Presenter: Henry Neeman

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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

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Oklahoma Participants Here

• University of Oklahoma
• Henry Neeman
• High end computing
• hneeman_at_ou.edu

University of Tulsa Rose Gamble Grid
computing gamble_at_utulsa.edu
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Stakeholders
Eye charts follow .
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16 institutions, 137 people

• 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

• 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. Gregorys U (1)
• Physical Sciences Meyer
• U Central Oklahoma (2)

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89 Participants _at_ OU

• 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, ORear Papavassiliou,
  Schmidtke, Striolo
• Chemistry Biochemistry (3) Roe, Soloshonok,
  Wheeler
• Civil Engr Environmental Sci (7) Hatami,
  Kolar, Mish, Muraleetharan, Nanny, Vieux, Zaman
• Communication (1) OHair
• 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, OHair
• 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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Examples of Enabled Research

• 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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Existing Resources OU

• 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)

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Existing Resources OSU

• 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)

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Existing Resources TU

• 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)

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Existing Resources OK

• National Lambda Rail/Internet2
• 10 Gbps network to research universities and
  national laboratories

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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

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OU NSF CI-TEAM Project
Cyberinfrastructure Education for Bioinformatics
and Beyond
Objectives
OU will provide

• 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.
• OUs 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).

• 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).

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NSF CI-TEAM Grant

• 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

• 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. Gregorys U (4-year) Meyer

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For More Information

• Henry Neeman
• hneeman_at_ou.edu
• Rose Gamble
• gamble_at_utulsa.edu

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Thanks for your attention!

• Questions?