Overview of PRAGMA View to the Future Examples of Team Science and Global Engagement in Asia Pacific

1
Overview of PRAGMA View to the FutureExamples
of Team Science and Global Engagement in Asia
Pacific and South Asia

• Peter Arzberger
• Philip Papadopoulos
• Mason Katz
• Cindy Zheng
• Enhancing Research and Education Connectivity to
  and within South Asia
• 26 April 2007
• Spring Internet2 Meeting

2
Some Perspectives Do they apply to you?

• The conduct of science, intrinsically global,
  has become increasingly important to addressing
  critical global issues . NSB 2000
• It is imperative that the ACP Advanced
  Cyberinfrastructure Program interoperate with
  cyberinfrastructure being developed and deployed
  in other countries. Atkins et.al. 2003
• What nations dont know can hurt them. The
  stakes involved in study abroad are that simple,
  that straightforward, and that important.
  college graduates today must be internationally
  competent. Lincoln Report 2005

Spread of Infectious Diseases Health of
Oceans Health of Coral Reefs Impacts of Global
Warming Role of Lakes in Carbon Cycling
Avoid Replay of Cluster Divergence Grids Support
Global Science Tools Developed Across Globe
People Make Collaborations
Delivered by Philip Papadopoulos, NSF Global
Engagement Workshop
3
e-sciences Team Science Merging of Science
and Information Technology
Previously Unobtainable Observations
and Understanding
4
PRAGMA
Overarching Goals
Strengthen Existing and Establish New
Collaborations Work with Science Teams to
Advance Grid Technologies and Improve the
Underlying Infrastructure In the Pacific Rim and
Globally
A Practical Collaborative Framework.
http//www.pragma-grid.net
5
Overview and ApproachProcess to Promote Routine
Use Team Science
Application-Driven Collaborations Applications Mid
dleware
Outcomes Improved middleware Broader Use New
Collaborations Transfer Tech. Standards Publicatio
ns New Knowledge Data Access Education
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Applications and Middleware http//goc.pragma-gri
d.net/applications/default.html

• Real science applications pair and drive
  middleware development
• Achieve long-run and scientific results
• Open to applications of all scientific
  disciplines
• Climate simulation
• Savannah/Nimrod (MU, Australia)
• MM5/Mpich-Gx (CICESE, Mexico KISTI, Korea)
• Quantum-mechanics, quantum-chemistry
• TDDFT, QM-MD, FMO/Ninf-G (AIST, Japan)
• Genomics
• iGAP/Gfarm/CSF (UCSD, USA AIST, Japan JLU,
  China)
• HPM genomics (IOIT-HCM, Vietnam)
• mpiBlast/Mpich-G2 (ASGC, Taiwan)
• Organic chemistry
• Gamess-APBS/Nimrod (UZurich, Switzerland)
• Molecular simulation
• Siesta/Nimrod (UZurich, Switzerland MU,
  Australia)
• Amber/Rsh ( USM, Malaysia)
• Compute Science
• Load Balancer (VAST-HCM, Vietnam)

Source Cindy Zheng
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PRAGMA Grid Testbed
JLU China
AIST OsakaU UTsukuba TITech Japan
NCSA USA
CNIC GUCAS China
AIST
CNIC
UZurich Switzerland
KISTI Korea
BU USA
UUtah USA
SDSC USA
SDSC
LZU China
ASGC NCHC Taiwan
UMC USA
ASGC
CICESE Mexico
UoHyd India
CUHK HongKong
UNAM Mexico
NECTEC ThaiGrid Thailand
NECTEC ThaiGrid
IOIT-HCM Vietnam
ASURC Costa Rica
APAC QUT Australia
MIMOS USM Malaysia
BII IHPC NGO Singapore
UCN Chile
BESTGrid New Zealand
NGO
UChile Chile
MU Australia
32 Clusters from 29 institutions in 14
countries/regions ( 7 in preparation)
7 gfarm sites
Source Cindy Zheng
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Savannah BurnHow tightly linked are burning,
vegetation, and rainfall?

