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Virtual Laboratory for e-Science (VL-e)

vrije Universiteit. Virtual Laboratory for e-Science (VL-e). Henri Bal Department of Computer Science Vrije Universiteit Amsterdam bal@cs.vu.nl. e-Science. Web is about exchanging information Grid is about sharing resources Computers, data bases, instruments, services

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Virtual Laboratory for e-Science (VL-e)

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  1. vrije Universiteit Virtual Laboratory fore-Science (VL-e) Henri Bal Department of Computer ScienceVrije Universiteit Amsterdam bal@cs.vu.nl

  2. e-Science • Web is about exchanging information • Grid is about sharing resources • Computers, data bases, instruments, services • e-Science supports experimental science by providing a virtual laboratory on top of Grids

  3. Grid Harness multi-domain distributed resources Virtual Laboratories Distributed computing Application Specific Part Application Specific Part Application Specific Part Visualization & collaboration Potential Generic part Potential Generic part Potential Generic part Management of comm. & computing Virtual Laboratory Application oriented services Management of comm. & computing Management of comm. & computing Knowledge Data & information

  4. User Interfaces & Virtual reality based visualization Virtual Laboratory for e-Science Bio-diversity Telescience Food Informatics Bio-Informatics Data Intensive Science Medical diagnosis & imaging Interactive PSE Adaptive information disclosure Virtual lab. & System integration Collaborative information Management High-performancedistributed computing Security & Generic AAA Optical Networking

  5. vrije Universiteit The VL-e project • 20 partners • Academic - Industrial • 40 M€ (20 M€ BSIK funding) • 2004 - 2008

  6. VL-e environments Application specific service Medical Application Telescience Bio ASP Application Potential Generic service & Virtual Lab. services Virtual Lab. rapid prototyping (interactive simulation) Virtual Laboratory Additional Grid Services (OGSA services) Grid Middleware Grid & Network Services Network Service (lambda networking) Gigaport VL-E Proof of concept Environment VL-E Experimental Environment

  7. Belleman Marshall, Breit Konijnenburg Visualization Jansen Bouwhuis demo VL-e workshop Telescience Food Bio-Inf Medical imaging Data Intensie Bio-div P4: Scaling up i PSE A.I.D. Virtual lab CIM High-performancedistributed computing Security Optical Networking

  8. ui (VRE) MRI, PET Monolith, Cluster Cave, Wall, PC, PDA From Medical Image Acquisition to Interactive Virtual Visualization… Simulated blood flow MR image Patient at MRI scanner MR image Segmentation Shear stress, velocities GVK LB Solver Medical Data MD login and Grid Proxy creation Bypass creation LB mesh generation Job submission ce (e.g., Bratislava) ce (e.g., Valencia) se (e.g., Leiden) • P.M.A. Sloot, A.G. Hoekstra, R.G. Belleman, A. Tirado-Ramos, E.V. Zudilova, D.P. Shamonin, R.M. Shulakov, A.M. Artoli , L. Abrahamyan Interactive Problem Solving Environments Virtual Node navigation Job monitoring Simulated Blood Flow VRE

  9. Visualization on the Grid

  10. Visualization on the Grid

  11. Visualization on the Grid

  12. Visualization on the Grid

  13. Visualization on the Grid

  14. High-PerformanceDistributed Computing • Ibis: a Java-centric grid programming environment • Remote Method Invocation (RMI), group communication, divide&conquer parallelism, object migration (ProActive) • Written in pure Java, runs on heterogeneous grids • “Write once, run everywhere ” • Use bytecode rewriting for optimizations (e.g. serialization) • Use native code as special-case optimization (e.g. Myrinet)

  15. Experiences with Ibis • Distributed supercomputing applications • Electromagnetic simulation (Jem3D) • Automated protein identification (AMOLF) • N-body simulations, SAT-solver, raytracer • Successful grid experiments • On DAS-2 (homogeneous Dutch grid) • On GridLab (European grid) • Need co-allocation mechanisms More info + distribution at www.cs.vu.nl/ibis

  16. CPU’s R CPU’s R CPU’s R NOC CPU’s R CPU’s R Optical networking • Formally part of GigaPort-NG BSIK project • Studies optical networking technology in a grid context (e.g., bandwidth-on-demand) • Useful for many VL-e applications • Data-intensive sciences, visualization,HPDC, etc.

  17. Workshop program • 14:15 - 14:45 Workflow and data integration in e-bioscience: Some user requirements (Scot Marshall) • 14:45 - 15:15 The Knowledge Grid and Adaptive Information Disclosure (Machiel Jansen) • 15:15 - 15:45 Data management in the Proof-of-Concept environment of VL-e (Maurice Bouwhuis) • 15:45 - 16:00 Presentation of the Demos • 16:00 - 16:30 Break & Demo at the LightHouse (SARA+UvA) • 16:30 - 17:00 Medical Application (Robert Belleman) • 17:00 - 17:30 Bioinformatics (Timo Breit) • 17:30 - 18:00 Dutch Tele-science Lab (Marco Konijnenburg)

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