Lin / Yen Managed Grids and Cloud Systems in the Asia-Pacific Research Community

1. Auflage 2010
ISBN: 978-1-4419-6469-4
Verlag: Springer
Format: PDF
Kopierschutz: 1 - PDF Watermark

E-Book, Englisch, 357 Seiten

ISGC 2009, The International Symposium on Grid Computing was held at Academia Sinica, Taipei, Taiwan in April 2009 bringing together prestigious scientists and engineers worldwide to exchange ideas, present challenges/solutions and introduce future development in the field of Grid Computing. Managed Grids and Cloud Systems in the Asia-Pacific Research Community presents the latest achievements in grid technology including Cloud Computing. This volume also covers international projects in Grid Operation, Grid Middleware, E-Science applications, technical developments in grid operations and management, Security and Networking, Digital Library and more. The resources used to support these advances, such as volunteer grids, production managed grids, and cloud systems are discussed in detail. This book is designed for a professional audience composed of grid users, developers and researchers working in the grid computing. Advanced-level students focusing on computer science and engineering will find this book valuable as a reference or secondary text book.

Autoren/Hrsg.

Lin, Simon C.

Yen, Eric

Inhaltsverzeichnis

1;Contents;6
2;Program Committee;10
3;Contributors;12
4;Part I Grid Activities in Asia Pacific;16
4.1;Chapter 1 Asia Federation Report on International Symposium on Grid Computing 2009 (ISGC 2009);17
4.1.1;Executive summary;17
4.1.2;Asia-EU;18
4.1.3;1. Australia;20
4.1.3.1;Physical Network;20
4.1.3.2;Australian Research Collaboration Service (ARCS);21
4.1.3.3;Progress of HEP Grid in Australia;22
4.1.4;2. China;24
4.1.4.1;Progress of HEP Grid in China;24
4.1.5;3. India;26
4.1.5.1;ERNET;26
4.1.5.1.1;National and International Grid Computing Initiatives;27
4.1.5.1.2;Progress of HEP Grid in India;28
4.1.6;4. Indonesia;29
4.1.7;5. Japan;31
4.1.7.1;Progress of HEP Grid in Japan;32
4.1.8;6. Malaysia;34
4.1.9;7. Pakistan;37
4.1.9.1;Progress of HEP Grid in Pakistan;37
4.1.10;8. Philippines;39
4.1.11;9. Singapore;41
4.1.12;10. South Korea;43
4.1.13;11. Taiwan;46
4.1.13.1;Progress of HEP in Taiwan;49
4.1.14;12. Thailand;50
4.1.15;13. Vietnam;51
4.2;Chapter 2 Research and Deployment a Hospital Open Software Platform for e-Health on the Grid System at VAST/ IAMI;52
4.2.1;Abstract;52
4.2.2;1. Grid Computing Overview;53
4.2.2.1;1.1. Grid Computing in Vietnam and on the world;53
4.2.2.2;1.2. Introduction about Grid Computing;53
4.2.3;2. Components and Structure of Grid Model;55
4.2.3.1;2.1. General architecture of Middleware and gLite Technology;55
4.2.3.2;2.2. Services of gLite Grid Middleware;55
4.2.3.3;2.3. Main components of gLite [9];56
4.2.3.4;2.4. Introduction about Metadata and AMGA on the Grid;57
4.2.3.5;2.5. Overview of AMGA (ARDA Metadata Grid Application);58
4.2.4;3. A Telemedicine Platform for Information and Images Management on the Grid;59
4.2.4.1;3.1. HOPE Platform Introduction;59
4.2.4.1.1;3.1.1. Why to build the Hope Platform?;59
4.2.4.1.2;3.1.2. Obstacles and challenges;60
4.2.4.1.3;3.1.3. Related technologies;60
4.2.4.2;3.2. Deploy the HOPE platform;60
4.2.4.2.1;3.2.1. Introduction;60
