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Oklahoma Cyberinfrastructure Presenter: Henry Neeman Director, OU Supercomputing Center for Education & Research University of Oklahoma EPSCoR Cyberinfrastructure Meeting Lexington, KY October 15-16 2007 University of Oklahoma Henry Neeman High end computing hneeman@ou.edu

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Oklahoma Cyberinfrastructure

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Oklahoma Cyberinfrastructure

Presenter: Henry Neeman

Director, OU Supercomputing Center for Education & Research

University of Oklahoma

EPSCoR Cyberinfrastructure Meeting

Lexington, KY

October 15-16 2007


University of Oklahoma

Henry Neeman

High end computing

hneeman@ou.edu

Oklahoma Participants Here

University of Tulsa

Rose Gamble

Grid computing

gamble@utulsa.edu

Oklahoma Cyberinfrastructure

EPSCoR CI, Lexington KY, October 15-16 2007


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Stakeholders

Eye charts follow ….

Oklahoma Cyberinfrastructure

EPSCoR CI, Lexington KY, October 15-16 2007


Oklahoma State U (15)

Biochem & Molecular Bio: Hoyt

Biosystems & Agriculture: Storm

Botany: Palmer

Chemistry: Eastman, Lavine

Computer Science: Dai, Li, Sarangan

Electrical Engineering: Stine

Geology: Atekwana

Management Science and Information Systems: Sharda

Marketing: Mowen

Mathematics: Biinegar

Physics: Mintmire

Statistics: Monks

U Tulsa (9)

Biology: Buchheim

Electrical Engineering: LoPresti, Manikas

Mathematics & Computer Science: Gamble

Mechanical Engineering: Mohan, Shirazi

Petroleum Engineering: Reynolds, Saricka, Shoham

Oklahoma School of Science & Math (1)

Computer Science: Zimmer

Oklahoma Medical Research Foundation (1)

Wren

National Severe Storms Lab (1)

Wicker

Cameron U (3)

Mathematics: Argyros, Zhao

Physical Science: Nalley

East Central U (2)

Chemistry: Myers

Mathematics: Ferdinand

Langston U (2)

Mathematics & Physics: Snow

Computer Information Sciences: Tiako

Oklahoma Baptist U (4)

Biology: Jett

Chemistry: Jordan

Mathematics: Hobbs

Physics: Chen

Oklahoma City U (2)

Computer Science:Kazmierczak, Sells

St. Gregory’s U (1)

Physical Sciences: Meyer

U Central Oklahoma (2)

Physics & Engineering: Lemley, Sanchez

Rogers State University (1)

Mathematics and Sciences: Soe

Southeastern Oklahoma State U (1)

Computer Science: Morris

Southwestern Oklahoma State U (3)

Chemistry: Kelly, Linder

Computer Science: Moseley

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16 institutions,137 people

Oklahoma Cyberinfrastructure

EPSCoR CI, Lexington KY, October 15-16 2007


Aerospace & Mechanical Engr (6): Altan, Attar, Lai, Siddique, Striz, Vedula

Biochemistry & Molecular Biology (2): Mooers, Zlotnick

Botany & Microbiology (3): Conway, Wallace, Zhou

Center for Analysis & Prediction of Storms (5): Brewster, Brotzge, Gao, Kong, Weber (+ Carr, Droegemeier, Shapiro, Xue of Meteorology)

Chemical, Biological & Materials Engr (7): Bagajewicz, Grady, Nollert, O’Rear Papavassiliou, Schmidtke, Striolo

Chemistry & Biochemistry (3): Roe, Soloshonok, Wheeler

Civil Engr & Environmental Sci (7): Hatami, Kolar, Mish, Muraleetharan, Nanny, Vieux, Zaman

Communication (1): O’Hair

Computer Science (11): Antonio, Atiquzzaman, Cheng, Dhall, Dong, Fagg, Gruenwald, Hougen, Lakshmivarahan, McGovern, Thulasiraman

Cooperative Institute for Mesoscale Meteorological Studies (3): Kogan, Mansell, Mechem

Economics (1): LaMarche

Electrical & Computer Engr (6): Cruz, Ibrahim, Sluss, Tull, Yeary, Yu

Finance (1): Linn

Geography (1): Yuan

Geology & Geophysics (1): Keller

Industrial Engr (1): Trafalis

K20 Center for Educational & Community Renewal (2): Arana, O’Hair

Mathematics (2): Gutman, White

Meteorology (7): Carr, Droegemeier, Fedorovich, Richman, Shapiro, Straka, Xue

Oklahoma Biological Survey (1): Broughton

OU Supercomputing Center for Education & Research (1): Neeman

Radiological Sciences (1): Wu

Petroleum & Geological Engineering (2): Oliver, Zhang

Physics & Astronomy (10): Abbott, Baron, Gutierrez, Kao, Milton, Parker, Severini, Skubic, Strauss, Wang

