Pacific Rim Application and Grid Middleware Assembly - PRAGMA: An Overview of Past and Future Catalyzing Global Team Science PRIME, PRIUS, GLEON - PowerPoint PPT Presentation


Title: Pacific Rim Application and Grid Middleware Assembly - PRAGMA: An Overview of Past and Future Catalyzing Global Team Science PRIME, PRIUS, GLEON


1
Pacific Rim Application and Grid Middleware
Assembly - PRAGMA An Overview of Past and
FutureCatalyzing Global Team SciencePRIME,
PRIUS, GLEON
The Minority-Serving Institutions
Cyberinfrastructure Institute MSICI2 26 June 2006
  • Peter Arzberger
  • Philip Papadopoulos, Mason Katz
  • Gabriele Wienhausen, Linda Feldman
  • Tim Kratz, Fang-Pang Lin
  • And many more

2
Why Bother with International Activities?
  • In the 21st century advances in science and
    engineering (SE) will, to a large measure,
    determine economic growth, quality of life, and
    the health of our planet. The conduct of science,
    intrinsically global, has become increasingly
    important to addressing critical global
    issuesOur participation in international SE
    collaborations and partnerships is increasingly
    important as a means of keeping abreast of
    important new insights and discoveries in science
    and engineering NSB 2000
  • What nations dont know can hurt them. The stakes
    involved in study abroad are that simple, that
    straightforward, and that important. For their
    own future and that of the nation, college
    graduates today must be internationally
    competent. Lincoln Report 2005
  • 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. Annual Report
    IIE 2005, and http//www.iie.org/ About)

3
e-sciences New Frontier Merging of Science
and Information Technology PRAGMAs Activities
Previously Unobtainable Observations
and Understanding
4
(No Transcript)
5
PRAGMAs Founding Motivations
  • Science is an intrinsically global activity
  • The grid is transforming e-science
  • computing, data, and collaboration
  • The problem remains that the grid
  • is too hard to use on a routine basis
  • Middleware software and people need to
  • interoperate

6
PRAGMA
Overarching Goals
Establish sustained collaborations and Advance
the use of the grid technologies for applications
among a community of investigators working with
leading institutions around the Pacific Rim
Working closely with established activities that
promote grid activities or the underlying
infrastructure, both in the Pacific Rim and
globally.
http//www.pragma-grid.net
7
PRAGMAs Role in the Community
  • Constructed conduit of technology, ideas,
    information, people
  • Multi-directional flow among institutions and
    communities of software, approaches
  • Developed framework for collaboration
  • Catalytic in forming teams
  • Foundation for continued and greater work
  • Built trust among members
  • Interoperability essential among people
  • Sharing of resources, ideas, and people resulted

Result many unplanned successes
8
Collaborative Frameworkfor Success
  • SARS Grid Community Pulls together to Battle
    SARS
  • GLEON Launching new community effort
  • Building on EcoGrid in Taiwan
  • Expanding Reach of Projects
  • Optiputer NEESit iGEON IVOA
  • PRIME Creating opportunities for undergraduate
    students
  • Reciprocal Projects from Jilin, Osaka
  • PRIUS Osaka University, international
    internships and PRAGMA Classes
  • KRocks Localization of Rocks in Korea

Successes that happened because PRAGMA exists
9
Conduit for Success
  • Telescience Sharing and Contributing Technology
  • Multi-way Dissemination, Integration, and
    Synthesis of Software
  • Rocks Rolls of SCE, Gfarm, Ninf-g
  • Ninf-G into NMI 8.0 (and soon Naregi CA)
  • iGAP/Gfarm, GAMESS/Nimrod
  • Creation of Laboratory for Routine Use
    Experiments
  • Grew from 8 sites to 19 sites Multiple,
    persistent experiments
  • Use and co-development of SCMSWeb and other
    software in PRAGMA (e.g. CICESE porting SCMSWeb
    to solaris system CNIC porting it to Itanium)
    and use of MOGAS (Grid Acct System from PRAGMA
    8)
  • Joint papers Issues and Methods for Building a
    Multi-Application International Grid Resource (6
    institutions on author list) Applications
  • Assisted in RPC standards at GGF, and launching
    of International Grid Trust Federation (Lead by
    AIST)

Outcomes through on-going meetings
10
Overview and ApproachProcess to Promote Routine
Use Team Science
Application-Driven Collaborations Applications Mid
dleware
Workshops and Organization Information
Exchange Planning and Review New
Collaborations New Members Expand Users Expand
Impact
Products Improved middleware Broader Use New
Collaborations Transfer Tech. Standards Publicatio
ns New Knowledge Data Access Education
Routine Use Lab/Testbed Testing
Applications Building Grid and GOC
Multiway Dissemination Key Middleware
11
PRAGMA Grid Testbed
UZurich, Switzerland
KISTI, Korea
JLU, China
TITECH, Japan
NCSA, USA
CNIC, China
AIST, Japan
SDSC, USA
KU, Thailand
OSAKAU, Japan
UoHyd, India
NCHC, Taiwan
CICESE, Mexico
USM, Malaysia
ASCC, Taiwan
UNAM, Mexico
MIMOS, Malaysia
IOIT-HCM, Vietnam
BII, Singapore
QUT, Australia
UChile, Chile
MU, Australia
NGO, Singapore
http//goc.pragma-grid.net
Source Cindy Zheng
12
PRAGMA Grid resourceshttp//goc.pragma-grid.net/p
ragma-doc/resources.html
13
Applications http//goc.pragma-grid.net
  • Real science, multiple applications
  • Resource sharing
  • Mpich-g2
  • Reservation and meta-scheduling
  • TDDFT quantum-chemistry, AIST, Japan
  • Savannah climate Model, MU, Australia
  • QM-MD quantum-mechanic, AIST, Japan
  • iGAP bioinformatic, UCSD, USA
  • Gamess-APBS organic chemistry, UZurich,
    Switzerland
  • Siesta molecular simulation, UZurich,
    Switzerland
  • Amber molecular simulation, USM, Malaysia
  • FMO quantum-mechanics, AIST, Japan
  • HPM Genomics, IOIT-HCM, Vietnam
  • (GEON, Sensor, ltdata, sensorgt)