4.2.4.2.2;3.2.2. HOPE Platform Structure;61
4.2.4.2.3;3.2.3. Medical data sharing;61
4.2.4.2.4;3.2.4. Requirements of HOPE System;62
4.2.4.2.5;3.2.5. Current deployment and perspectives:;63
4.2.5;4. HOPE Package Installation;64
4.2.5.1;4.1. HOPE’ s packages;64
4.2.5.2;4.2. The result of HOPE installation;64
4.2.6;5. Conclusion;66
4.2.7;Acknowledgments;66
4.2.8;References;66
4.3;Chapter 3 WLCG Node in Pakistan – Challenges & Experiences;68
4.3.1;Abstract;68
4.3.2;1. Introduction;68
4.3.3;2. Experiences Gained during Grid Infrastructure Deployment;70
4.3.3.1;2.1 Challenges Met & Adopted Solutions – Phase I;70
4.3.3.2;2.2 Challenges Met & Adopted Solutions – Phase II;71
4.3.4;3. Performance Statistics of NCP-LCG2 Site;72
4.3.4.1;3.1 Service Availability Monitoring (SAM);72
4.3.4.2;3.2 APEL & R-GMA;73
4.3.4.3;3.3 EGEE Availability & Reliability Metrics;76
4.3.5;4. Conclusion;77
4.3.6;References;77
4.4;Chapter 4 In Vitro Test for Potential Inhibitors of Plasmepsin II and IV as Anti-malarial Agents;79
4.4.1;Abstract;79
4.4.2;1. Introduction;80
4.4.3;2. Materials and methods;81
4.4.3.1;2.1 Expression and preparation of recombinant PM;81
4.4.3.2;2.2 Sodium dodecyl sulfate-polyacrylamide gel electophoresis (SDS-PAGE);82
4.4.3.3;2.3 Enzyme activity and kinetics;82
4.4.3.4;2.4 Chemical compounds;83
4.4.3.5;2.5 FRET substrate degradation inhibition assay;83
4.4.3.6;2.6 Assay of PM inhibition of hemoglobin degradation;84
4.4.4;3. Results and Discussion;84
4.4.4.1;3.1 Expression, purification and activity assay of PM;84
4.4.4.2;3.2 Biological testing;86
4.4.4.3;3.3 PM II-mediated hemoglobin degradation;89
4.4.4.4;3.4 Conclusions;91
4.4.5;Acknowledgements;91
4.4.6;References;91
5;Part II Grid Application;94
5.1;Chapter 5 Performance of a disk storage system at a Tier-2 site;95
5.1.1;Abstract;95
5.1.2;1. Introduction;95
5.1.3;2. Regional Analysis Center;96
5.1.4;3. Disk Storage System;97
5.1.5;4. Data Transfer overWAN;99
5.1.6;5. Data Access in LAN;101
5.1.6.1;5.1 Stand-alone Test with a single server;102
5.1.6.2;5.2 ATLAS stress test;104
5.1.7;6. Summary;106
5.1.8;Acknowledgements;106
5.1.9;References;107
5.2;Chapter 6 The PacCAF Grid portal for the CDF experiment;108
5.2.1;Abstract;108
5.2.2;1. Introduction;108
5.2.3;2. CDF Computing;109
5.2.4;3. The CAF portal;110
5.2.4.1;3.1 CAF modules;110
5.2.5;4. Glide-in to the Grid;112
5.2.5.1;4.1 The Glide CAF;112
5.2.5.2;4.2 Firewall routing and HTTP caching;113
5.2.6;5. Online monitoring;114
5.2.7;6. Summary;115
5.2.8;References;116
5.3;Chapter 7 Distributed Computing Model for Belle II Experiment;117
5.3.1;Abstract;117
5.3.2;1. Experimental environment;117
5.3.3;2. Current Belle Computing System;119
5.3.4;3. Belle II Computing System;120
5.3.4.1;3.1 Expected Event Rate;120
5.3.4.2;3.2 Expected Event Data size;121
5.3.4.3;3.3 Possible Computing Model for Belle II;122
5.3.5;4. Data Handling System for Belle II;124
5.3.6;5. Summary;125
5.3.7;Acknowledgements;125
5.3.8;References;126
5.4;Chapter 8 INFN, IT the GENIUS grid portal and the robot certificates to perform phylogenetic analysis on large scale: a success story from the International LIBI project;127
5.4.1;Abstract;127
5.4.2;1. Introduction;128
5.4.3;2. Structure and Components of a Public Key Infrastructure in a Nutshell;130