Sarkeys Energy Center (1): Chesnokov

Surgery (1): Gusev

Zoology (2): Ray, Wang

OUHSC

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89 Participants @ OU

Oklahoma Cyberinfrastructure

EPSCoR CI, Lexington KY, October 15-16 2007


Large-scale computational modeling of nanostructured materials [Mintmire]

Devising Heterogeneous Sensor Networks in Critical Applications [LoPresti,Gamble]

High throughput transport protocols for bulk data grid applications [Sarangan]

Seamless mobility management for space Internet [Atiquzzaman]

Tornado anticipation through advanced data mining [McGovern, Droegemeier]

NEESsim: Scalable computing for extreme loads on structures [Mish, Muraleetharan]

Electromagnetic simulation tools for human MRI at very high field strength [Ibrahim]

LEAD: Linked environments for atmospheric discovery [Droegemeier, Xue, Weber]

CASA: ERC for Collaborative Adaptive Sensing of Atmosphere [Xue, Droegemeier]

Geoinformatics and knowledge discovery of geographic dynamics [Yuan]

Distributed conceptual design of aerospace vehicles [Striz, Attar, Vedula, Siddique]

Evolution of complexity in self-replicating machine code [Ray, Shao]

Scalable adaptive computational toolkit for large-scale scientific applications [Li]

Numerical simulation of katabatic and anabatic flows [Shapiro, Federovich]

Intrinsic compiler support for interval arithmetic with MPI support [Stine]

Structure and thermochemistry of transition metal hydroxides [Myers]

Methods for Finding Disease Susceptibility Genes by use of the Genetics of Gene Expression [Monks]

Neutral theories of biodiversity in fractal landscapes [Palmer]

Determining protein structures with > 1000 atoms using direct methods [Mooers]

High-resolution simulations of precipitating cloud systems [Kogan, Mechem]

Agent-based computational modeling of artificial markets [Linn]

Ultrahigh resolution hydrologic/water quality models [Storm]

Grid applications in high energy physics [Skubic, Strauss, Gutierrez, Snow et al]

Large-scale phylogenetic analysis of mitochondrial and nuclear genes [Broughton]

LES and entropic Lattice Boltzmann models for high Reynolds number flows [Soe]

Evolutionary computing methods for cooperative and competitive agents [Hougen]

Megascale genomic DNA sequencing and mRNA based gene expression data [Roe]

Parallel computing in the retrofit of sensor networks in process plants [Bagajewicz]

Improving tornado detection with WSR-88D data [Yu]

Center for Integrated Bioenergy, Ecogenomics & Global Changes [Zhou, White, Luo]

Description of paths and intermediates in virus self-assembly reactions [Zlotnick]

Parallel combinatorial and sequence analysis algorithms for bioinformatics [Dai]

Seismic retrofitting of levees using geosynthetics [Hatami, Muraleetharan]

Grid computing for protein folding and misfolding [Wheeler]

Distributed data mining of large data sets and data visualization [Sharda]

Parallel Computing for large scale discrete optimization [Thulasiraman]

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Examples of Enabled Research

Oklahoma Cyberinfrastructure

EPSCoR CI, Lexington KY, October 15-16 2007


Supercomputers

Intel Xeon cluster:

1024 Pentium4 Xeon EM64T 3.2 GHz CPUs

Peak speed 6.5 TFLOPs (trillion calculations per second)

2176 GB RAM

44,000 GB disk

Infiniband high performance network

Red Hat Linux (Enterprise 4)

Grid development Intel Itanium2 cluster:

64 Intel Itanium2 1.0 GHz CPUs

Peak speed 256 GFLOPs

128 GB RAM

4200 GB disk

Infiniband

Red Hat Linux (Enterprise 4)

Storage Library

Overland Storage NEO8000

LTO-3 tape format (400 GB per tape)

Maximum capacity (at LTO-4): 400 TB

Initial drives: 2

Initial capacity: 100 TB

Already purchased; being deployed fall 2007

Condor pool

Desktop PCs in IT labs can be used for number crunching (cost: $0; 600+ so far)

Existing Resources: OU

Oklahoma Cyberinfrastructure

EPSCoR CI, Lexington KY, October 15-16 2007


Supercomputer

Intel Xeon cluster:

128 Pentium4 Xeon EM64T 3.2 GHz CPUs

Peak speed 819 GFLOPs (billion calculations per second)

256 GB RAM

4,000 GB disk

Infiniband high performance network

Red Hat Linux (Enterprise 4)

Existing Resources: OSU

Oklahoma Cyberinfrastructure

EPSCoR CI, Lexington KY, October 15-16 2007


Supercomputer

Intel Xeon cluster:

