Innovation Forum – Room 12<br />Innovation in High-Performance Computing<br />Dr. Ross Nobes<br />Assistant Division Manag...
TRAILER 1<br />1m27s<br />
Innovation in High-Performance Computing<br />Ross Nobes<br />Fujitsu Laboratories of Europe<br />4<br />Copyright 2010 FU...
What is High Performance Computing?<br />5<br />Use of parallel computers with low-latency, high-bandwidth networks<br />C...
Innovation in Hardware<br />The “K Computer”<br />6<br />
30+ Years of Supercomputing<br />7<br />Copyright 2010 FUJITSU<br />
The Next-Generation Supercomputer<br />8<br />RIKEN and Fujitsu are jointly developing Japan’s Next-Generation Supercomput...
The K Computer<br />9<br />Copyright 2010 FUJITSU<br />Fujitsu Begins Shipping Japan's Next-Generation Supercomputer<br />...
New Technologies<br />10<br />Copyright 2010 FUJITSU<br /><ul><li>Tofu Interconnect</li></ul>System<br />:<br /><ul><li>VI...
Advanced Packaging</li></ul>Node<br />CPU<br />:<br />Core<br />Core<br /><ul><li>SPARC64TM VIIIfx Multi-Core CPU
HPC-ACE Instruction Set
Low Power Consumption</li></ul>Core<br />
Fujitsu’s Advanced Technology<br />11<br />New HPC-enhanced SPARC64TM VIIIfx CPU <br />8 cores, 2 GHz, 128 GFLOP/s<br />58...
VISIMPACT: Performance<br />12<br />Copyright 2010 FUJITSU<br />LS-DYNA on Fujitsu FX1 Supercomputer<br />www.topcrunch.or...
Effect of VISIMPACT<br />13<br />Copyright 2010 FUJITSU<br /><ul><li>Test Case: Caravan 10-million Elements Car-to-Car Model
Time Duration: 10 milliseconds ->120 milliseconds</li></ul>1.54 times speedup by VISIMPACT<br />
High-Performance Computing<br />Opportunities for Europe<br />14<br />
IDC Report <br />15<br />HPC use is indispensable for advancing both scientific and industrial competitiveness<br />Europe...
IDC Vision for Europe<br />16<br />Copyright 2010 FUJITSU<br />Provide World-Class HPC Expertise and Resources<br />To Mak...
IDC: Outcomes from the Vision<br />17<br />Copyright 2010 FUJITSU<br />	By the year 2020, the EU HPC strategy has enabled ...
Innovation in Software<br />The Open Petascale Libraries Project<br />18<br />
Open Petascale Libraries Project<br />19<br />Copyright 2010 FUJITSU<br />Global collaboration to develop advanced numeric...
Exascale Application and Data Initiative<br />20<br />Copyright 2010 FUJITSU<br />Computational science society<br />Open ...
Bridging Applications and Platforms<br />21<br />Copyright 2010 FUJITSU<br />
OPL: Structure<br />22<br />Copyright 2010 FUJITSU<br />Advisory Panel<br />Eminent figures in HPCand numerical algorithms...
OPL: Members<br />23<br />Copyright 2010 FUJITSU<br />
Contributing to Many Application Areas<br />24<br />Copyright 2010 FUJITSU<br />
www.openpetascale.org<br />For More Information<br />25<br />Copyright 2010 FUJITSU<br />
Innovation in Software<br />Case Study: Improving the Pharmaceutical R&D Pipeline<br />26<br />
Modelling in the Pharmaceutical Industry<br />27<br />We no longer design aeroplanes, bridges, cars or large buildings wit...
Lifecycle of a New Medicine<br />Patent application<br />Acute toxicity<br />Phase I clinical trials<br />Pharmacology<br ...
Only 3 out of 10 drugs cover R&D costs before patent expiry</li></ul>28<br />Copyright 2010 FUJITSU<br />
Pharmaceutical R&D<br />29<br />From lab to shelf, development of a new medicine takes 10-13 years<br />For every 5000 mol...
preDiCT Partners<br />30<br />Copyright 2010 FUJITSU<br />
Objectives of preDiCT<br />31<br />Earlier approval of successful drugs, at lower cost<br />Early elimination of unsuitabl...
