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PRAGMA 15 (10/24/2008) Resources Group Pacific Rim Application and Grid Middleware Assembly http://www.pragma-grid.net http://goc.pragma-grid.net Resources Group Work Since PRAGMA 14

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Page 1: PRAGMA 15 (10/24/2008) Resources Group Pacific Rim Application and Grid Middleware Assembly Resources

PRAGMA 15 (10/24/2008)

Resources Group

Pacific Rim Application and Grid Middleware Assemblyhttp://www.pragma-grid.nethttp://goc.pragma-grid.net

Resources Group WorkSince PRAGMA 14

Page 2: PRAGMA 15 (10/24/2008) Resources Group Pacific Rim Application and Grid Middleware Assembly Resources

PRAGMA 15 (10/24/2008)

PRAGMA GridPRAGMA Grid

27 institutions in 17 countries/regions, 24 compute sites (+ 14 in preparation)

UZHSwitzerland

NECTECThaiGridThailand

UoHydIndia

MIMOSUSMMalaysia

CUHKHongKong

ASGCNCHCTaiwan

HCMUTHUTIOIT-HCMVietnam

AISTOsakaUUTsukubaTITechJapan

BIIIHPCNGONTUSingapore

MUAustralia

APACQUTAustralia

KISTIKorea

JLUChina

SDSCUSA

CICESEMexico

UNAMMexico

UChileChile

UUtahUSA

NCSAUSA BU

USA

CeNAT-ITCRCosta Rica

BESTGridNew Zealand

CNICGUCASChinaLZU

China

UPRMPuerto Rico

UZHSwitzerland

LZUChina

ASTIPhilippines

SKUUIIndonesia

Page 3: PRAGMA 15 (10/24/2008) Resources Group Pacific Rim Application and Grid Middleware Assembly Resources

PRAGMA 15 (10/24/2008)

PRAGMA Grid Members and Teamhttp://goc.pragma-grid.net/wiki/index.php/Site_status_and_tasks

• Sites– 19 sites from PRAGMA member institutions– 7 sites from Non-PRAGMA member institutions– 23 sites contributed compute clusters

• Team members– 222 and growing– one management contact / site– 1~3 technical support contact / site– 1~4 application drivers / application– 1~5/Middleware development teams

Page 4: PRAGMA 15 (10/24/2008) Resources Group Pacific Rim Application and Grid Middleware Assembly Resources

PRAGMA 15 (10/24/2008)

PRAGMA Grid Compute Resourceshttp://goc.pragma-grid.net/pragma-doc/computegrid.html

Page 5: PRAGMA 15 (10/24/2008) Resources Group Pacific Rim Application and Grid Middleware Assembly Resources

PRAGMA 15 (10/24/2008)

Applications http://goc.pragma-grid.net/wiki/index.php/Applications

• 13 applications: (8 by PRIME)– Structure biology

• Phaser/Nimrod (MU, Australia)– Drug analysis

• EMSAM (PRIME)– Bio-medical research

• Cardiac output (PRIME)• Cardial mechanics (PRIME)• Ventricular Myocyte model (PRIME)

– Genomics and meta-genomics• Avian Flu Grid/CSF

(SDSC/CNIC/JLU/UTsukuba/…)– Computational fluid dynamics

• e-AIRS (KISTI, Korea)– Environmental Science

• CSTFT/Ninf-G (UPRM, Puerto Rico)– Organic-chemistry

• Enediynes (PRIME)• Virtual screen SHP-1 and SHP-2 (PRIME)• Virtual screen SSH-2 (PRIME)

– Computer Science• Image Analysis (UMelb, Australia)

– Nanotechnology• Nanoengineering simulation (PRIME)

Page 6: PRAGMA 15 (10/24/2008) Resources Group Pacific Rim Application and Grid Middleware Assembly Resources

PRAGMA 15 (10/24/2008)

• Phaser/Nimrod-G – structural biology– Australian enterpriseGrid– APAC Grid– OSG

• FermilabGrid• RENCI (VO)

• Submitted a paper to an IEEE conference

Grid Interoperation Experimentshttp://goc.pragma-grid.net/wiki/index.php/Run_Phaser_on_PRAGMA_grid_and_OSG