• PRAGMA Testbed ran CSIRO climate model called
  CCAM in combination with Nimrod/G tool set.
• Executed on a maximum of 90 processors (out of a
  maximum 159) across 7 PRAGMA grid resources
  located in Australia, Japan, Korea, Taiwan,
  Thailand and the U.S.
• David Abramson, Amanda Lynch

9
Validation of Cyberinfrastructure Investmentsby
the Savannah Burn experiment

• Science Resulted The hypothesis that burning the
  Savannah can affect the strength and timing of
  the monsoon was confirmed.
• Testbed Exercised The testbed operated for 170
  days, and delivered over 1.25 million processor
  hours! Importantly, we were able to do a live
  upgrade of a number of the cyberinfrastructure
  components during the period.
• Middleware Improved Improved Nimrod's ability to
  schedule computations by incorporating both data
  location and transport delays.
• Allowing it to make a better choice of resources,
  improving the performance of the system as well
  as its fault tolerance.
• We also enhanced Nimrod's ability to handle
  faults in the Grid testbed.
• Policy Impacted The experiment shipped some
  1.6TB of data across national and international
  networks. This exposed some interesting features
  of Australias network charging policy, and will
  lead to lasting improvements.

10
Collaborations With Science and Technology Teams

• Grid security
• Naregi (Japan), APGrid, GAMA (SDSC, USA)
• Grid infrastructure
• Monitoring - SCMSWeb (ThaiGrid, Thailand)
• Accounting - MOGAS (NTU Singapore)
• Metascheduling - Community Scheduling Forum (JLU,
  China)
• Cyber-environment - CSE-Online (UUtah, USA)
• Rocks and middleware (SDSC, USA )
• Ninf-G, SCE, Gfarm, Bio, KRocks, Condor,
• Datagrid, sensor, network
• Gfarm-fuse (AIST, Japan)
• GEON data network
• GLEON sensor network
• OptIPuter - High performance networked TDW,
  Telescience

Source Cindy Zheng
11
Grid Interoperation Experimentshttp//goc.pragma-
grid.net/wiki/index.php/Main_PageGrid_Inter-opera
tions

• OGF Grid Interoperation Now (GIN), GIN-OPS
• GIN testbed (February, 2006 on-going)
• TDDFT/Ninf-G (PRAGMA - AIST, Japan)
• PRAGMA, TeraGrid, OSG, NorduGrid EGEE
• Savanah fire simulation (PRAGMA - MU, Australia)
• PRAGMA, TeraGrid, OSG
• Multi-Grid monitoring
• SCMSWeb probe matrix (PRAGMA - ThaiGrid,
  Thailand)
• Common schema (PRAGMA, TeraGrid, EGEE, NorduGrid)
• Peer-grid interoperation experiments
• PRAGMA-TeraGrid (October, 2006 on-going)
• PRAGMA member runs application across both grids
• QM/MD/Ninf-G (AIST, Japan)
• Manual reservation, 7 sites in PRAGMA, 3 sites in
  TeraGrid
• OSGPRAGMA (January, 2007 on-going)
• Members from both grids run applications across
  both grids
• OSG - Spatial Interpolation (UIowa, USA)
• PRAGMA - FMO/Ninf-G (AIST, Japan)
• OSG - FermilabGrid

Source Cindy Zheng
12
PRAGMA Highlights of 2006 - 2007

• Simulating the Australian Monsoon and the Effect
  of Wildfires
• PRAGMA Biosciences Portal
• PRAGMA Leads Application Experiment of Grid
  Interoperation in GIN Testbed
• PRAGMA Establishes Certificate Authority (CA)
  Using Naregi-CA Software
• Expanding the Collaboration Grid
• Building Communities, Catalyzing Collaborations
• PRIME and PRIUS
• More accomplishments in the Working Group
  sections

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Collaborate in Publishing Research ResultsSome
Publications 2006

