Table of Contents

Cover

WILEY SERIES ON PARALLEL AND DISTRIBUTED COMPUTING

Title page

Copyright page

Foreword

Preface

Contributors

Chapter 1 State-of-the-Art Technologies for Large-Scale Computing

1.1 INTRODUCTION

1.2 GRID COMPUTING

1.3 VIRTUALIZATION

1.4 CLOUD COMPUTING

1.5 GRID AND CLOUD: TWO COMPLEMENTARY TECHNOLOGIES

1.6 MODELING AND SIMULATION OF GRID AND CLOUD COMPUTING

1.7 SUMMARY AND OUTLOOK

Chapter 2 The e-Infrastructure Ecosystem: Providing Local Support to Global Science

2.1 THE WORLDWIDE E-INFRASTRUCTURE LANDSCAPE

2.2 BALTICGRID: A REGIONAL E-INFRASTRUCTURE, LEVERAGING ON THE GLOBAL “MOTHERSHIP” EGEE

2.3 THE EGEE INFRASTRUCTURE

2.4 INDUSTRY AND E-INFRASTRUCTURES: THE BALTIC EXAMPLE

2.5 THE FUTURE OF EUROPEAN E-INFRASTRUCTURES: THE EUROPEAN GRID INITIATIVE (EGI) AND THE PARTNERSHIP FOR ADVANCED COMPUTING IN EUROPE (PRACE) INFRASTRUCTURES

2.6 SUMMARY

ACKNOWLEDGMENTS

Chapter 3 Accelerated Many-Core GPU Computing for Physics and Astrophysics on Three Continents

3.1 INTRODUCTION

3.2 ASTROPHYSICAL APPLICATION FOR STAR CLUSTERS AND GALACTIC NUCLEI

3.3 HARDWARE

3.4 SOFTWARE

3.5 RESULTS OF BENCHMARKS

3.6 ADAPTIVE MESH REFINEMENT HYDROSIMULATIONS

3.7 PHYSICAL MULTISCALE DISCRETE SIMULATION AT IPE

3.8 DISCUSSION AND CONCLUSIONS

ACKNOWLEDGMENTS

Chapter 4 An Overview of the SimWorld Agent-Based Grid Experimentation System

4.1 INTRODUCTION

4.2 SYSTEM ARCHITECTURE

4.3 SYSTEM IMPLEMENTATION

4.4 A SWAGES CASE STUDY

4.5 DISCUSSION

4.6 CONCLUSIONS

Chapter 5 Repast HPC: A Platform for Large-Scale Agent-Based Modeling

5.1 INTRODUCTION

5.2 AGENT SIMULATION

5.3 MOTIVATION AND RELATED WORK

5.4 FROM REPAST S TO REPAST HPC

5.5 PARALLELISM

5.6 IMPLEMENTATION

5.7 EXAMPLE APPLICATION: RUMOR SPREADING

5.8 SUMMARY AND FUTURE WORK

Chapter 6 Building and Running Collaborative Distributed Multiscale Applications

6.1 INTRODUCTION

6.2 REQUIREMENTS OF MULTISCALE SIMULATIONS

6.3 AVAILABLE TECHNOLOGIES

6.4 AN ENVIRONMENT SUPPORTING THE HLA COMPONENT MODEL

6.5 CASE STUDY WITH THE MUSE APPLICATION

6.6 SUMMARY AND FUTURE WORK

ACKNOWLEDGMENTS

Chapter 7 Large-Scale Data-Intensive Computing

7.1 DIGITAL DATA: CHALLENGE AND OPPORTUNITY

7.2 DATA-INTENSIVE COMPUTERS

7.3 ADVANCED SOFTWARE TOOLS AND TECHNIQUES

7.4 CONCLUSION

ACKNOWLEDGMENTS

Chapter 8 A Topology-Aware Evolutionary Algorithm for Reverse-Engineering Gene Regulatory Networks

8.1 INTRODUCTION

8.2 METHODOLOGY

8.3 RESULTS AND DISCUSSION

8.4 CONCLUSIONS

ACKNOWLEDGMENTS

Chapter 9 QosCosGrid e-Science Infrastructure for Large-Scale Complex System Simulations

9.1 INTRODUCTION

9.2 DISTRIBUTED AND PARALLEL SIMULATIONS

9.3 PROGRAMMING AND EXECUTION ENVIRONMENTS

9.4 QCG MIDDLEWARE

9.5 ADDITIONAL QCG TOOLS

9.6 QOSCOSGRID SCIENCE GATEWAYS

9.7 DISCUSSION AND RELATED WORK

Glossary

Index

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