Welcome to PRAGMA 15

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Welcome to PRAGMA 15

• Update from PRAGMA 14
• 23 October 2008

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March 2008 PRAGMA 14Taichong, Taiwan
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PRAGMA
A Practical Collaborative Framework
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
http//www.pragma-grid.net
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Working Groups Organize Activities
Resources
Biosciences
GEO
Telescience
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Resources and Data Working Group

• Yoshio Tanaka, AIST
• Mason Katz, UCSD
• Cindy Zheng, UCSD

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PRAGMA Grid
UZH Switzerland
AIST OsakaU UTsukuba TITech Japan
UZH Switzerland
JLU China
NCSA USA
CNIC GUCAS China
KISTI Korea
BU USA
UUtah USA
LZU China
LZU China
SDSC USA
ASGC NCHC Taiwan
CUHK HongKong
UPRM Puerto Rico
UoHyd India
CICESE Mexico
ASTI Philippines
UNAM Mexico
NECTEC ThaiGrid Thailand
HCMUT HUT IOIT-HCM Vietnam
CeNAT-ITCR Costa Rica
SKU UI Indonesia
MIMOS USM Malaysia
APAC QUT Australia
BII IHPC NGO NTU Singapore
UChile Chile
MU Australia
BESTGrid New Zealand
27 institutions in 17 countries/regions, 24
compute sites ( 14 in preparation) Active
Participation
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Since March 2008

• PRAGMA CA now exists
• VOMS prototype established between Bestgrid and
  SDSC Aid in adding researchers to projects
• Condor / SCMSWeb Integration
• ThaiGrid, KISTI, U WI, SDSC (DEMO)
• Interoperations study between PRAGMA and Open
  Science Grid (OSG), structural biology
  application

Australian Enterprise Grid
Interoperation Workflow
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Telescience Working Group

• Shinji Shimojo, Osaka University
• Fang-Pang Lin, NCHC

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I have seen the future, and it is nowNam June
Paik, Korean artist, invented video art

• Chancellor Monash U, upon seeing HD Video
  presentation on Multi-Scale Modeling of the
  Heart, a MURPA seminar
• Three dimensional video teleconferencing between
  Osaka and NCHC
• Developed algorithms and tested creating and
  streaming of 3D data
• Used Covise

Conductor and Ensemble in different
locations Monash U
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Developed National Agricultural Research Center
Prashant Manandhar's Presentation, Internet 2,
October 2008 (New Orleans) http//internet2.edu/in
ternational/resources/events/2008/2008FMM-SIG.html
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GLEON The Documentary UCTV
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Biosciences Working Group

• Wilfred Li, UCSD
• Habibah Wahab, USM

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Two PRIME Examplesand More
Opal OP, Dock Grid Philip Pham, PRIME 2008,
Osaka Interaction of SSH2 with an inhibitor Used
PRAGMA Testbed
Avian Flu Grid Lily Chang PRIME 2006,
CNIC Relaxed Complex Scheme Neuraminidase Being
Tested Used PRAGMA Testbed

• Avian Flu Grid Development
• Gfarm 2.0 ready to be tested
• Opal CSF4 interaction
• More

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GEO Working Group

• Ryosuke Nakamura, AIST
• Guey Shin Chang, NARL
• Ashraf Memon, UCSD
• Sornthep Vannarat, NECTEC

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Interoperability between Metadata Catalogs
GEON
GEO Grid
ADN
Geogrid Catalog
GEON Catalog
600 scenes/day
Catalog Service Web
Catalog Service Web Adapter
RESPONSE
Storage
SRB
RESPONSE
RESPONSE
WMS URL
WMS URL
WMS Server
WMS Server
Source Ashraf Memon, based on discussions with
Ryosuke Nakamura DEMO at PRAGMA 15
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PRIME, PRIUS, MURPA

• Research and Cultural Experiences for Tomorrows
  Leaders

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Students Ambassadors
CNIC
NCHC
Osaka
USM
UA, UW
Monash
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PRIME Host and Mentor Sites
U Zurich Switzerland
CNIC China
Osaka U Japan
U WI USA
UCSD USA
NCHC Taiwan
UoHyd India
USM Malaysia
U Auckland U Waikato New Zealand
Monash U Australia
Currently there are 4 host sites Osaka, NCHC,
Monash, CNIC New in 2008 USM, NTU, U Auckland,
U Waikato, New 2009 U Hyderabad And new US
mentoring sites U WI
Source Cindy Zheng
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Publications by PRIME and PRIUS Students

