Contents of Fast Thinking

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THE COOK REPORT ON INTERNET PROTOCOL! FEBRUARY - AUGUST 2011

2011 COOK NETWORK CONSULTANTS 431GREENWAYAVE.EWING, NJ 08618-2711 USA SUBSCRIBER ! PAGE 1

Volume XIX, No.s 11-12, XX, No.s 1-5February - August 2011

ISSN 1071 - 6327

Fast Thinking

An R & E Network

Renaissance


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Contents

Part 1How Human Ingenuity, DIY Technology,and Global

R&E Networks Are Remaking the World

Abstract ! ! ! ! ! ! ! ! ! ! ! p. 11Introduction: The American Political Context! !The Quiet Coup!! ! ! ! ! ! ! ! ! ! p.12!Becoming a Banana Republic! ! ! ! ! ! ! ! p.13

The Wall StreetWashington Corridor!! ! ! ! ! ! p.14

Susceptibility to Systemic Shocks! ! ! ! ! ! ! p.14

Outcome Will Be the Hollow State! ! ! ! ! ! ! p.15!

The Network and Local Resilience! ! ! ! ! ! ! p.17

Chapter 1

Collaboration Networks: the New Glue

in a World of Failing Nation States?

Consider Then What Lies Ahead!! ! ! ! ! ! ! p. 18

What about the Rest of Us?! ! ! ! ! ! ! ! p. 19

Absolute Necessity of Grasping

Transformative Impact of Technology on National Economies! ! p. 21Role of U. S. UCAN Network in Uniting

Research & Education with the Rest of America ! ! ! ! ! p. 24

Thumbnail Sketch of the European & American Situation! ! ! p. 25

A Future Scenario of What is Possible ! ! ! ! ! ! p. 28

The Power of the 20th Century CenterLeaks to the 21st Century Edge! ! ! ! ! ! ! p. 29




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Open Everything Brings Major Change ! ! ! ! ! ! p. 30

Civilizing the Economy: A New Economics of Provision! ! ! p. 32

Economic Disconnect Addressed by Two Stories ! ! ! ! p. 33

Creation of Economic Value Moves from Proprietary Silos

to Collaboration Infrastructures!! ! ! ! ! ! !

p. 34Getting Better Faster by Working Together and By Creating

New Architectures ! ! ! ! ! ! ! ! ! ! p. 35

The Economy Must be Freed from Dependence onScarcity Communications !! ! ! ! ! ! ! ! p. 37Collective Intelligence ! ! ! ! ! ! ! ! ! p. 37Bridging the Gap Between High End and Local Community !! ! p. 38

Chapter 2

The R&E Networks in the Rest ofWorld: National & Task OrientedEurope, Asia- Pacific, China, India, Canada!! ! ! ! ! p. 41

The United StatesEarly History of I2 and NLR! ! ! ! ! ! ! ! p. 42

National Lambda Rail!! ! ! ! ! ! ! ! ! p. 43

The Merger Imbroglio ! ! ! ! ! ! ! ! ! p. 45

US UCAN a New Beginning! ! ! ! ! ! ! ! p. 46

Internet2 K20 Initiative ! ! ! ! ! ! ! ! ! p. 52

The Civic Applications ! ! ! ! ! ! ! ! ! p. 54

The NSF and Cyber Infrastructure Office ! ! ! ! ! ! p. 58

Significant American Researchers ! ! ! ! ! ! ! p. 60

The 10th Annual Global LambdaGrid Workshop! ! ! ! ! p. 65

Modern Research Needs an Integrated ICT

Infrastructure: an Eco-system! ! ! ! ! ! ! ! p. 66The American Model Versus the Netherlands ! ! ! ! ! p. 67