14
SCMSWebhttp//www.opensce.org/components/SCMSWeb
  • Web-based monitoring system for clusters and grid
  • System usage
  • Performance metrics
  • Reliability
  • Grid service monitoring
  • Spot problems at a glance

15
How We Operatehttp//goc.pragma-grid.net/pragma-g
rid-status/work.htm
16
Software Layers
  • Globus 2, 3, 4
  • GT4 pre-WS, 9 sites
  • GT4 WS, 1
  • Moving requirements

17
PRAGMA Testbed Software Layers
18
iGAPhttp//pragma-goc.rocksclusters.org/applicati
ons/igap/igap.html
  • Genome annotation pipeline
  • Use CSF/Gfarm
  • Driver Wilfred Li (SDSC), Osamu Tatebe
  • (AIST), Xiaohui Wei (JLU)
  • Ready on 7 sites
  • AIST Yoshio Tanaka, Yusuke Tanimura
  • ASCC Hurng-Chun Lee, Mike Chiang
  • KISTI Jysoo Lee, Jae-Hyuck Kwak
  • NCHC Weicheng Huang, Chien-Lin Huang
  • NCSA Radha Nandkumar, Tom Roney
  • SDSC Mason Katz, Cindy Zheng
  • TITECH Satoshi Matsuoka, Hitoshi Aoki

19
Ninf-G/NMI/Rocks Integration
  • Ninf-G-2.4/NMI
  • Lead integrators
  • Yoshio Tanaka (AIST)
  • Mats Rynge (NMI)
  • Ninf-G 2.4 Rocks Roll
  • Lead integrators
  • Mason Katz (SDSC)
  • Yoshio Tanaka (AIST)

Ninf-G v2.4.0 released in NMI v8 first experience
for NMI to include non-U.S. software. Evaluate
and improve Ninf-G2 through the PRAGMA
routine-basis experiments
20
ENABLING NEW SCIENCE
PRAGMA 4
ICCS03
GAMESS and Nimrod/G
Exploiting grid technology hybrid computational
methods
Source Wibke Sudholt, Kim Baldridge, David
Abramson, Colin Enticott, Slavisa Garic
21
The PRAGMA Steering Committee
http//www.pragma-grid.net/steering_committee.htm
22
Working Groups Organize PRAGMA Efforts
  • Resources
  • Mason Katz, SDSC
  • Yoshio Tanaka, AIST
  • Biological Sciences
  • Karpjoo Jeong, Konkuk U/KISTI
  • Telescience
  • Shinji Shimojo, Osaka
  • Fang-Pang Lin, NCHC
  • Data Computing
  • Osamu Tatebe, AIST

23
Some Members and Participants
http//pragma-goc.rocksclusters.org/pragma-doc/org
.html Resource Group Album Total 85 Pictures
and another album
24
PRAGMA Future Meetings
  • PRAGMA 10
  • QPSF, JCU, APAC, Townsville, Australia 26 28
    March 2006
  • Bringing the Grid to coastal zones Held in
    conjunction with GLEON and Coral Reef
  • PRAGMA 11
  • Osaka University, Japan, approx. 15 17 October
    2006
  • Preparing Future Generations in conjunction with
    PRIUS program
  • PRAGMA 12
  • NECTEC, Kasetsart University, Thailand, Spring
    2007
  • Advancing Collaborations with ThaiGrid
  • PRAGMA 13
  • NCSA, Illinois, USA, Fall 2007
  • PRAGMA Engagements in Cyberenvironments
  • PRAGMA 14
  • NCHC, Taiwan, Spring 2008
  • Living Grids Held in conjunction with Taiwan
    Grid Activities

25
Annual Reports
  • Prepare for SCxy
  • Highlight Accomplishments
  • Promote PRIME and PRIUS
  • Describe Working Group Progress
  • Summarize Individual Institution Contributions
  • Give Additional Information, e.g. Publications,
    Sponsors

