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Cyberinfrastructure for Marine Microbial Research

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Larry Smarr
Larry Smarr

06.07.31 Invited Talk CONNECT Investment Community Meeting Calit2@UCSD Title: Cyberinfrastructure for Advanced Marine Microbial Ecology Research and Analysis (CAMERA) La Jolla, CA

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Cyberinfrastructure for Advanced Marine Microbial Ecology Research and Analysis (CAMERA) Invited Talk CONNECT Investment Community Meeting [email_address] La Jolla, CA July 31, 2006 Dr. Larry Smarr Director, California Institute for Telecommunications and Information Technologies Harry E. Gruber Professor, Dept. of Computer Science and Engineering Jacobs School of Engineering, UCSD
Two New Calit2 Buildings Provide ~340,000 GSF and New Laboratories for “Living in the Future” ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],UC Irvine www.calit2.net State Funded $100M in Capital for Calit2 Buildings UC San Diego Richard C. Atkinson Hall Dedication Oct. 28, 2005
Calit2 Brings Computer Scientists and Engineers Together with Biomedical Researchers ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],UC San Diego UC Irvine
The OptIPuter Project – Creating High Resolution Portals Over Dedicated Optical Channels to Global Science Data ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],NIH Biomedical Informatics NSF EarthScope and ORION Research Network
Dedicated Optical Channels Makes High Performance Cyberinfrastructure Possible Parallel Lambdas are Driving Optical Networking The Way Parallel Processors Drove 1990s Computing ( WDM) Source: Steve Wallach, Chiaro Networks “ Lambdas”
National LambdaRail (NLR) and TeraGrid Provides Cyberinfrastructure Backbone for U.S. Researchers NLR 4 x 10Gb Lambdas Initially Capable of 40 x 10Gb wavelengths at Buildout Links Two Dozen State and Regional Optical Networks DOE, NSF, & NASA Using NLR San Francisco Pittsburgh Cleveland San Diego Los Angeles Portland Seattle Pensacola Baton Rouge Houston San Antonio Las Cruces / El Paso Phoenix New York City Washington, DC Raleigh Jacksonville Dallas Tulsa Atlanta Kansas City Denver Ogden/ Salt Lake City Boise Albuquerque UC-TeraGrid UIC/NW-Starlight Chicago International Collaborators NSF’s TeraGrid Has 4 x 10Gb Lambda Backbone
PI Larry Smarr Announced January 17, 2006 $24.5M Over Seven Years
Paul Gilna Has Just Been Recruited from Los Alamos to Become Executive Director of CAMERA ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Calit2’s Direct Access Core Architecture Will Create Next Generation Metagenomics Server Traditional User Response Request Source: Phil Papadopoulos, SDSC, Calit2 + Web Services ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Flat File Server Farm W E B PORTAL Dedicated Compute Farm (1000 CPUs) TeraGrid: Cyberinfrastructure Backplane (scheduled activities, e.g. all by all comparison) (10000s of CPUs) Web (other service) Local Cluster Local Environment Direct Access Lambda Cnxns Data- Base Farm ~100s TB 10 GigE Fabric
The Future Home of the Moore Foundation Funded Marine Microbial Ecology Metagenomics Complex First Implementation of the CAMERA Complex Photo Courtesy Joe Keefe, Calit2 Major Buildout of Calit2 Server Room Underway
CAMERA Tools and Workflows ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
The Bioinformatics Core of the Joint Center for Structural Genomics will be Housed in the Calit2@UCSD Building Extremely Thermostable -- Useful for Many Industrial Processes (e.g. Chemical and Food) 173 Structures (122 from JCSG) ,[object Object],[object Object],[object Object],[object Object],Source: John Wooley, UCSD
Interactive Visualization of Thermatoga Proteins at Calit2 Source: John Wooley, Jurgen Schulze, Calit2
OptIPuter Scalable Adaptive Graphics Environment (SAGE) Allows Integration of HD Streams Source: David Lee, NCMIR, UCSD
Calit2 and the Venter Institute Will Combine Telepresence with Remote Interactive Analysis Live Demonstration of 21st Century National-Scale Team Science OptIPuter Visualized Data HDTV Over Lambda 25 Miles Venter Institute
Countries are Aggressively Creating Gigabit Services: Interactive Access to CAMERA and LOOKING Systems www.glif.is Created in Reykjavik, Iceland 2003 Visualization courtesy of Bob Patterson, NCSA.
OptIPortal– Termination Device for the OptIPuter Global Backplane ,[object Object],[object Object],[object Object],Source: Phil Papadopoulos SDSC, Calit2
UIC/UCSD 10GE CAVEWave o n the National LambdaRail Emerging OptIPortal Sites CAVEWave Connects Chicago to Seattle to San Diego…and Washington D.C. as of 4/1/06 and JCVI as of 5/15/06 NEW! NEW! SunLight CICESE UW JCVI MIT SIO UCSD SDSU UIC EVL UCI OptIPortals
First Remote Interactive High Definition Video Exploration of Deep Sea Vents Source John Delaney & Deborah Kelley, UWash Canadian-U.S. Collaboration
High Definition Still Frame of Hydrothermal Vent Ecology 2.3 Km Deep White Filamentous Bacteria on 'Pill Bug' Outer Carapace Source: John Delaney and Research Channel, U Washington 1 cm.
A Near Future Metagenomics Fiber Optic-Enabled Data Generator Source John Delaney, UWash