Whole-Ventricle Simulator<br />Chaste<br />Optimized cell<br />code<br />Scale 2<br />Cell modelling<br />CellML<br />Requ...
Technological Improvements<br />33<br />Copyright 2010 FUJITSU<br />
Performance Improvements<br />34<br />Copyright 2010 FUJITSU<br />
Virtual Physiological Human<br />35<br />preDiCT is part of the VPH Initiative, a flagship eHealth project in FP7 <br />Co...
Future Innovation<br />The International Exascale Software Project<br />36<br />
Assumed Exascale Architectures<br />37<br />Copyright 2010 FUJITSU<br />
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dr. ross nobes - Innovation in High-Performance Computing

  1. 1.
  2. 2. Innovation Forum – Room 12<br />Innovation in High-Performance Computing<br />Dr. Ross Nobes<br />Assistant Division Manager, Environment and Health<br />Fujitsu Laboratories<br />9:00 h<br />
  3. 3. TRAILER 1<br />1m27s<br />
  4. 4. Innovation in High-Performance Computing<br />Ross Nobes<br />Fujitsu Laboratories of Europe<br />4<br />Copyright 2010 FUJITSU<br />
  5. 5. What is High Performance Computing?<br />5<br />Use of parallel computers with low-latency, high-bandwidth networks<br />Capability computing<br />Large, complex simulations<br />Climate modelling, advanced materials, renewable energy, nuclear fusion, aerospace industry, national security, basic science, etc.<br />Data-intensive computing<br />Large HadronCollider, Square Kilometre Array<br />Now in “petascale” era (1015 operations per second)<br />Moving towards “exascale” computing (1018) by ~2020<br />Capacity computing<br />Large numbers of smaller compute-intensive jobs<br />Digital content creation in entertainment industry, financial applications, etc.<br />Copyright 2010 FUJITSU<br />
  6. 6. Innovation in Hardware<br />The “K Computer”<br />6<br />
  7. 7. 30+ Years of Supercomputing<br />7<br />Copyright 2010 FUJITSU<br />
  8. 8. The Next-Generation Supercomputer<br />8<br />RIKEN and Fujitsu are jointly developing Japan’s Next-Generation Supercomputer, the “K Computer”<br />10 PFLOP/s performance<br />Installed at RIKEN’s Advanced Institute for Computational Science, Kobe<br />The centrepiece of Japan’s new “Innovative High-Performance Computing Infrastructure”<br />Copyright 2010 FUJITSU<br />Tuning and improvement<br />Production, installation<br />and adjustment<br />Prototype, evaluation<br />Detailed design<br />Conceptual design<br />
  9. 9. The K Computer<br />9<br />Copyright 2010 FUJITSU<br />Fujitsu Begins Shipping Japan's Next-Generation Supercomputer<br />Tokyo, September 28, 2010 — Fujitsu announced that today it began shipping the computing units for Japan's Next-Generation Supercomputer, nicknamed the "K computer"<br />
  10. 10. New Technologies<br />10<br />Copyright 2010 FUJITSU<br /><ul><li>Tofu Interconnect</li></ul>System<br />:<br /><ul><li>VISIMPACT Technology
  11. 11. Advanced Packaging</li></ul>Node<br />CPU<br />:<br />Core<br />Core<br /><ul><li>SPARC64TM VIIIfx Multi-Core CPU
  12. 12. HPC-ACE Instruction Set
  13. 13. Low Power Consumption</li></ul>Core<br />
  14. 14. Fujitsu’s Advanced Technology<br />11<br />New HPC-enhanced SPARC64TM VIIIfx CPU <br />8 cores, 2 GHz, 128 GFLOP/s<br />58 W peak, 2.2 GFLOP/s per watt<br />Water cooling<br />Low current leakage<br />Low power consumption and low failure rate<br />Highlyreliabledesign<br />Specific logic circuits to detect and correct errors<br />VISIMPACT<br />Combines hardware enhancements and advanced compiler technologies to promote hybrid programming models<br />Copyright 2010 FUJITSU<br />
  15. 15. VISIMPACT: Performance<br />12<br />Copyright 2010 FUJITSU<br />LS-DYNA on Fujitsu FX1 Supercomputer<br />www.topcrunch.org<br />
  16. 16. Effect of VISIMPACT<br />13<br />Copyright 2010 FUJITSU<br /><ul><li>Test Case: Caravan 10-million Elements Car-to-Car Model
  17. 17. Time Duration: 10 milliseconds ->120 milliseconds</li></ul>1.54 times speedup by VISIMPACT<br />
  18. 18. High-Performance Computing<br />Opportunities for Europe<br />14<br />