24 Pentium4 Xeon EM64T 2.33 GHz CPUs, 4 cores each

Peak speed 895 GFLOPs (billion calculations per second)

192 GB RAM

1,000 GB disk

Infiniband high performance network

Red Hat Linux (Enterprise 4)

Existing Resources: TU

Oklahoma Cyberinfrastructure

EPSCoR CI, Lexington KY, October 15-16 2007


National Lambda Rail/Internet2

10 Gbps network to research universities and national laboratories

Existing Resources: OK

Oklahoma Cyberinfrastructure

EPSCoR CI, Lexington KY, October 15-16 2007


Other Existing Resources

Many universities with intersecting computational needs

  • Research:Large scale computational science & engineering by faculty at OK universities

  • Education: faculty at OK universities

  • High End Networking: faculty at OU, OSU, TU

  • Computational Science & Engineering: faculty at most OK schools

  • Sensor Networks: Mesonet; CASA; Biosensor projects; faculty at OU, OSU, TU

    Shared Instruments

Oklahoma Cyberinfrastructure

EPSCoR CI, Lexington KY, October 15-16 2007


teach students and faculty to use FREE Condor middleware, which steals computing time on idle desktop PCs;

teach system administrators to deploy and maintain Condor on PCs;

teach bioinformatics students to use BLAST on Condor;

provide Condor Cyberinfrastructure to the national community (FREE).

Condor pool of 750 desktop PCs (already part of the Open Science Grid);

Supercomputing in Plain English workshops via videoconferencing;

Cyberinfrastructure rounds (consulting) via videoconferencing;

drop-in CDs for installing full-featured Condor on a Windows PC (Cyberinfrastructure for FREE);

sysadmin consulting for installing and maintaining Condor on desktop PCs.

OU’s team includes: High School, Minority Serving, 2-year, 4-year, masters-granting; 17 of the 26 institutions are in 8 EPSCoR states (AR, DE, KS, ND, NE, NM, OK, WV).

OU NSF CI-TEAM Project

Cyberinfrastructure Education for Bioinformatics and Beyond

Objectives:

OU will provide:

Oklahoma Cyberinfrastructure

EPSCoR CI, Lexington KY, October 15-16 2007


Participants at OU

(29 faculty/staff in 16 depts)

Information Technology

OSCER: Neeman (PI)

College of Arts & Sciences

Botany & Microbiology: Conway, Wren

Chemistry & Biochemistry: Roe (Co-PI), Wheeler

Mathematics: White

Physics & Astronomy: Kao, Severini (Co-PI), Skubic, Strauss

Zoology: Ray

College of Earth & Energy

Sarkeys Energy Center: Chesnokov

College of Engineering

Aerospace & Mechanical Engr: Striz

Chemical, Biological & Materials Engr: Papavassiliou

Civil Engr & Environmental Science: Vieux

Computer Science: Dhall, Fagg, Hougen, Lakshmivarahan, McGovern, Radhakrishnan

Electrical & Computer Engr: Cruz, Todd, Yeary, Yu

Industrial Engr: Trafalis

Health Sciences Center

Biochemistry & Molecular Biology: Zlotnick

Radiological Sciences: Wu (Co-PI)

Surgery: Gusev

Participants at other institutions

(26 institutions in 15 states)

California State U Pomona (masters-granting, minority serving): Lee

Colorado State University: Kalkhan

Contra Costa College (2-year, minority serving): Murphy

Delaware State University

Earlham College (4-year): Peck

East Central U (masters-granting): Ferdinand, Myers

Emporia State U (masters-granting): Pheatt, Ballester

Kansas State U: Andresen, Monaco

Langston U (masters-granting, minority serving): Snow

Longwood U (VA)

Marshall University (WV) : Richards

Navajo Technical College (NM): Ribble

Oklahoma Baptist U (4-year): Chen, Jett, Jordan

Oklahoma School of Science & Mathematics (high school): Samadzadeh

Riverside Community College (CA)

St. Cloud State U (MN): Herath

St. Gregory’s U (4-year): Meyer

Southwestern Oklahoma State U: Linder, Moseley

Texas A&M University-Corpus Christi

U Arkansas: Apon

University of Arkansas Little Rock

U Central Oklahoma (masters-granting): Lemley, Wilson

U Kansas: Bishop

U Nebraska-Lincoln: Swanson

University of North Dakota

U Northern Iowa (masters-granting): Gray

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NSF CI-TEAM Grant

Oklahoma Cyberinfrastructure

EPSCoR CI, Lexington KY, October 15-16 2007


For More Information

Henry Neeman

hneeman@ou.edu

Rose Gamble

gamble@utulsa.edu

Oklahoma Cyberinfrastructure

EPSCoR CI, Lexington KY, October 15-16 2007


Thanks for your attention!

Questions?


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