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Cyberinfrastructure for Marine Microbial Research

  • 1. Cyberinfrastructure for Advanced Marine Microbial Ecology Research and Analysis (CAMERA) Invited Talk CONNECT Investment Community Meeting [email_address] La Jolla, CA July 31, 2006 Dr. Larry Smarr Director, California Institute for Telecommunications and Information Technologies Harry E. Gruber Professor, Dept. of Computer Science and Engineering Jacobs School of Engineering, UCSD
  • 2.
  • 3.
  • 4.
  • 5. Dedicated Optical Channels Makes High Performance Cyberinfrastructure Possible Parallel Lambdas are Driving Optical Networking The Way Parallel Processors Drove 1990s Computing ( WDM) Source: Steve Wallach, Chiaro Networks “ Lambdas”
  • 6. National LambdaRail (NLR) and TeraGrid Provides Cyberinfrastructure Backbone for U.S. Researchers NLR 4 x 10Gb Lambdas Initially Capable of 40 x 10Gb wavelengths at Buildout Links Two Dozen State and Regional Optical Networks DOE, NSF, & NASA Using NLR San Francisco Pittsburgh Cleveland San Diego Los Angeles Portland Seattle Pensacola Baton Rouge Houston San Antonio Las Cruces / El Paso Phoenix New York City Washington, DC Raleigh Jacksonville Dallas Tulsa Atlanta Kansas City Denver Ogden/ Salt Lake City Boise Albuquerque UC-TeraGrid UIC/NW-Starlight Chicago International Collaborators NSF’s TeraGrid Has 4 x 10Gb Lambda Backbone
  • 7. PI Larry Smarr Announced January 17, 2006 $24.5M Over Seven Years
  • 8.
  • 9.
  • 10. The Future Home of the Moore Foundation Funded Marine Microbial Ecology Metagenomics Complex First Implementation of the CAMERA Complex Photo Courtesy Joe Keefe, Calit2 Major Buildout of Calit2 Server Room Underway
  • 11.
  • 12.
  • 13. Interactive Visualization of Thermatoga Proteins at Calit2 Source: John Wooley, Jurgen Schulze, Calit2
  • 14. OptIPuter Scalable Adaptive Graphics Environment (SAGE) Allows Integration of HD Streams Source: David Lee, NCMIR, UCSD
  • 15. Calit2 and the Venter Institute Will Combine Telepresence with Remote Interactive Analysis Live Demonstration of 21st Century National-Scale Team Science OptIPuter Visualized Data HDTV Over Lambda 25 Miles Venter Institute
  • 16. Countries are Aggressively Creating Gigabit Services: Interactive Access to CAMERA and LOOKING Systems www.glif.is Created in Reykjavik, Iceland 2003 Visualization courtesy of Bob Patterson, NCSA.
  • 17.
  • 18. UIC/UCSD 10GE CAVEWave o n the National LambdaRail Emerging OptIPortal Sites CAVEWave Connects Chicago to Seattle to San Diego…and Washington D.C. as of 4/1/06 and JCVI as of 5/15/06 NEW! NEW! SunLight CICESE UW JCVI MIT SIO UCSD SDSU UIC EVL UCI OptIPortals
  • 19. First Remote Interactive High Definition Video Exploration of Deep Sea Vents Source John Delaney & Deborah Kelley, UWash Canadian-U.S. Collaboration
  • 20. High Definition Still Frame of Hydrothermal Vent Ecology 2.3 Km Deep White Filamentous Bacteria on 'Pill Bug' Outer Carapace Source: John Delaney and Research Channel, U Washington 1 cm.
  • 21. A Near Future Metagenomics Fiber Optic-Enabled Data Generator Source John Delaney, UWash