• Arzberger P, Papadopoulos P. PRAGMA Example of
  Grass-Roots Grid Promoting Collaborative EScience
  Teams. CTWatch. Vol 2, No. 1 Feb 2006.
  www.ctwatch.org/quarterly/articles/2006/02/pragmae
  xample-of-grass-roots-grid-promoting-collaborative
  e-science-teams
• Abramson D, Lynch A, Takemiya H, Tanimura Y, Date
  S, Nakamura H, Jeong K, Hwang S, Zhu J, Lu Z,
  Amoreira C, Baldridge K, Lee H, Wang C, Shih HL,
  Molina T, Li, W, Arzberger P. Deploying
  Scientific Applications on the PRAGMA Grid
  testbed Ways, Means and Lessons. IEEE/CCGRID
  International Workshop on Grid Computing, 2006,
  Singapore.
• Lee B-S, Tang M, Zhang J, Soon O Y, Zheng C,
  Arzberger P. Analysis of Jobs on a
  Multi-Organizational Grid Testbed. IEEE/CCGRID
  Intl Workshop on Grid Computing, 2006,
  Singapore.
• Zheng C, Abramson D, Arzberger P, Ayuub S,
  Enticott C, Garic S, Katz M, Kwak J, Lee B S,
  Papadopoulos P, Phatanapherom S, Sriprayoonsakul
  S, Tanaka Y, Tanimura Y, Tatebe O, Uthayopas P.
  The PRAGMA Testbed Building a Multi-Application
  International Grid. 2005 IEEE/CCGRID
  International Workshop on Grid Computing, 2006,
  Singapore.
• Li WW, Arzberger PW, Yeo CL, Ang L, Tatebe O,
  Sekiguchi S, Jeong K, Wuang S, Date S, Kwak JH.
  Proteome Analysis Using iGAP in Gfarm. The Second
  International Life Science Grid Workshop 2005,
  Grid Asia 2005, Singapore 2005.
• Wei X, Ding Z, Li W W, Tatebe O, Jiang J, et al.
  GDIA A Scalable Grid Infrastructure for Data
  Intensive Applications. IEEE Intl Conference on
  Hybrid Information Technology, ICHIT 2006, Cheju
  Island, Korea.
• Krishnan S, Baldridge K K, Greenberg J. P, Stearn
  B, Bhatia K. An End-to-End Web Services-Based
  Infrastructure for Biomedical Applications.
  Proceedings of Grid 2005, 6th IEEE/ACM Intl
  Workshop on Grid Computing, November 13-14, 2005,
  Seattle, WA, U.S.

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PRIME Providing Students International
Interdisciplinary Research Internships and
Cultural Experiencespreparing the global
workplace of the 21st century

• Computer Network Information Center (CNIC),
  Chinese Academy of Sciences
• Cybermedia Center (CMC), Osaka University, Japan
• Monash University, Australia
• National Center for High-performance Computing
  (NCHC), Taiwan

PRIME Class 2006

• Built on top of PRAGMA people network
• Dual Mentors Pre/post research apprenticeship
• Cultural competency preparation
• Whats Up with Culture
• Professional development seminars
• A Pilot Project for Global Engagement

prime.ucsd.edu
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Fostering of Globally-Leading Researchers in
Integrated Science (PRIUS)
Educational Network linking 13 organizations in 7
countries centered around the Pacific Rim
Achievement 2006(2005) of PRIUS-Invited
lecturers 13 (6) of Internship Students
4 (1)
Studies on International Integrated Science I,
II
University of Illinois, Chicago
Harbin Institute of Technology
University of California, San Diego
University of Zurich, Irchel
National Center for High-performance Computing
University of Malaysia
Queensland University of Technology
QM/MM simulation Using OPAL OP
Nanyang Technological University
Bioscience GridPortal
University of Melbourne
Invited Lecturer
Security Monitoring System Based on MOGAS
Internship Student
University of Canterbury
PRIUS URL http//prius.ist.osaka-u.ac.jp
Augment Reality toolkit
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Towards a Global Lake Ecological Observatory
Network

• Source Tim Kratz

Yuan Yang Lake, Taiwan photo by Matt Van de
Bogert
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Collaboration in Environmental ScienceGlobal
Lake Ecological Observatory Network

• A grassroots network of
• People lake scientists, engineers, information
  technology experts
• Institutions universities, national
  laboratories, agencies
• Programs PRAGMA, AS-Forest Biogeochemistry,US-LTE
  R, TERN, KING, EcoGrid, etc.
• Instruments
• Data
• Linked by a common purpose and cyberinfrastructure
  
• With a goal of understanding lake dynamics at
  local, regional, continental, and global scales

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GLEON People GroupsTEAM SCIENCE
MEETINGS San Diego March 05 Townsville March
06 Hsinchu October 06 Lammi March 07 Montreal
August 07
GLEON Existing sites yellow New sites (RCN)
red

• Research Coordination Network (NSF award, PI P
  Hanson)
• Includes a series of key science questions
• Architectural design of coordinated global
  sensor network
• Broaden involvement at all levels new partners,
  outreach
• and education

19
Lessons Learned in Building e-Communities

• Repeated structured interactions (workshops) to
  build the community
• More often at first, twice/year now
• Unstructured/Spontaneous interactions. It was
  several years before these started
• Group focuses on enabling science outcomes
• Technology builders give tutorials on
  capabilities
• Science Technologists work side-by-side
• Infrastructure/Requirements evolves naturally
• Not Build it and they will come
• Not Gather requirements, Get stakeholder Buy In
• Culture of openness and sharing of know-how and
  software
• Continue to experiment Applications,
  Technologies, Meetings (structure, types), People
  (and students)
• Baby steps and more baby steps (Learn by doing)
• Break bread together
• Stay PRAGMAtic