26
CCGrid - Singapore16 19 May 2006
  • Abramson D, Lynch A, Takemiya H, Tanimura Y, Date
    S, Nakamura H, Jeong K, Lee H, Wang C, Shih HL,
    Molina T, Baldridge K, Li, W, Arzberger P.
    Deploying Scientific Application on the PRAGMA
    Grid Testbed Ways, Means and Lessons. CCgrid
    2006
  • Lee B-S, Tang M, Zhang J, Soon OY, Zheng C,
    Arzberger P. Analysis of Jobs on a
    Multi-Organizational Grid Test-bed. CCGrid 2006.
  • Zheng C, Abramson D, Arzberger P, Ayuub S,
    Enticott C, Garic S, Katz M, Kwak J, Papadopoulos
    P, Phatanapherom S, Sriprayoonsakul S, Tanaka Y,
    Tanimura Y, Tatebe O, Uthayopas P. The PRAGMA
    Testbed Building a Multi-Application
    International Grid CCGrid 2006.

http//www.ctwatch.org/quarterly/articles/2006/02
27
Articles On
  • Infrastructure in Australia
  • Indias Grid Initiative
  • Cyber Science Initiative in Japan
  • CI in Korea
  • Taiwan CI for Knowledge Innovation
  • Brazil
  • South Africa
  • PRAGMA

Guest Editor Radha Nandkumar
http//www.ctwatch.org/quarterly/articles/2006/02
28
CCGrid - Singapore16 19 May 2006
  • Abramson D, Lynch A, Takemiya H, Tanimura Y, Date
    S, Nakamura H, Jeong K, Hwang S, Zhu J, Lu ZH,
    Amoreira C, Baldridge K, Lee H, Wang C, Shih HL,
    Molina T, Li, W, Arzberger P. Deploying
    Scientific Application on the PRAGMA Grid
    Testbed Ways, Means and Lessons. CCgrid 2006
  • Lee B-S, Tang M, Zhang J, Soon OY, Zheng C,
    Arzberger P. Analysis of Jobs on a
    Multi-Organizational Grid Test-bed. CCGrid 2006.
  • Huang W, Huang C-L, Wu, C-H., The Development of
    a Computational Grid Portal. Accepted CCGrid
    2006.
  • Zheng C, Abramson D, Arzberger P, Ayuub S,
    Enticott C, Garic S, Katz M, Kwak J, Papadopoulos
    P, Phatanapherom S, Sriprayoonsakul S, Tanaka Y,
    Tanimura Y, Tatebe O, Uthayopas P. The PRAGMA
    Testbed Building a Multi-Application
    International Grid CCGrid 2006.

29
Preparing the Global Workforce
30
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

31
PRIME 2005 Presentations at iGRID 2005
  • Phylogeny Determined by Incomplete Protein Domain
    Content, I.Lee, CNIC
  • A visualization of network measurements, J.Lee,
    CNIC
  • Deployment and Extension of JuxtaView for the
    Scalable Adaptive Graphics Environment, C.Cheung,
    NCHC
  • Developing the Interface between PDA and Sensors,
    O Langman, NCHC (from U Wisconsin)
  • Visualizing internet connectivity using
    Cytoscape, S.Lee, NCHC
  • Extending EcoGrid Capability, D.Leu, NCHC
  • BOINC as a Nimrod Resource for Quantum Chemistry,
    J.Hwang, Monash
  • Computational Grid Tools for Protein-Ligand
    Docking Studies, L Berstis, Monash
  • Modeling Cardiac Rhythm Alternation, J.Nevo,
    Monash
  • SNPs, Protein Structure and Disease, D.Bitton,
    Monash
  • Computational Cardiac Modeling, D.Dederko, Monash
  • The Development of A Querying System for
    Structured Metadata in a Datagrid Environment,
    J.Chen, Osaka
  • Visualization Tools for Bio-molecular Simulation,
    C.Liang, Osaka
  • A Bio-molecular Simulation Portal, E.Wang, Osaka

prime.ucsd.edu/presentations
32
Background and Motivation of PRIUS Pacific Rim
International UniverSity
  • Success of PRAGMA community
  • Accumulated Expertise and practice of building
    Highly advanced Grid applications and middleware
  • Formation of Human network of researchers and
    scientists in pacific rim
  • Activation of Educational activities
  • PRIME Providing UCSD students with an
    opportunity of experiencing, studying, and
    learning highly sophisticated technology and
    cultural background through practical RD with
    PRAGMA partners.

33
PRIUS Pacific Rim International UniverSities12
Oct 05
  • Exchange among
  • PRAGMA Sites
  • Lectures from
  • PRAMGA members

PRAGMA 11 Oct 2006 to expand PRIUS
34
Rough Approach of PRIUS
http//prius.ics.es.osaka-u.ac.jp/en/index.html
  • Establish a consistent educational program for
    graduate students.
  • On-the-Job-Training Education on PRAGMA