The Future ! ! ! ! ! ! ! ! ! ! ! p. 68

A Cautionary Note ! ! ! ! ! ! ! ! ! ! p. 69

Survey of Internet2 Services and Activities !! ! ! ! ! p. 71

Collaboration with DICE, GLIF and Joint Engineering Team! ! ! p. 74


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Federated Identity Management! ! ! ! ! ! ! ! p. 75

Scientific Outreach! ! ! ! ! ! ! ! ! ! p. 77

Gratia Accounting! ! ! ! ! ! ! ! ! ! p. 77

Remote Instrumentation & Data Visualization Tools Working Group ! p. 78

An Example of a State BTOP Grant -- Michigan !! ! ! ! p. 79

Chapter 3

GLIF and SURFnet a Parallel History

of Infrastructure DevelopmentInterviews with Erik - Jan Bos, CTO of SURFnet! ! ! ! ! p. 85

Fiber Acquisition in the Netherlands! ! ! ! ! ! ! p. 88

Cross Border Fiber in Europe! ! ! ! ! ! ! ! p. 91

GLIF -- The Beginnings and

Organizational Structure!! ! ! ! ! ! p. 91Open Protocol Issues and GLIF Inclusive Philosophy ! ! ! ! p. 96

GLORIAD! ! ! ! ! ! ! ! ! ! ! ! p.105

Automation of Lightpaths for the Integrated Collaboration Facility ! ! p.106

The Collaboration Infrastructure - SURFconext! ! ! ! ! p.106

Collaboration Infrastructure Software: Science Without Borders! ! p.107

How GLIF Provisions its Bandwidth! ! ! ! ! ! ! p.109

How SURFnet Enables Innovation! ! ! ! ! ! ! p.110

K-12 Education in The Netherlands! ! ! ! ! ! ! p.114

Chapter 4

The Collaboration Infrastructurein Detail

OpenDrac!! ! ! ! ! ! ! ! ! ! ! p.115

Enablers of Cyber Infrastructure ! ! ! ! ! ! ! p.117

Increasing Collaboration! ! ! ! ! ! ! ! ! p.124

Trusted Identity Management! ! ! ! ! ! ! ! p.129


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Defining the Online Collaboration Environment! ! ! ! ! p.137

Chapter 5

Supercomputing -the Eco-System PinnacleThe Role of SARA, The Dutch National Supercomputer Center ! ! p.143The Ecosystem Pyramid! ! ! ! ! ! ! ! ! p.144

Figuring out What You Need for Resources !! ! ! ! ! p.147

Tuning the Machine ! ! ! ! ! ! ! ! ! ! p.150

Multi Disciplinary Teams and Blue Brain! ! ! ! ! ! p.154

Need for Petascale Computing! ! ! ! ! ! ! ! p.155Why No Supernode and SARA Merger and Split! ! ! ! ! p.159

Commercial Spinoff and Green Energy Concerns ! ! ! ! p.162

Impact of Collaboration infrastructure on SARA ! ! ! ! ! p.166

Where the Global SupercomputingEco System is HeadedSustained Petascale computing in US and Switzerland ! ! ! ! p.168

Switzerland! ! ! ! ! ! ! ! ! ! ! p.171

Executive Summary ! ! ! ! ! ! ! p.176

PART 2

The Emergence of a GlobalCollaborative Operating System

Introduction p.181

The Collaborative Architecture of Grids p.183




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Chapter 6

The Grid Ecosystem an

Architectural OverviewMaurice Bouwhuis

Computational Eco-systems! ! ! ! ! ! ! ! p.185

The User and Software Perspective: Interfacing with the Grids ! ! p.189

Communication and Collaboration is Transitioning

from Point-to-Point to Fabrics of Grids ! ! ! ! ! ! p.191

The Eco System Enabling the Data intensive Scientists Work! ! p.192

The Physical Architecture of the CPU and

Data Intensive Grid in Amsterdam! ! ! ! ! ! ! p.193

Chapter 7

Understanding the Workings of the

Global Ecosystem Architecture

Steven Newhouse

Looking Under the Hood of the Grid Infrastructure! ! ! ! p.196

The Grid Services Software Stack

Decides What Happens Where and When! ! ! ! ! ! p.201

Jumping into the GLIF Presentation on EGI ! ! p.202Grids in North America?! ! ! ! ! ! ! ! ! p.206