5.4.4;3. The Robot Certificates;132
5.4.4.1;3.1 Access Grid Infrastructure with robot certificates and the GENIUS Grid portal;132
5.4.5;4. The Bioinformatics Use Case;134
5.4.5.1;4.1 Bayesian Phylogenetic Inference on large scale;134
5.4.6;5. Conclusions;137
5.4.7;Acknowledgments;137
5.4.8;References;137
5.5;Chapter 9 Developing a Philippine Cancer Grid. Part 1: Building a Prototype for a Data Retrieval System for Breast Cancer Research Using Medical Ontologies;139
5.5.1;Abstract;139
5.5.2;1. Introduction;139
5.5.2.1;1.1 Computational Ontology;139
5.5.2.2;1.2 Ontologies and Information Systems;140
5.5.2.3;1.3 Ontology Development for the Medical Domain;141
5.5.3;2. Project Objective, Significance and Scope;142
5.5.4;3. Review of Related Literature;144
5.5.5;4. Methodology, Framework and Features of the Prototype;146
5.5.5.1;4.1 Use Case Categories;147
5.5.5.2;4.2 Actors;147
5.5.5.3;4.3 Identified Features;148
5.5.5.4;4.4 Use Case Diagram Framework of Prototype;148
5.5.5.5;4.5 Programming Development Flow;149
5.5.5.6;4.6 Overview Model for Grid Integration;150
5.5.6;5 Conclusion and Future Work;151
5.5.7;Acknowledgements;152
5.5.8;References;152
5.6;Chapter 10 The ASTRA (Ancient instruments Sound/Timbre Reconstruction Application) Project brings history to life!;153
5.6.1;Abstract;153
5.6.2;1. Introduction;154
5.6.3;2. The Technique;155
5.6.3.1;2.1 The modeling of ancient instruments;155
5.6.3.2;2.2 The GILDA t-Infrastructure;157
5.6.3.3;2.3 GÉANT and GÉANT2;157
5.6.3.4;2.4 EUMEDCONNECT and EUMEDCONNECT2;158
5.6.4;3. Running ASTRA in Grid;158
5.6.4.1;3.1 The GENIUS architecture and the EnginFrame framework;159
5.6.5;4. Astra Results;160
5.6.6;5. The Orchestra;162
5.6.7;6. Conclusions;162
5.6.8;Acknowledgments;163
5.6.9;References;163
5.7;Chapter 11 GRASS GIS in Grid Environment;165
5.7.1;Abstract;165
5.7.2;1. UNOSAT and CERN Grid Computing;165
5.7.3;2. GRASS GIS Sample application in the Grid Environment;166
5.7.4;3. Conclusion;170
5.7.5;References;171
5.8;Chapter 12 Academia Sinica, TW E-science to Assistant Seismic Observations for Earthquake Research, Monitor and Hazard Reduction Surrounding the South China Sea;172
5.8.1;Abstract;172
5.8.2;1. Introduction;173
5.8.3;2. Deployment and data processing;175
5.8.4;3. Applications of recorded data;177
5.8.5;4. The necessary to upgrade for earthquake monitoring and early warning;180
5.8.6;5. Implementation of Grid Infrastructure for the SCS network and hazard reduction;183
5.8.7;6. Summary;184
5.8.8;Acknowledgements;184
5.8.9;References;184
5.9;Chapter 13 A Data Research Infrastructure for the Arts and Humanities;186
5.9.1;Abstract;186
5.9.2;1. Introduction - Changing Data Perspectives in Humanities;186
5.9.3;2. The interoperability challenge;188
5.9.4;3. Grid-enabling Humanities Data;189
5.9.5;4. Case Study: Linking and Querying Ancient Texts;190
5.9.6;5. Implementation;193
5.9.7;6. Conclusion and Future Work;196
5.9.8;References;198
6;Part III Security & Networking;199
6.1;Chapter 14 Review on Concurrent Data Transfer in Grid Computing;200
6.1.1;Abstract;200
6.1.2;1. Introduction;200
6.1.3;2. Challenges in Concurrent Data Transfer over Grid Computing;201
6.1.3.1;2.1 Typical Network Topology;202
6.1.4;3. Approach to Improve the Performance;203