P.D Exchange prgm produces liquidity in human
resource
P.D
Long Abroad Internship Provide skill building
chances
Doc
Research Part
Source Susumu Date, Osaka University
Educational Part
Short Abroad Internship Offer trial opportunities
M2
Lecture course Stimulate students ambitious
M1
35
Taiwans Natural Beauty
36
Lake Metabolism Website
http//lakemetabolism.org
37
Typhoon causes water column mixing
Mixing event
Wind Speed
Precipitation (mm/5 minutes)
Source Tim Kratz
38
Of 4665 samples from 1835 lakes worldwide, 87
were supersaturated
Why?
From Cole, J. J., N. F. Caraco, G. W. Kling, and
T. K. Kratz. 1994. Carbon dioxide
supersaturation in the surface waters of lakes.
Science 2651568-1570
Source Tim Kratz
39
Programs -Australia -Canada -China -Finland -Flori
da -New Zealand -Israel -South Korea -Taiwan -Unit
ed Kingdom -Wisconsin
First meeting San Diego March 7-9, 2005
Steering Committee -Peter Arzberger, UCSD,
USA -David Hamiltion, University of Waikato, New
Zealand -Tim Kratz, University of Wisconsin,
USA -Fang-Pang Lin, NCHC, Taiwan
Source T. Kratz
40
Scalable instrumentation and cyberfrastructure is
critical
We can do this scale now
http//lakemetabolism.org
Source Tim Kratz
41
Source Tim Kratz
Problematic, but possible with todays
cyberinfrastructure
42
Scale needed to answer regional/continental
questions
Source Tim Kratz
43
(No Transcript)
44
New Paradigm Global Team Science
Kangwon U B.Kim Maintain Soyang Public Policy
U.Wisconsin T.Kratz Maintain Trout Bog Lake
Metabolism
NCHC F.P.Lin Maintain YYL Parallelize Codes
UCSD F.Vernon, S.Peltier, T.Fountain
P.Arzberger ROADNet, Telescience Moore Fnd, PRAGMA
NIGLAS B.Q Qin Maintain Taihu Physical Limnology
U.Waikato D.Hamilton Models
45
e-sciences New Frontier Merging of Science
and Information Technology PRAGMAs and GLEONs
Activities
Previously Unobtainable Observations
and Understanding
  • PRIME
  • PRIUS
  • Others
  • PRAGMA
  • GLEON
  • Framework
  • Ninf-G
  • Gfarm
  • Nimrod
  • SCMCWeb
  • MOGAS
  • KRocks
  • Others (Web service)
  • Bioscience
  • Chemistry
  • Envir .Sci.
  • Geosciences
  • Lakes (GLEON)
  • Others
  • Testbed
  • Links to resources

46
International Education Matters
  • Globalization is driving demand for an
    internationally competent workforce. Our nation's
    trade with Asia, now concentrated in California,
    has exceeded Europe since 1979 and is expected to
    approach 1 trillion a year this decade. The
    majority of future growth for industries of all
    sizes is in overseas markets today one in six
    new jobs created flows from international trade.
  • Access to good jobs will require new skills and
    competencies. Future careers in business,
    government, health care, law enforcement, and
    other good jobs will all require global knowledge
    and skills. Unfortunately, minorities are
    underrepresented in international careers and
    must be exposed to global content earlier in
    their education.
  • Solving new national and human security
    challenges, including terrorism and HIV/AIDS, and
    the ongoing problems of poverty and environmental
    degradation, will require increased knowledge of
    other world regions, cultures and languages.
  • Increased diversity in our nation's classrooms,
    workplaces, and communities, including new
    immigrants from many different parts of Asia and
    Latin America, requires greater understanding of
    the myriad cultures and histories students bring
    to school.
  • http//www.internationaled.org/why.htm

47
Acknowledgements
  • PRAGMA
  • Philip Papadopoulos (UCSD)
  • Mason Katz, Wilfred Li, Kim Baldridge, Tomas
    Molina, Cindy Zheng
  • Fang-Pang Lin (NCHC)
  • And many others at all 28 institutions, in
    particular the Steering Committee
  • GLEON
  • Tim Kratz (U WI)
  • David Hamilton (U Waikato)
  • Fang-Pang Lin (NCHC)
  • And others at 10 other sites
  • CREON
  • Sally Holbrook (UCSB)
  • Stuart Kininmonth (AIMS)
  • PRIME
  • Gabriele Wienhausen
  • Linda Feldman
  • All Host sites and students
  • PRIUS
  • Shinji Shimojo (Osaka)
  • Susumu Date (Osaka)
  • CAMERA
  • Larry Smarr
  • NSF
  • Bill Chang
  • Many others
  • Gordon and Betty Moore Foundation
  • National Institutes of Health

48
Additional Slides
49
e-sciences New Frontier New Directions and
Activities for PRAGMA
Previously Unobtainable Observations
and Understanding
  • Training
  • Grids in China
  • SE Asia, NZ
  • Central/S. Am.
  • OptIPuter
  • Collab. Env.
  • GOC
  • Gateways
  • Globus
  • Planet Lab
  • Geosciences
  • Metaproteomics driver
  • Real-time sensing
  • Access to microscope
  • Coupling chem codes
  • Links to production
  • resources (TeraGrid, others)
  • Middleware interactions
  • UK, Netherlands (Switzerland)

50
e-sciences New Frontier Merging of Science
and Information Technology PRAGMAs Activities
Previously Unobtainable Observations
and Understanding
  • PRIME
  • PRIUS
  • Others
  • PRAGMA
  • Framework
  • Ninf-G
  • Gfarm
  • Nimrod
  • SCMCWeb
  • MOGAS
  • KRocks
  • Others (Web service)
  • Bioscience
  • Chemistry
  • Envir .Sci.
  • Geosciences
  • Others
  • Testbed, AMP
  • Links to resources

51
e-sciences New Frontier Merging of Science
and Information Technology PRAGMAs Activities
Previously Unobtainable Observations
and Understanding
52
e-sciences Team Science Merging of Science
and Information Technology
Previously Unobtainable Observations
and Understanding
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Pacific Rim Application and Grid Middleware Assembly - PRAGMA: An Overview of Past and Future Catalyzing Global Team Science PRIME, PRIUS, GLEON