Chapter 8

BiG Grid as the Dutch

National e-Science InfrastructureArjen van Rijn!! ! ! ! ! ! ! ! ! ! p.210The Dutch Eco-system and its Evolution! ! ! ! ! ! p.211

Organizing Large Scale Collaboration!! ! ! ! ! ! p.213

Why Collaboration?! ! ! ! ! ! ! ! ! ! p.215

A Business Model?! ! ! ! ! ! ! ! ! ! P.216

Summing Up -- Big Grid Information, Infrastructure,




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and User Communities! ! ! ! ! ! ! ! ! p.220

Alexandre Bonvins Netherlands - Italian e-NMR GRid Project! ! p.224

Chapter 9

Distributed ASCI Supercomputer (DAS)Henri Baland theComputer Science Testbed/GridEditors Introduction! ! ! ! ! ! ! ! ! ! p.226DAS-3 Runs Independently from Big Grid! ! ! ! ! ! p.229

IBIS - a Language for Real World Distributed Computing! ! ! p.232

Demonstration Distributed Hierarchical Heterogeneous Computing! p.234

Chapter 10

Life Sciences as an Immature Field

An Introduction from Bob Hertzberger! ! ! !Genomics Is Relatively New in the Netherlands p.246Life Sciences a Young and Not Yet Stabile Field! ! ! ! p.249

Lacking Enough Understanding to Enable Predictive Models! ! p.252

Chapter 11

Looking for Structure in the Life Science WarsTimo Breits Micro-array TranscriptomicsThe Many Nuances of Eco System Thinking p.255Bringing Computational Science to Bear

on a Problem of Unbearable Complexity! ! ! ! ! ! p.260

Onward to e-Science!! ! ! ! ! ! ! ! ! p.263

Chapter 12

The GapThe Hard Place Between Biology, SystemsBiology and Economic Benefit - Brian HanleyEditors Introduction p.274A Different Point of View! ! ! ! ! ! ! ! p.275

The Computing Environment of Biology ! ! ! ! ! p.276




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Genomics as a focus of Systems Biology ! ! ! ! ! p. 277

The Medical-Industrial Complex and Economic Payoff to Society p. 281

A Very Short Biography and Comments on My Doctoral Program p. 284

My Point of View on the Preceding Two Chapters! ! ! p. 287

Chapter 13

Ecologies of Birds, Plants and Animals

Willem Bouten Computational Geo Ecology p.292Computational Geo-Ecology! ! ! ! ! ! ! ! p.293

The Fly Safe Bird Avoidance Model! ! ! ! ! ! ! p.295

The Military Radars! ! ! ! ! ! ! ! ! ! p.299

Tracking with GPS Backpacks Mounted on Birds ! ! ! ! p.302

Bird Migration! ! ! ! ! ! ! ! ! ! ! p.304Our Specific Bird Tracking Projects! ! ! ! ! ! ! p.306

Data-driven Models - Migration of Storks ! ! ! ! ! ! p.308

Visualization of Our Data ! ! ! ! ! ! ! ! ! p.315

Lets come back to Our Other Virtual Laboratories ! ! ! ! p.316

Exploring the Economic Implications !! ! ! ! ! ! p.320

Chapter 14

Virtual Collaboration for Research inHumanities and ScienceThe Virtual Research Environments Program at

JISC For Universities in the United Kingdom - F. Van Till!! ! ! ! ! ! ! ! ! ! ! ! ! p.325The Role of JISC in UK Higher Education! ! ! ! ! ! p.326