6.1.4.1;3.1 MuniSocket;203
6.1.4.2;3.2 MuniCluster;204
6.1.4.3;3.3 Concurrent Multipath Transfer;205
6.1.4.4;3.4 Channel Bonding;205
6.1.4.5;3.5 Other Solutions;205
6.1.5;4. Conclusion;206
6.1.6;References;206
6.2;Chapter 15 SVOPME: A Scalable Virtual Organization Privileges Management Environment;208
6.2.1;Abstract;208
6.2.2;Acknowledgments;208
6.2.3;1. Introduction;209
6.2.3.1;1.1 Challenges in Reconciling VO and Site Policies;210
6.2.3.2;1.2 The Need for Managing VO User Privileges;211
6.2.4;2. Related Work;211
6.2.5;3. VO Policies and Grid Sites;212
6.2.6;4. The SVOPME Architecture;214
6.2.6.1;4.1 VO Components;216
6.2.6.2;4.2 Site Components;217
6.2.6.2.1;4.2.1 Grid Probe;217
6.2.6.2.2;4.2.2 Policy Advisor;218
6.2.6.2.3;4.2.3 Policy Comparer;219
6.2.7;5. Discussion;219
6.2.8;6. Current Progress;219
6.2.9;7. Conclusions;220
6.2.10;References;220
7;Part IV Grid Computing and Cloud Computing;222
7.1;Chapter 16 Elastic Cloud Computing Infrastructures in the Open Cirrus Testbed Implemented via Eucalyptus;223
7.1.1;Abstract;223
7.1.2;1. Cloud Computing – An upcoming trend in IT;223
7.1.2.1;1.1 Everything as a service;224
7.1.3;2. OpenCirrus™;225
7.1.3.1;2.1 OpenCirrus™ Blueprint;226
7.1.4;3. Cloud application services in OpenCirrus™;228
7.1.4.1;3.1 Hadoop;228
7.1.4.2;3.2 Eucalyptus;228
7.1.4.2.1;3.2.1 Storage Performance of Eucalyptus.;230
7.1.4.3;3.3 AppScale;232
7.1.5;4. Further Steps;232
7.1.6;5. Conclusion;233
7.1.7;References;233
7.2;Chapter 17 Belle Monte-Carlo Production on the Amazon EC2 Cloud;235
7.2.1;Abstract;235
7.2.2;1. Introduction;235
7.2.3;2. Concepts;236
7.2.3.1;2.1 Belle Monte Carlo;236
7.2.3.2;2.2 Cloud;237
7.2.3.3;2.3 Traditional Solution;238
7.2.3.3.1;2.3.1 Generalising;239
7.2.3.4;2.4 Value Weighted Output;239
7.2.4;3. Architecture;240
7.2.4.1;3.1 Data Flow;241
7.2.4.2;3.2 Control Flow;241
7.2.5;4. Results;242
7.2.5.1;4.1 Identifying bottlenecks;243
7.2.5.2;4.2 Scheduling;244
7.2.5.3;4.3 Comparison with Traditional Solution;245
7.2.5.4;4.4 Other providers;245
7.2.6;5. Future Work;246
7.2.6.1;5.1 Scale;246
7.2.6.2;5.2 Bandwidth;246
7.2.6.3;5.3 Accounting, Access and Authorization;246
7.2.6.4;5.4 Grid Integration;247
7.2.7;6. Conclusion;247
7.2.8;References;247
7.2.9;7. A Scientific Linux Amazon Machine Image;248
7.2.9.1;7.1 Working with image files;248
7.2.9.2;7.2 Preparing for installation;249
7.2.9.3;7.3 Installation and configuration;250
7.2.9.4;7.4 Adding the Belle libraries;252
7.2.9.5;7.5 Cleaning up;253
7.2.10;8. Further Information;253
7.3;Chapter 18 Impact of Advanced Virtualization Technologies on Grid Computing Centres;254
7.3.1;Abstract;254
7.3.2;1. Introduction;254
7.3.3;2. Virtualization;255
7.3.3.1;2.1 Network Virtualization;255
7.3.3.2;2.2 Storage Virtualization;256
7.3.3.3;2.3 I/O Virtualization;258
7.3.3.4;2.4 Platform Virtualization;259
7.3.4;3. Grid Computing;260
7.3.5;4. Existing Work;260
7.3.6;5. Impact of Virtualization on Grid Computing;261
7.3.6.1;5.1 Grid Middleware Level;261
7.3.6.2;5.2 LRMS Level;262
7.3.6.3;5.3 Flexible Creation of Virtual Appliances;263
7.3.7;6. Conclusion and Outlook;264
7.3.8;References;265
8;Part V Operation & Management;267
8.1;Chapter 19 Usage of the Open Science Grid;268
8.1.1;Abstract;268
8.1.2;1. Introduction;268