  19. 19. IDC Report <br />15<br />HPC use is indispensable for advancing both scientific and industrial competitiveness<br />Europe is under-investing in HPC, while other nations are growing their supercomputer investments dramatically <br />The transition to petascale and exascale computing creates opportunities: For Europe to return to the forefront of development for the next generation of research and HPC software/hardware/storage/networking technologies<br />Copyright 2010 FUJITSU<br />
  20. 20. IDC Vision for Europe<br />16<br />Copyright 2010 FUJITSU<br />Provide World-Class HPC Expertise and Resources<br />To Make EU Scientists, Engineers And Analysts<br />The Most Productive and Innovative In The World <br />In Applying HPC To Advance Their Research <br />In The Pursuit Of Scientific Advancement And Economic Growth<br />
  21. 21. IDC: Outcomes from the Vision<br />17<br />Copyright 2010 FUJITSU<br /> By the year 2020, the EU HPC strategy has enabled the following progress to occur:<br />Europe is recognised as a hotbed for new science and engineering research<br />Europe's leadership in the targeted areas has created many new jobs in science and industry, and has caused the national economies to grow faster <br />Europe is the world leader in important high-end HPC technologies<br /> Europe leads the world in scalable algorithms and software applications, and in tools to make HPC systems easy-to-use and to make researchers highly innovative and productive<br />FLE’s target<br />
  22. 22. Innovation in Software<br />The Open Petascale Libraries Project<br />18<br />
  23. 23. Open Petascale Libraries Project<br />19<br />Copyright 2010 FUJITSU<br />Global collaboration to develop advanced numerical software for supercomputing<br />Initiated by Fujitsu Laboratories of Europe and Fujitsu Limited<br />Dedicated forum to promote the open exchange of ideas and the collaborative development of general-purpose and application-specific numerical libraries<br />Targeted initially at parallel computers built from multi-core processors<br />All output available as open-source software <br />Official launch of OPL in November 2010 to coincide with SC10 conference in New Orleans<br />
  24. 24. Exascale Application and Data Initiative<br />20<br />Copyright 2010 FUJITSU<br />Computational science society<br />Open software communities<br />Exascale<br /> Application <br />and <br />Data <br />Initiative<br />FUJITSU<br />Platform Solution<br />R&D Labs<br />Application users<br />Application developers<br />Computational scientists,<br />computer scientists and engineers<br />Vendors<br />
  25. 25. Bridging Applications and Platforms<br />21<br />Copyright 2010 FUJITSU<br />
  26. 26. OPL: Structure<br />22<br />Copyright 2010 FUJITSU<br />Advisory Panel<br />Eminent figures in HPCand numerical algorithms<br />EESI<br />Steering Committee<br />formed from representative of Network members<br />Japanese Members<br />Global Members<br />Secretariat:<br />Fujitsu Labs Europe / Fujitsu Ltd<br />Open Petascale Libraries Network<br />
  27. 27. OPL: Members<br />23<br />Copyright 2010 FUJITSU<br />
  28. 28. Contributing to Many Application Areas<br />24<br />Copyright 2010 FUJITSU<br />
  29. 29. www.openpetascale.org<br />For More Information<br />25<br />Copyright 2010 FUJITSU<br />
  30. 30. Innovation in Software<br />Case Study: Improving the Pharmaceutical R&D Pipeline<br />26<br />
  31. 31. Modelling in the Pharmaceutical Industry<br />27<br />We no longer design aeroplanes, bridges, cars or large buildings without first simulating them using computer models<br />Drugs are developed without modelling their interactions with our bodies<br />This results in a very expensive pharmaceutical research process<br />Many failures at late stages of the testing process<br />High health care costs<br />Copyright 2010 FUJITSU<br />
  32. 32. Lifecycle of a New Medicine<br />Patent application<br />Acute toxicity<br />Phase I clinical trials<br />Pharmacology<br />Chronic toxicity<br />Registration and transparency<br />Phase II<br />Phase III<br />Pharmacovigilance<br />Reimbursement<br />Price<br />1 medicinal product<br />0<br />5 years<br />10 years<br />15 years<br />20 years<br />Patent expiry<br />SPC<br />(supplementary<br />protection certificate)<br />max. + 5 years<br />10 years of research<br />2 to 3 years of administrative <br />procedures<br /><ul><li>Average R&D cost for a new medicine: €1 billion
