Biosciences. In addition, the book includes some of the presentations of the two associated workshops on Computational Grids and Clusters, and on High Performance Data Management in Grid Environments.

Content:
Front Matter....Pages -
An Opportunistic Algorithm for Scheduling Workflows on Grids....Pages 1-12
A Service Oriented System for on Demand Dynamic Structural Analysis over Computational Grids....Pages 13-26
Scalable Desktop Grid System ....Pages 27-38
Analyzing Overheads and Scalability Characteristics of OpenMP Applications....Pages 39-51
Parallel Fuzzy c-Means Cluster Analysis....Pages 52-65
Peer-to-Peer Models for Resource Discovery in Large-Scale Grids: A Scalable Architecture....Pages 66-78
JaceV: A Programming and Execution Environment for Asynchronous Iterative Computations on Volatile Nodes....Pages 79-92
Aspect Oriented Pluggable Support for Parallel Computing....Pages 93-106
Model for Simulation of Heterogeneous High-Performance Computing Environments....Pages 107-119
On Evaluating Decentralized Parallel I/O Scheduling Strategies for Parallel File Systems....Pages 120-130
Distributed Security Constrained Optimal Power Flow Integrated to a DSM Based Energy Management System for Real Time Power Systems Security Control....Pages 131-144
Metaserver Locality and Scalability in a Distributed NFS....Pages 145-157
Top-k Query Processing in the APPA P2P System....Pages 158-171
Posterior Task Scheduling Algorithms for Heterogeneous Computing Systems....Pages 172-183
Design and Implementation of an Environment for Component-Based Parallel Programming....Pages 184-197
Anahy: A Programming Environment for Cluster Computing....Pages 198-211
DWMiner: A Tool for Mining Frequent Item Sets Efficiently in Data Warehouses....Pages 212-224
A Parallel Implementation of the K Nearest Neighbours Classifier in Three Levels: Threads, MPI Processes and the Grid....Pages 225-235
On the Use of the MMC Language to Utilize SIMD Instruction Set....Pages 236-248
A Versatile Pipelined Hardware Implementation for Encryption and Decryption Using Advanced Encryption Standard....Pages 249-259
Combinatorial Scientific Computing: The Enabling Power of Discrete Algorithms in Computational Science....Pages 260-280
Improving the Numerical Simulation of an Airflow Problem with the BlockCGSI Algorithm....Pages 281-291
EdgePack: A Parallel Vertex and Node Reordering Package for Optimizing Edge-Based Computations in Unstructured Grids....Pages 292-304
Parallel Processing of Matrix Multiplication in a CPU and GPU Heterogeneous Environment....Pages 305-318
Robust Two-Level Lower-Order Preconditioners for a Higher-Order Stokes Discretization with Highly Discontinuous Viscosities....Pages 319-333
The Impact of Parallel Programming Models on the Performance of Iterative Linear Solvers for Finite Element Applications....Pages 334-348
Efficient Parallel Algorithm for Constructing a Unit Triangular Matrix with Prescribed Singular Values....Pages 349-362
A Rewriting System for the Vectorization of Signal Transforms....Pages 363-377
High Order Fourier-Spectral Solutions to Self Adjoint Elliptic Equations....Pages 378-390
Multiresolution Simulations Using Particles....Pages 391-402
Evaluation of Several Variants of Explicitly Restarted Lanczos Eigensolvers and Their Parallel Implementations ....Pages 403-416
PyACTS: A High-Level Framework for Fast Development of High Performance Applications....Pages 417-425
Sequential and Parallel Resolution of the Two-Group Transient Neutron Diffusion Equation Using Second-Degree Iterative Methods....Pages 426-438
Enhancing the Performance of Multigrid Smoothers in Simultaneous Multithreading Architectures....Pages 439-451
Block Iterative Algorithms for the Solution of Parabolic Optimal Control Problems....Pages 452-465
Evaluation of Linear Solvers for Astrophysics Transfer Problems....Pages 466-475
Scalable Cosmological Simulations on Parallel Machines....Pages 476-489
Performance Evaluation of Scientific Applications on Modern Parallel Vector Systems....Pages 490-503
Numerical Simulation of Three-Phase Flow in Heterogeneous Porous Media....Pages 504-517
Simulation of Laser Propagation in a Plasma with a Frequency Wave Equation....Pages 518-529
A Particle Gradient Evolutionary Algorithm Based on Statistical Mechanics and Convergence Analysis....Pages 530-543
A Computational Framework for Cardiac Modeling Based on Distributed Computing and Web Applications....Pages 544-555
Triangular Clique Based Multilevel Approaches to Identify Protein Functional Modules....Pages 556-565
BioPortal: A Portal for Deployment of Bioinformatics Applications on Cluster and Grid Environments....Pages 566-578
Adaptive Distributed Metamodeling....Pages 579-588
Distributed General Logging Architecture for Grid Environments....Pages 589-600
Interoperability Between UNICORE and ITBL....Pages 601-609
Using Failure Injection Mechanisms to Experiment and Evaluate a Grid Failure Detector....Pages 610-621
Semantic-Based Service Trading: Application to Linear Algebra....Pages 622-633
Management of Services Based on a Semantic Description Within the GRID-TLSE Project....Pages 634-643
Extending the Services and Sites of Production Grids by the Support of Advanced Portals....Pages 644-655
PSO-Grid Data Replication Service....Pages 656-669
Execution Management of Scientific Models on Computational Grids....Pages 670-678
Replica Refresh Strategies in a Database Cluster....Pages 679-691
A Practical Evaluation of a Data Consistency Protocol for Efficient Visualization in Grid Applications ....Pages 692-706
Experiencing Data Grids....Pages 707-718
Back Matter....Pages -
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