8.1.3;2. Terminology and Measurements;269
8.1.4;3. Resource Measurement and Usage on the OSG;270
8.1.5;4. Resource Value;274
8.1.6;5. Approaches for Resource Estimation;276
8.1.7;6. Conclusions;280
8.1.8;References;281
8.2;Chapter 20 Karlsruhe Institute of Technology, DE Grid Support Beyond the Project Life Cycle;282
8.2.1;Abstract.;282
8.2.2;1. Introduction;282
8.2.3;2. GGUS management;283
8.2.4;3. USAG;284
8.2.5;4. Shopping list;285
8.2.6;5. Release cycle;285
8.2.7;6. GGUS Standard workflow;286
8.2.8;7. TPM;287
8.2.9;8. Services support;287
8.2.10;9. Expert support;288
8.2.11;10. Special workflows and tools;288
8.2.12;11. Direct user ticket notification to resource centres;288
8.2.13;12. Team tickets;289
8.2.14;13. VOMS integration;290
8.2.15;14. Ticket timeline tool;290
8.2.16;15. Report generator;291
8.2.17;16. Summary;292
8.2.18;References;292
8.3;Chapter 21 Plans for a German Grid Operations and Support Centre;293
8.3.1;Abstract;293
8.3.2;1. Grid activities in Germany;293
8.3.3;2. Achievements at KIT;295
8.3.4;3. User Support;295
8.3.5;4. Operations Support;296
8.3.6;5. Reference Installation;296
8.3.7;6. Monitoring;297
8.3.8;7. Plans for the future;297
8.3.9;References;298
8.4;Chapter 22 Catch-All Virtual Organizations - Solution for Heterogeneous and Disperse Grid Users Communities;299
8.4.1;Abstract.;299
8.4.2;1. Introduction;299
8.4.3;2. Enabling Grids in E-SciencE;301
8.4.4;3. Virtual Organizations;301
8.4.5;4. VOCE Use Case;304
8.4.6;5. EUAsia Virtual Organization;306
8.4.7;6. Conclusions and Future Prospective;308
8.4.8;Acknowledgements;308
8.4.9;References;309
8.5;Chapter 23 GILDA Status and Recent Activities in Grid Training;310
8.5.1;Abstract;310
8.5.2;1. Introduction;310
8.5.3;2. GILDA and the t-Infrastructure;313
8.5.3.1;2.1 The infrastructure;314
8.5.4;3. Services;315
8.5.4.1;3.1 Infrastructure services;315
8.5.4.2;3.2 User oriented services;317
8.5.5;4. Activities;318
8.5.6;5. Conclusion;320
8.5.7;References;321
9;Part VI Grid Middleware & Interoperability;322
9.1;Chapter 24 GridMate – The Grid Matlab Extension;323
9.1.1;Abstract;323
9.1.2;1. Introduction;323
9.1.3;2. Related Work;324
9.1.3.1;2.1 The Parallel Computing Toolbox and the Distributed Computing Server;324
9.1.3.2;2.2 The Matlab Compiler;325
9.1.4;3 GridMate – The Grid Matlab Extension;326
9.1.4.1;3.1 The Service Oriented Grid Architecture;326
9.1.4.2;3.2 The Matlab Builder for Java;328
9.1.4.3;3.3 Integration into Matlab;328
9.1.4.4;3.4 The GridMate Service;329
9.1.4.4.1;3.4.1 Asynchronous Mode (Non–Blocking);331
9.1.4.4.2;3.4.2 Synchronous Mode (Blocking);332
9.1.5;4 Performance Measurements;332
9.1.5.1;4.1 Application 1: 3D Volume Reconstruction;333
9.1.5.2;4.2 Application 2: Digital Image Correlation;334
9.1.6;5 Conclusions and Future Work;336
9.1.7;References;336
9.2;Chapter 25 An Interoperable GridWorkflow Management System;338
9.2.1;Abstract;338
9.2.2;1. Introduction;338
9.2.3;2. Interoperability among Grid middleware;340
9.2.4;3. The ProGenGridWorkFlow Management System;342
9.2.4.1;3.1 Architecture;343
9.2.4.2;3.2 The GMS operation schema;345
9.2.5;4. Testbed domain: Bioinformatics;349
9.2.6;5. Related Work;350
9.2.7;6. Conclusions and Future Work;352
9.2.8;Acknowledgements;352
9.2.9;References;352