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Every Presentation Is an Invitation to
CollaborationSome Ideas

• Involvement in PRAGMA Grid
• or other activities
• Biosciences - Avian Flu Metagenomics
• Geosciences
• GLEON (or CREON)
• Telesciences and
• Tile Display Walls NEEDS NETWORKING
• PRAGMA Institute for South Asia
• NCHC (Taiwan) has annual workshop for Southeast
  Asia
• U of Hyderabad is willing to host a PRAGMA
  Institute for this region!
• Exchange students and researchers
• PRIME / PRIUS
• Participation in PRAGMA Workshops
• Two times per year

21
Future PRAGMA Workshops

• 20 22 March 2007, Bangkok Thailand
• PRAGMA 12 Hosted by NECTEC and Thai National Grid
  Center,
• 20 March 2007 GEOGrid Workshop
• 23 25 September 2007, Urbana-Champaign Illinois
  USA
• PRAGMA 13 Hosted by NCSA
• Spring 2008, Hsinchu Taiwan
• PRAGMA 14 Hosted by NCHC
• Fall 2008, Penang Malaysia
• PRAGMA 15 Hosted by USM

www.pragma-grid.net
22
But Why Get Involved?

• Larger Reasons
• Science is global and collaborative
• Internet and grid designed globally
• Personal or Institutional
• Exposure to technologies and developers
• Obtain users of software
• Gain access to resources
• Develop collaborators and contacts
• Expose students/staff to new conduct of science
• Launch new programs
• Other
• Force improvements in infrastructure

23
Network ChallengesHow common are these?

• 1. Accessibility (easier in metro city)
• 2. Cost of the Bandwidth (very high)
• 3. Bound on latency (to be decreased) currently
  to USA it is 
• 4. Bilateral/multilateral agreements

24
Global Engagement Examples and Programs

• GLEON
• Global Ecological Observatory Network
• Grassroots effort to understand lake dynamics
• PRIME
• Pacific Rim Experiences for Undergraduates
• Prepares globally-enabled workforce
• PRIUS
• Pacific Rim International UniverSity at Osaka
  University
• Prepares global workforce in context of
  curriculum
• PRAGMA
• Pacific Rim Application and Grid Middleware
  Assembly
• Catalyzes collaborations
• OptIPuter
• Optical networking, Internet Protocol, computer
  storage, processing and visualization
  technologies
• Develops technologies for data intensive
  computing and collaborations

Source Philip Papadopoulos
25
Acknowledgements

• All PRAGMA members
• Slides from Phil Papadopoulos, Cindy Zheng,
  FangPang Lin, Satoshi Sekiguchi
• Gabriele Wienhausen, UCSD - PRIME
• Susumu Date and Shinji Shimojo, Osaka University
  PRIUS
• Tim Kratz, U Wisconsin Fang-Pang Lin, NCHC,
  David Hamilton, U Waikato GLEON
• Larry Smarr OptIPuter
• Wilfred Li National Biomedical Computation
  Resource
• Tony Fountain, Tim Kratz, Ken Chiu, Rick
  McMullen, Sameer Tilak - Autoscaling
• Bill Chang, NSF for planting the seed and ongoing
  encouragement
• NSF, Gordon and Betty Moore Foundation, TATRC,
  NIH
• PRAGMA is supported by the NSF (Grant No.
  INT-0216895, INT-0314015, OCI -0627026), the San
  Diego Supercomputer Center, and the California
  Institute of Telecommuncations and Information
  Technology , The University of California, San
  Diego and member institutions
• PRIME is Supported by the National Science
  Foundation under NSF INT 04007508
• AutoScaling, NEON 0446802
• The OptIPuter receives major funding from the
  National Science Foundation, cooperative
  agreement ANI-0225642 to UCSD
• TATRC for funding of avian flu international
  collaboration
• NBCR for biomedical infrastructure, funded by
  NIH

26
A Final Thought

• Peace and prosperity around the world depend on
  increasing the capacity of people to think and
  work on a global and intercultural basis. As
  technology opens borders, educational and
  professional exchange opens minds.i

http//www.youtube.com/watch?v4lY6x0S3IoA Google
PRIME students youtube
i Annual Report IIE 2005, and
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