  33. 33. Only 3 out of 10 drugs cover R&D costs before patent expiry</li></ul>28<br />Copyright 2010 FUJITSU<br />
  34. 34. Pharmaceutical R&D<br />29<br />From lab to shelf, development of a new medicine takes 10-13 years<br />For every 5000 molecules tested:<br />250 enter pre-clinical testing<br />10 enter clinical testing<br />1 approved for use in patients<br />Half of drugs that enter Stage III clinical testing fail at that stage<br />Often from side-effects in the heart (arrhythmia and fibrillation which can lead to heart failure and death)<br /> The European project preDiCT aims to eliminate unsuitable drugs early in the R&D pipeline to eliminate wasted time and expenditure<br />Copyright 2010 FUJITSU<br />
  35. 35. preDiCT Partners<br />30<br />Copyright 2010 FUJITSU<br />
  36. 36. Objectives of preDiCT<br />31<br />Earlier approval of successful drugs, at lower cost<br />Early elimination of unsuitable drug candidates<br />Systematic inclusion of modelling as well as experiments in the drug testing process<br />Real time simulation of cardiac electrical activation on a realistic whole human heart mesh<br />Modelling environment suitable for use by physiologists<br />Better cardiac cell models to describe the interaction of healthy and unhealthy tissue with drugs<br />Identification of simple biomarkers to indicate the risk of a drug inducing arrhythmia<br />Copyright 2010 FUJITSU<br />
  37. 37. Whole-Ventricle Simulator<br />Chaste<br />Optimized cell<br />code<br />Scale 2<br />Cell modelling<br />CellML<br />Requirements<br />Scale 3<br />Organ modelling<br />Fast, parallel<br />simulator<br />Research tool<br />32<br />Copyright 2010 FUJITSU<br />
  38. 38. Technological Improvements<br />33<br />Copyright 2010 FUJITSU<br />
  39. 39. Performance Improvements<br />34<br />Copyright 2010 FUJITSU<br />
  40. 40. Virtual Physiological Human<br />35<br />preDiCT is part of the VPH Initiative, a flagship eHealth project in FP7 <br />Computational frameworks and ICT-based tools for multiscale models of the human anatomy, physiology and pathology<br />A key facilitator for:<br />Personalised (patient-specific) healthcare solutions<br />Early diagnosis and predictive medicine<br />Assessment of safety/efficacy of drugs using patient-specific computational models<br />Innovative personalised drugs<br />FLE plans to contribute further to the VPH<br />Copyright 2010 FUJITSU<br />
  41. 41. Future Innovation<br />The International Exascale Software Project<br />36<br />
  42. 42. Assumed Exascale Architectures<br />37<br />Copyright 2010 FUJITSU<br />
  43. 43. Assumed Exascale Architectures<br />38<br />Copyright 2010 FUJITSU<br />x1000<br />x3<br />x100<br />x10<br />x10<br />O(1000)<br />O(1,000,000)<br />x100<br />x0.1<br />
  44. 44. Challenges for Exascale<br />39<br />Copyright 2010 FUJITSU<br />Will need 1 billion simultaneous threads of execution<br />-> Daunting challenge for algorithm scalability<br />Power budget will be limited to 20 MW<br />-> Need for energy efficient algorithms<br />A node will fail every few hours<br />-> Need for fault tolerant algorithms<br />Fujitsu Laboratories intends to work with the computational science community to tackle these challenges<br />International Exascale Software Project<br />
  45. 45. Summary<br />40<br />High-performance computing is a vital tool for future scientific and industrial competitiveness and economic prosperity<br />Fujitsu Limited is developing innovative HPC systems, such as the K Computer<br />Innovation in software is a challenge that Fujitsu Laboratories is tackling through open collaboration<br />Numerical libraries<br />New applications, especially in health, energy and the environment<br />The road ahead to exascale computing<br />Copyright 2010 FUJITSU<br />
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