• Chu R Tenedorio D, Schulze J (UCSD) Date S,
  Kuwabara S, Nakazawa A, Takemura H (Osaka) Lin
  FP (NCHC). Optimized Rendering for a
  Three-Dimensional Videoconferencing System. IEEE
  escience (accepted)
• Pham P Levesque M (UCSD) Ichikawa K, Date S
  (Osaka), Haga J (UCSD). Identification of a
  Specific Inhibitor for the Dual-Specificity
  Enzyme SSH-2 via Docking Experiments on the Grid.
  IEEE escience (accepted)
• Han S Levesque M (UCSD) Ichikawa K, Date S
  (Osaka), Haga J (UCSD). Virtual Screening for
  SHP-2 Specific Inhibitors Using Grid Computing.
  IEEE escience (accepted)
• Levesque JL, Ichikawa K, Date S, Haga JH. Design
  of a Grid Service-based Platform for In Silico
  Protein-Ligand Screening. Computer Methods and
  Programs in Biomedicine (accepted Aug08).
• Cheng LS, Amaro RE, Xu D, Li WW, Arzberger PW,
  McCammon JA. Ensemble-based Virtual Screening
  Reveals Novel Antiviral Compounds for Avian
  Influenza Neuraminidase. JMC. (Accepted April
  2008)

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PRIUS

• Hosted PRIUS symposium in August 2008
• Compare programs in PRIME, PRIUS, MURPA, and
  PRIUSM
• Continued program
• PRIUS student to USM will have demo!

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MURPAMonash University Research Project
AbroadBased on PRIME and PRIUS

• A new research oriented summer mode
  undergraduate project abroad
• Collaborative research between Monash academics
  and peers overseas
• A video conference based seminar stream from
  leading international researchers
• Initial target is UCSD, but will expand to more
  PRAGMA members.

• Four students will start
• Remove visualization
• Biosciences on Grid
• Heart Science
• Workflow

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Highlighted Accomplishments
Open Source DataTurbine and SAGE/Rocks-Based
OptIPortals

• Streaming Underwater Video
• NCHC, UCSD, NMMBA
• Bridging Grid Islands
• Monash, PRAGMA Grid
• Grid Monitoring in Applications and Resources
• ThaiGrid, Kasetsart, BioSci WG
• PRAGMA CA and VOMS
• BestGrid, SDSC
• Monash University Research Project Abroad
• Expanding the PRAGMA Community
• NCHC (Shakadang Trail,Taroko Gorge, Hualien
  National Park), U Zurich, USM

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SC08

• PRAGMA Day
• Wednesday 19 November
• Presentations NCHC booth 3 pm to 5 pm
• Dinner (Location TBD)

• Many PRAGMA members
• Presentations by members throughout the meeting

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IEEE E-Science ConferencePRAGMA Workshop (9
December 2008) Indianapolis
Program Committee Kum Won Cho (Chair), David
Abramson, Yoshio Tanaka, Radha Nandkumar,
Karpjoo Jeong, Susumu Date, Peter Arzberger

• Sriprayoonsakul, S P Uthayopos (TNGC) J Lee
  (KISTI) C Zheng (SDSC) M Livney, J Frey (U WI).
  Interfacing SCMSWeb with Condor-G - A Joint
  PRAGMA-Condor Effort
• B Bethwaite, D Abramson, A Buckle (Monash U).
  Grid Interoperability An Experiment in Bridging
  Grid Islands
• Chu, R D. Tenedorio, J Schulze (UCSD) S Date, S
  Kuwabara, A Nakazawa, H Takemura (Osaka) FP Lin
  (NCHC). Optimized Rendering for a
  Three-Dimensional Videoconferencing System.
• Pham, P M Levesque (UCSD) K Ichikawa, S Date
  (Osaka), J Haga (UCSD). Identification of a
  Specific Inhibitor for the Dual-Specificity
  Enzyme SSH-2 via Docking Experiments on the Grid.
• Han, S M Levesque (UCSD) K Ichikawa, S Date
  (Osaka), J Haga (UCSD). Virtual Screening for
  SHP-2 Specific Inhibitors Using Grid Computing
• Ding, Z X Wei, Y Zhu, Y Yuan (Jilin) W Li
  (NBCR, UCSD), O Tatebe (U Tsukuba). Grid
  Workflows and Data-aware Plugins for Improved
  Metaschedulers CSF4
• Clementi, L S Krishnan, W Goodman, J Ren, W Li
  (SDSC), P Arzberger (UCSD) G Vareille, S
  Dallakyan, M Sanner (TSRI). Service Oriented
  Architecture for Managing Workflows of Avian Flu
  Grid
• Date, S S Miyanaga, K Ichikawa (Kansai), S
  Shimojo (Osaka, NIICT), H Takemura, T Fujiwara.
  PRIUS An Educational Framework on PRAGMA toward
  Fostering of Globally-leading Researchers in
  Integrated Sciences
• Moon, J C Kim (SNU) Y Kim (Sookmyung) KW Cho
  (KISTI). CFD Cyber Education Service Using
  Cyberinfrastructure