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Title: Pacific Rim Application and Grid Middleware Assembly - PRAGMA: An Overview of Past and Future Catalyzing Global Team Science PRIME, PRIUS, GLEON


1
Pacific Rim Application and Grid Middleware
Assembly - PRAGMA An Overview of Past and
FutureCatalyzing Global Team SciencePRIME,
PRIUS, GLEON
The Minority-Serving Institutions
Cyberinfrastructure Institute MSICI2 26 June 2006
  • Peter Arzberger
  • Philip Papadopoulos, Mason Katz
  • Gabriele Wienhausen, Linda Feldman
  • Tim Kratz, Fang-Pang Lin
  • And many more

2
Why Bother with International Activities?
  • In the 21st century advances in science and
    engineering (SE) will, to a large measure,
    determine economic growth, quality of life, and
    the health of our planet. The conduct of science,
    intrinsically global, has become increasingly
    important to addressing critical global
    issuesOur participation in international SE
    collaborations and partnerships is increasingly
    important as a means of keeping abreast of
    important new insights and discoveries in science
    and engineering NSB 2000
  • What nations dont know can hurt them. The stakes
    involved in study abroad are that simple, that
    straightforward, and that important. For their
    own future and that of the nation, college
    graduates today must be internationally
    competent. Lincoln Report 2005
  • 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. Annual Report
    IIE 2005, and http//www.iie.org/ About)

3
e-sciences New Frontier Merging of Science
and Information Technology PRAGMAs Activities
Previously Unobtainable Observations
and Understanding
4
(No Transcript)
5
PRAGMAs Founding Motivations
  • Science is an intrinsically global activity
  • The grid is transforming e-science
  • computing, data, and collaboration
  • The problem remains that the grid
  • is too hard to use on a routine basis
  • Middleware software and people need to
  • interoperate

6
PRAGMA
Overarching Goals
Establish sustained collaborations and Advance
the use of the grid technologies for applications
among a community of investigators working with
leading institutions around the Pacific Rim
Working closely with established activities that
promote grid activities or the underlying
infrastructure, both in the Pacific Rim and
globally.
http//www.pragma-grid.net
7
PRAGMAs Role in the Community
  • Constructed conduit of technology, ideas,
    information, people
  • Multi-directional flow among institutions and
    communities of software, approaches
  • Developed framework for collaboration
  • Catalytic in forming teams
  • Foundation for continued and greater work
  • Built trust among members
  • Interoperability essential among people
  • Sharing of resources, ideas, and people resulted

Result many unplanned successes
8
Collaborative Frameworkfor Success
  • SARS Grid Community Pulls together to Battle
    SARS
  • GLEON Launching new community effort
  • Building on EcoGrid in Taiwan
  • Expanding Reach of Projects
  • Optiputer NEESit iGEON IVOA
  • PRIME Creating opportunities for undergraduate
    students
  • Reciprocal Projects from Jilin, Osaka
  • PRIUS Osaka University, international
    internships and PRAGMA Classes
  • KRocks Localization of Rocks in Korea

Successes that happened because PRAGMA exists
9
Conduit for Success
  • Telescience Sharing and Contributing Technology
  • Multi-way Dissemination, Integration, and
    Synthesis of Software
  • Rocks Rolls of SCE, Gfarm, Ninf-g
  • Ninf-G into NMI 8.0 (and soon Naregi CA)
  • iGAP/Gfarm, GAMESS/Nimrod
  • Creation of Laboratory for Routine Use
    Experiments
  • Grew from 8 sites to 19 sites Multiple,
    persistent experiments
  • Use and co-development of SCMSWeb and other
    software in PRAGMA (e.g. CICESE porting SCMSWeb
    to solaris system CNIC porting it to Itanium)
    and use of MOGAS (Grid Acct System from PRAGMA
    8)
  • Joint papers Issues and Methods for Building a
    Multi-Application International Grid Resource (6
    institutions on author list) Applications
  • Assisted in RPC standards at GGF, and launching
    of International Grid Trust Federation (Lead by
    AIST)

Outcomes through on-going meetings
10
Overview and ApproachProcess to Promote Routine
Use Team Science
Application-Driven Collaborations Applications Mid
dleware
Workshops and Organization Information
Exchange Planning and Review New
Collaborations New Members Expand Users Expand
Impact
Products Improved middleware Broader Use New
Collaborations Transfer Tech. Standards Publicatio
ns New Knowledge Data Access Education
Routine Use Lab/Testbed Testing
Applications Building Grid and GOC
Multiway Dissemination Key Middleware
11
PRAGMA Grid Testbed
UZurich, Switzerland
KISTI, Korea
JLU, China
TITECH, Japan
NCSA, USA
CNIC, China
AIST, Japan
SDSC, USA
KU, Thailand
OSAKAU, Japan
UoHyd, India
NCHC, Taiwan
CICESE, Mexico
USM, Malaysia
ASCC, Taiwan
UNAM, Mexico
MIMOS, Malaysia
IOIT-HCM, Vietnam
BII, Singapore
QUT, Australia
UChile, Chile
MU, Australia
NGO, Singapore
http//goc.pragma-grid.net
Source Cindy Zheng
12
PRAGMA Grid resourceshttp//goc.pragma-grid.net/p
ragma-doc/resources.html
13
Applications http//goc.pragma-grid.net
  • Real science, multiple applications
  • Resource sharing
  • Mpich-g2
  • Reservation and meta-scheduling
  • TDDFT quantum-chemistry, AIST, Japan
  • Savannah climate Model, MU, Australia
  • QM-MD quantum-mechanic, AIST, Japan
  • iGAP bioinformatic, UCSD, USA
  • Gamess-APBS organic chemistry, UZurich,
    Switzerland
  • Siesta molecular simulation, UZurich,
    Switzerland
  • Amber molecular simulation, USM, Malaysia
  • FMO quantum-mechanics, AIST, Japan
  • HPM Genomics, IOIT-HCM, Vietnam
  • (GEON, Sensor, ltdata, sensorgt)