VRE - Presenting the Three Phases ! ! ! ! ! ! ! p.328

What is a Virtual Research Environment? ! ! ! ! ! ! p.329First phases, VRE1 and VRE2! ! ! ! ! ! ! ! p.330

Documenting the Projects as a Teaching Tool ! ! ! ! ! p.334

VRE2 - Focusing on Four Pilots ! ! ! ! ! ! ! p.335

The Four Stage Two Pilots ! ! ! ! ! ! ! ! p.336

Acquiring Users via Delivery of

Productive Easy-to-use Tools ! ! ! ! ! ! ! ! ! p.338

SDM VRE - VRE for the Study of Documents and Manuscripts ! ! p.340




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My Experiment: well-structured science ! ! ! ! ! ! p.342

CREW - Collaborative Research Events on the Web ! ! ! ! p.344

Small Tools ! ! ! ! ! ! ! ! ! ! ! p.349

Chapter 15

Designing the Network for the

Mother of All GridsDavid Foster on the World Wide LHC Computing Grid OPN p.353A Star Network Where its Strength Lies in its Simplicity ! ! p.355

The Complexity of the Tier-2s ! ! ! ! ! ! ! p.363

Federated Flexibility ! ! ! ! ! ! ! ! ! p.365

How the New Architecture Was Nurtured ! ! ! ! ! p.366

An Open-Ended Model ! ! ! ! ! ! ! ! p.370LHC Open Network Environment ! ! ! ! ! ! p.371

Access methods! ! ! ! ! ! ! ! ! p.371

Chapter 16

At a Critical Moment in American History NewR&E Leadership at Internet2

Interview with I2 CEO Dave LambertEarly Career! ! ! ! ! ! ! ! ! ! ! p.372Owning and Lighting Fiber!! ! ! ! ! ! ! ! p.375

The Way Forward! ! ! ! ! ! ! ! ! ! p.377

Collaboration Tools and Grid Middleware ! ! ! ! ! ! p.379

Technology and a New Culture of Learning ! ! ! ! ! p.381

The US UCAN Opportunity ! ! ! ! ! ! ! ! p.383

Extending a Helping Hand ! ! ! ! ! ! ! ! p.385

Role of the Incumbents in U.S. UCAN! ! ! ! ! ! ! p.386

Chapter 17

Conclusion -- At a very Difficult Time, theNecessity of Informed Choice

Communities will Need the Network Resources! ! ! ! p.390




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R&E Networks Married to Political Reality! ! ! ! ! p.398

Ask Yourself Where You Stand! ! ! ! ! ! ! p.399

Chapter 18

Fast Thinking: US UCANsInvestment in Our Own Communities! ! ! p.399

A National Strategic narrative ! ! ! ! ! ! ! ! p.402

ANon Partisan Blueprint forUnderstanding Changes of 21st Century ! ! ! ! ! ! p.403

At Stake is the Future of Local

Higher Education, Libraries and Schools p.408

Wanted: a US UCAN Strategy! ! ! ! ! ! ! !

p.409Fast Strategic Thinking Needed! ! ! ! ! ! ! ! p.410

Chapter 19

Internet 2 Spring Meeting Shows the

Challenge Ahead p.413The Utah-MCNC October 2010 Strategy Meeting! ! ! ! p.415

Thanks to SURF and SURFnet for their Support ! ! ! ! p.417

Executive Summary! ! ! ! ! ! !p.418Whats Happened

In Whose Interest?! ! ! ! ! ! ! ! ! ! p.421

Postscript from Thailand!! ! ! ! ! p.423

Appendices! ! ! (A)Some Data on StarPlane and Das-3 Projects ! p. 427(B) Das-4 Overview! ! ! ! ! ! p. 429(C) Relevant URLs from Late March to Early

April 2011 ! ! ! ! ! ! ! p. 433


2011 COOK NETWORK CONSULTANTS 431GREENWAYAVE.EWING, NJ 08618-2711 USA SUBSCRIBER ! PAGE10

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