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Future Discovery and Community Research

• High Performance Computing
• Data, Data Analysis, Visualization
• Learning Workforce Development
• Virtual Organizations for Distributed
  Communities
• Cyberinfrastructure enables distributed knowledge
  communities that collaborate and communicate
  across disciplines, distances and cultures, to
  become virtual organizations that transcend
  geographic and institutional boundaries (A.Bement)

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Understanding Organizational Practices in
Distributed Projects

• UK e-science project
• Examines communication and collaboration
  practices
• Understanding how technologies and work practices
  are used and are evolving in light of growing
  scale, increasing complexity and distributed
  nature of e-science
• Two components
• Ethnographic studies IB, OMII, CARMEN, PRAGMA
• Focused on management and organizational
  practices that may impact on designing for
  usability
• Dr Didi (Dimitrina) Spencer
• Techniques identify, develop and evaluate
  existing and novel design techniques.

At this meeting we will take first step, in
Resources WG Grace Hong will be conducting this
work.
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Embedding e-Science

• http//www.oerc.ox.ac.uk/research
• /embedding-e-science
• User engagement PROCESS
• Observation Interview
• Videotaping Photographs
• Any publication Discuss with
• PRAGMA first

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Agenda Steering Committee

• Strategic Direction for PRAGMA
• Business Activities
• Membership IOIT VN (VNGrid)
• Future meetings
• PRAGMA 16 KISTI, 23(Mon) - 25(Wed) March 2009
• PRAGMA 17 Application from IOIT VN (Fall 2009)
• PRAGMA Institutes
• Center of Excellence of Pacific-rim in cyber
  Education and Research Collaboration (CEPERC)
• Consider designing Southeast Asia International
  Joint Research Collaboration and Training Program
  as PRAGMA Institute (1-5 December 2008)
• Membership Expectation
• Rotation of Steering Committee
• Letter of Support
• PRAGMA In the Community
• SC08

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Challenge Virtualization

• What role can PRAGMA play as many groups explore
  virtualization?

Fundamental shift in using resources Bring your
own environment
Two different Virtual Computers on a single
physical host Network Accessible Source P
Papadopoulos
PRAGMA as a Conduit of ideas And technology
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Integrate Remote and Land-based Measurements
Lake Rotorua in New Zealand
Deniz Özkundakci
Joint WG meeting
Aster data, Source R. Nakamura Color is surface
temp, centigrade
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Challenge Education
Is there a larger, coordinated role PRAGMA can
play in education?
Coordination and expansion of PRIME, PRIUS,
MURPA, PRIUSM?
Interested? Meet at lunch today
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Demosby WG
Name Institution Topic
N. Yamamoto AIST Tsukuba-GAMA Flexible and Easy Interface for GSI
Somsak S TNGC Interfacing SCMSWeb with Condor-G
Chan HY USM Distributed Database Management System
Y. Watashiba Kyoto Remote Visualization System
S. Kato Hyogo U. of Health Sciences Weather Monitoring System on P2P Network
H. Wahab, Y. Kusumoto USM/Osaka PRIUS PRIUS Projects of Internship Trainee
W. Li UCSD Avian Flu Grid
R. Nakamura AIST An Interoperable Data Search between GEON and GEO Grid through CSW
Koh Hock Lye USM Modeling Mosquitoes Distribution
JB Moon, H Choi KISTI CFD Cyber Education Service
Phua K.K. USM Blender 3D Render-Frams
Resources
Tele- science
Bio- science
GEO
NEW
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TransitionofDeputy Chairs
Piyawut Joe Srichaikul
Habibah Wahab
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Thank You

• Host Institution USM
• Supporting Institutions MOSTI,
• Sponsors HP, Teliti, SGI, Mimos, Jaring, BT
  Frontline, Techsource
• Many Committees
• Local Organizing Committee
• Working Committee
• Logistics and Social Committee
• Supporting Committee
• Organizing Committee

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Societal Problems Wisconsin Idea

• The boundaries of the university should be the
  boundaries of the state, and that research
  conducted at the University of Wisconsin System
  should be applied to solve problems and improve
  health, quality of life, the environment and
  agriculture for all citizens of the state.
• UW President Charles Van Hise in 1904.
• Van Hise declared that he would "never be content
  until the beneficent influence of the university
  reaches every family in the state."