14
SCMSWebhttp//www.opensce.org/components/SCMSWeb
  • Web-based monitoring system for clusters and grid
  • System usage
  • Performance metrics
  • Reliability
  • Grid service monitoring
  • Spot problems at a glance

15
How We Operatehttp//goc.pragma-grid.net/pragma-g
rid-status/work.htm
16
Software Layers
  • Globus 2, 3, 4
  • GT4 pre-WS, 9 sites
  • GT4 WS, 1
  • Moving requirements

17
PRAGMA Testbed Software Layers
18
iGAPhttp//pragma-goc.rocksclusters.org/applicati
ons/igap/igap.html
  • Genome annotation pipeline
  • Use CSF/Gfarm
  • Driver Wilfred Li (SDSC), Osamu Tatebe
  • (AIST), Xiaohui Wei (JLU)
  • Ready on 7 sites
  • AIST Yoshio Tanaka, Yusuke Tanimura
  • ASCC Hurng-Chun Lee, Mike Chiang
  • KISTI Jysoo Lee, Jae-Hyuck Kwak
  • NCHC Weicheng Huang, Chien-Lin Huang
  • NCSA Radha Nandkumar, Tom Roney
  • SDSC Mason Katz, Cindy Zheng
  • TITECH Satoshi Matsuoka, Hitoshi Aoki

19
Ninf-G/NMI/Rocks Integration
  • Ninf-G-2.4/NMI
  • Lead integrators
  • Yoshio Tanaka (AIST)
  • Mats Rynge (NMI)
  • Ninf-G 2.4 Rocks Roll
  • Lead integrators
  • Mason Katz (SDSC)
  • Yoshio Tanaka (AIST)

Ninf-G v2.4.0 released in NMI v8 first experience
for NMI to include non-U.S. software. Evaluate
and improve Ninf-G2 through the PRAGMA
routine-basis experiments
20
ENABLING NEW SCIENCE
PRAGMA 4
ICCS03
GAMESS and Nimrod/G
Exploiting grid technology hybrid computational
methods
Source Wibke Sudholt, Kim Baldridge, David
Abramson, Colin Enticott, Slavisa Garic
21
The PRAGMA Steering Committee
http//www.pragma-grid.net/steering_committee.htm
22
Working Groups Organize PRAGMA Efforts
  • Resources
  • Mason Katz, SDSC
  • Yoshio Tanaka, AIST
  • Biological Sciences
  • Karpjoo Jeong, Konkuk U/KISTI
  • Telescience
  • Shinji Shimojo, Osaka
  • Fang-Pang Lin, NCHC
  • Data Computing
  • Osamu Tatebe, AIST

23
Some Members and Participants
http//pragma-goc.rocksclusters.org/pragma-doc/org
.html Resource Group Album Total 85 Pictures
and another album
24
PRAGMA Future Meetings
  • PRAGMA 10
  • QPSF, JCU, APAC, Townsville, Australia 26 28
    March 2006
  • Bringing the Grid to coastal zones Held in
    conjunction with GLEON and Coral Reef
  • PRAGMA 11
  • Osaka University, Japan, approx. 15 17 October
    2006
  • Preparing Future Generations in conjunction with
    PRIUS program
  • PRAGMA 12
  • NECTEC, Kasetsart University, Thailand, Spring
    2007
  • Advancing Collaborations with ThaiGrid
  • PRAGMA 13
  • NCSA, Illinois, USA, Fall 2007
  • PRAGMA Engagements in Cyberenvironments
  • PRAGMA 14
  • NCHC, Taiwan, Spring 2008
  • Living Grids Held in conjunction with Taiwan
    Grid Activities

25
Annual Reports
  • Prepare for SCxy
  • Highlight Accomplishments
  • Promote PRIME and PRIUS
  • Describe Working Group Progress
  • Summarize Individual Institution Contributions
  • Give Additional Information, e.g. Publications,
    Sponsors