Page 7: PRAGMA 15 (10/24/2008) Resources Group Pacific Rim Application and Grid Middleware Assembly Resources

PRAGMA 15 (10/24/2008)

SCMSWeb-Condor Interfacehttp://goc.pragma-grid.net/wiki/index.php/Condor-PRAGMA_Interoperation

• SCMSWeb interface Condor-GSCMSWeb provides system info, Condor-g dispatchs jobs

accordingly• Collaboration between PRAGMA and Condor

– ThaiGrid• Project lead• Interface development work

– SDSC• Coordination• Resource support

– KISTI• Application testing

– Condor• Interface development support

• Current Status– Running on rocks-153.sdsc.edu– Successfully tested with application– Working on improving performance and fault-tolerance

• Submitted a paper to an IEEE conference

Page 8: PRAGMA 15 (10/24/2008) Resources Group Pacific Rim Application and Grid Middleware Assembly Resources

PRAGMA 15 (10/24/2008)

SCMSWeb New Features

• Automatic email alert deployed and operational– According to probe failure status– 3 times a week– Email to site admins and Cindy Zheng

• Bi-directional bandwidth measurements using iPerf– Deployed on 11 systems– Need to investigate problems with some sites in

one direction– Need to deploy to all systems

• Software catalog– Implemented for 7 software so far

• Amber, APBS, AutoDock, NAMD• Ninf-G• Intel-C, Intel-Fortran

– Deployed on 11 systems– Need to deploy to all systems– Add more software as needed

Page 9: PRAGMA 15 (10/24/2008) Resources Group Pacific Rim Application and Grid Middleware Assembly Resources

PRAGMA 15 (10/24/2008)

PRAGMA-CA and VOMS• PRAGMA-UCSD CA (https://goc.pragma-grid.net/ca)

– Lead by Yoshio Tanaka, Mason Katz and Cindy Zheng– Built according to the most current APGrid recommendations and guidelines– Naregi-CA developed new version– Setup at SDSC– Accredited by APGrid PMA in April, 2008– Included in IGTF distribution in July, 2008– Issued 10 host certs for PRAGMA grid services at SDSC

• Compute clusters• GOC server• VOMS server• Condor server• Portals

• VOMS (http://goc.pragma-grid.net/wiki/index.php/VOMRS)– Lead by Vladimir Mencl (BeSTGrid) and Cindy Zheng– Setup VOMRS server at SDSC– Focused on group mapping to local account– Successfully tested with BeSTGrid as a client system– Documented for users and site administrators– Issues need to be discussed before wider deployment

Page 10: PRAGMA 15 (10/24/2008) Resources Group Pacific Rim Application and Grid Middleware Assembly Resources

PRAGMA 15 (10/24/2008)

Gfarm Grid File Systemhttp://datafarm.apgrid.org

• Lead by UTsukuba, Japan• Open source development at SourceForge.net• New version V 2.1.1 is ready• Tatebe-san setup Meta-server at SDSC (rocks-

45.sdsc.edu), also a file server• AIST setup a file server• Documented for users and site admins

http://goc.pragma-grid.net/wiki/index.php/Gfarm_Data_Grid

• Need more testing and with application Avian-Flu Grid

Page 11: PRAGMA 15 (10/24/2008) Resources Group Pacific Rim Application and Grid Middleware Assembly Resources

PRAGMA 15 (10/24/2008)

Tentative agenda of the breakouts

Breakout 1 14:00-15:30 (today)• VOMS in PRAGMA Grid (40 min)• PRAGMA Data Grid (20 min)• SCMSWeb (20 min)

Breakout 2 14:30-16:00 (tomorrow)• Reports from PRAGMA applications (40 min)

– e-AIRs– Phaser– Other application talks?

• Introduction of A*STAR Digital Nervous System (iHPC) (20 min)– FusionCloud

• Open Discussions : Future direction of PRAGMA Grid (30 min)– Theme: How make it easier for all players (esp. Cindy)– Virtualization, VOMS, Portals, etc.– Supporting GEO/Tele applications


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