26
CCGrid - Singapore16 19 May 2006
  • Abramson D, Lynch A, Takemiya H, Tanimura Y, Date
    S, Nakamura H, Jeong K, Lee H, Wang C, Shih HL,
    Molina T, Baldridge K, Li, W, Arzberger P.
    Deploying Scientific Application on the PRAGMA
    Grid Testbed Ways, Means and Lessons. CCgrid
    2006
  • Lee B-S, Tang M, Zhang J, Soon OY, Zheng C,
    Arzberger P. Analysis of Jobs on a
    Multi-Organizational Grid Test-bed. CCGrid 2006.
  • Zheng C, Abramson D, Arzberger P, Ayuub S,
    Enticott C, Garic S, Katz M, Kwak J, Papadopoulos
    P, Phatanapherom S, Sriprayoonsakul S, Tanaka Y,
    Tanimura Y, Tatebe O, Uthayopas P. The PRAGMA
    Testbed Building a Multi-Application
    International Grid CCGrid 2006.

http//www.ctwatch.org/quarterly/articles/2006/02
27
Articles On
  • Infrastructure in Australia
  • Indias Grid Initiative
  • Cyber Science Initiative in Japan
  • CI in Korea
  • Taiwan CI for Knowledge Innovation
  • Brazil
  • South Africa
  • PRAGMA

Guest Editor Radha Nandkumar
http//www.ctwatch.org/quarterly/articles/2006/02
28
CCGrid - Singapore16 19 May 2006
  • Abramson D, Lynch A, Takemiya H, Tanimura Y, Date
    S, Nakamura H, Jeong K, Hwang S, Zhu J, Lu ZH,
    Amoreira C, Baldridge K, Lee H, Wang C, Shih HL,
    Molina T, Li, W, Arzberger P. Deploying
    Scientific Application on the PRAGMA Grid
    Testbed Ways, Means and Lessons. CCgrid 2006
  • Lee B-S, Tang M, Zhang J, Soon OY, Zheng C,
    Arzberger P. Analysis of Jobs on a
    Multi-Organizational Grid Test-bed. CCGrid 2006.
  • Huang W, Huang C-L, Wu, C-H., The Development of
    a Computational Grid Portal. Accepted CCGrid
    2006.
  • Zheng C, Abramson D, Arzberger P, Ayuub S,
    Enticott C, Garic S, Katz M, Kwak J, Papadopoulos
    P, Phatanapherom S, Sriprayoonsakul S, Tanaka Y,
    Tanimura Y, Tatebe O, Uthayopas P. The PRAGMA
    Testbed Building a Multi-Application
    International Grid CCGrid 2006.

29
Preparing the Global Workforce
30
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

31
PRIME 2005 Presentations at iGRID 2005
  • Phylogeny Determined by Incomplete Protein Domain
    Content, I.Lee, CNIC
  • A visualization of network measurements, J.Lee,
    CNIC
  • Deployment and Extension of JuxtaView for the
    Scalable Adaptive Graphics Environment, C.Cheung,
    NCHC
  • Developing the Interface between PDA and Sensors,
    O Langman, NCHC (from U Wisconsin)
  • Visualizing internet connectivity using
    Cytoscape, S.Lee, NCHC
  • Extending EcoGrid Capability, D.Leu, NCHC
  • BOINC as a Nimrod Resource for Quantum Chemistry,
    J.Hwang, Monash
  • Computational Grid Tools for Protein-Ligand
    Docking Studies, L Berstis, Monash
  • Modeling Cardiac Rhythm Alternation, J.Nevo,
    Monash
  • SNPs, Protein Structure and Disease, D.Bitton,
    Monash
  • Computational Cardiac Modeling, D.Dederko, Monash
  • The Development of A Querying System for
    Structured Metadata in a Datagrid Environment,
    J.Chen, Osaka
  • Visualization Tools for Bio-molecular Simulation,
    C.Liang, Osaka
  • A Bio-molecular Simulation Portal, E.Wang, Osaka

prime.ucsd.edu/presentations
32
Background and Motivation of PRIUS Pacific Rim
International UniverSity
  • Success of PRAGMA community
  • Accumulated Expertise and practice of building
    Highly advanced Grid applications and middleware
  • Formation of Human network of researchers and
    scientists in pacific rim
  • Activation of Educational activities
  • PRIME Providing UCSD students with an
    opportunity of experiencing, studying, and
    learning highly sophisticated technology and
    cultural background through practical RD with
    PRAGMA partners.

33
PRIUS Pacific Rim International UniverSities12
Oct 05
  • Exchange among
  • PRAGMA Sites
  • Lectures from
  • PRAMGA members

PRAGMA 11 Oct 2006 to expand PRIUS
34
Rough Approach of PRIUS
http//prius.ics.es.osaka-u.ac.jp/en/index.html
  • Establish a consistent educational program for
    graduate students.
  • On-the-Job-Training Education on PRAGMA

P.D Exchange prgm produces liquidity in human
resource
P.D
Long Abroad Internship Provide skill building
chances
Doc
Research Part
Source Susumu Date, Osaka University
Educational Part
Short Abroad Internship Offer trial opportunities
M2
Lecture course Stimulate students ambitious
M1
35
Taiwans Natural Beauty
36
Lake Metabolism Website
http//lakemetabolism.org
37
Typhoon causes water column mixing
Mixing event
Wind Speed
Precipitation (mm/5 minutes)
Source Tim Kratz
38
Of 4665 samples from 1835 lakes worldwide, 87
were supersaturated
Why?
From Cole, J. J., N. F. Caraco, G. W. Kling, and
T. K. Kratz. 1994. Carbon dioxide
supersaturation in the surface waters of lakes.
Science 2651568-1570
Source Tim Kratz
39
Programs -Australia -Canada -China -Finland -Flori
da -New Zealand -Israel -South Korea -Taiwan -Unit
ed Kingdom -Wisconsin
First meeting San Diego March 7-9, 2005
Steering Committee -Peter Arzberger, UCSD,
USA -David Hamiltion, University of Waikato, New
Zealand -Tim Kratz, University of Wisconsin,
USA -Fang-Pang Lin, NCHC, Taiwan
Source T. Kratz
40
Scalable instrumentation and cyberfrastructure is
critical
We can do this scale now
http//lakemetabolism.org
Source Tim Kratz
41
Source Tim Kratz
Problematic, but possible with todays
cyberinfrastructure
42
Scale needed to answer regional/continental
questions
Source Tim Kratz
43
(No Transcript)
44
New Paradigm Global Team Science
Kangwon U B.Kim Maintain Soyang Public Policy
U.Wisconsin T.Kratz Maintain Trout Bog Lake
Metabolism
NCHC F.P.Lin Maintain YYL Parallelize Codes
UCSD F.Vernon, S.Peltier, T.Fountain
P.Arzberger ROADNet, Telescience Moore Fnd, PRAGMA
NIGLAS B.Q Qin Maintain Taihu Physical Limnology
U.Waikato D.Hamilton Models
45
e-sciences New Frontier Merging of Science
and Information Technology PRAGMAs and GLEONs
Activities
Previously Unobtainable Observations
and Understanding
  • PRIME
  • PRIUS
  • Others
  • PRAGMA
  • GLEON
  • Framework
  • Ninf-G
  • Gfarm
  • Nimrod
  • SCMCWeb
  • MOGAS
  • KRocks
  • Others (Web service)
  • Bioscience
  • Chemistry
  • Envir .Sci.
  • Geosciences
  • Lakes (GLEON)
  • Others
  • Testbed
  • Links to resources

46
International Education Matters
  • Globalization is driving demand for an
    internationally competent workforce. Our nation's
    trade with Asia, now concentrated in California,
    has exceeded Europe since 1979 and is expected to
    approach 1 trillion a year this decade. The
    majority of future growth for industries of all
    sizes is in overseas markets today one in six
    new jobs created flows from international trade.
  • Access to good jobs will require new skills and
    competencies. Future careers in business,
    government, health care, law enforcement, and
    other good jobs will all require global knowledge
    and skills. Unfortunately, minorities are
    underrepresented in international careers and
    must be exposed to global content earlier in
    their education.
  • Solving new national and human security
    challenges, including terrorism and HIV/AIDS, and
    the ongoing problems of poverty and environmental
    degradation, will require increased knowledge of
    other world regions, cultures and languages.
  • Increased diversity in our nation's classrooms,
    workplaces, and communities, including new
    immigrants from many different parts of Asia and
    Latin America, requires greater understanding of
    the myriad cultures and histories students bring
    to school.
  • http//www.internationaled.org/why.htm

47
Acknowledgements
  • PRAGMA
  • Philip Papadopoulos (UCSD)
  • Mason Katz, Wilfred Li, Kim Baldridge, Tomas
    Molina, Cindy Zheng
  • Fang-Pang Lin (NCHC)
  • And many others at all 28 institutions, in
    particular the Steering Committee
  • GLEON
  • Tim Kratz (U WI)
  • David Hamilton (U Waikato)
  • Fang-Pang Lin (NCHC)
  • And others at 10 other sites
  • CREON
  • Sally Holbrook (UCSB)
  • Stuart Kininmonth (AIMS)
  • PRIME
  • Gabriele Wienhausen
  • Linda Feldman
  • All Host sites and students
  • PRIUS
  • Shinji Shimojo (Osaka)
  • Susumu Date (Osaka)
  • CAMERA
  • Larry Smarr
  • NSF
  • Bill Chang
  • Many others
  • Gordon and Betty Moore Foundation
  • National Institutes of Health

48
Additional Slides
49
e-sciences New Frontier New Directions and
Activities for PRAGMA
Previously Unobtainable Observations
and Understanding
  • Training
  • Grids in China
  • SE Asia, NZ
  • Central/S. Am.
  • OptIPuter
  • Collab. Env.
  • GOC
  • Gateways
  • Globus
  • Planet Lab
  • Geosciences
  • Metaproteomics driver
  • Real-time sensing
  • Access to microscope
  • Coupling chem codes
  • Links to production
  • resources (TeraGrid, others)
  • Middleware interactions
  • UK, Netherlands (Switzerland)

50
e-sciences New Frontier Merging of Science
and Information Technology PRAGMAs Activities
Previously Unobtainable Observations
and Understanding
  • PRIME
  • PRIUS
  • Others
  • PRAGMA
  • Framework
  • Ninf-G
  • Gfarm
  • Nimrod
  • SCMCWeb
  • MOGAS
  • KRocks
  • Others (Web service)
  • Bioscience
  • Chemistry
  • Envir .Sci.
  • Geosciences
  • Others
  • Testbed, AMP
  • Links to resources

51
e-sciences New Frontier Merging of Science
and Information Technology PRAGMAs Activities
Previously Unobtainable Observations
and Understanding
52
e-sciences Team Science Merging of Science
and Information Technology
Previously Unobtainable Observations
and Understanding
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