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Designing a cluster for geophysical fluid dynamics applications

Designing a cluster for geophysical fluid dynamics applications. Göran Broström Dep. of Oceanography, Earth Science Centre, Göteborg University . Our cluster (me and Johan Nilsson, Dep. of Meterology, Stockholm University). Grant from the Knut & Alice Wallenberg foundation (1.4 MSEK)

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Designing a cluster for geophysical fluid dynamics applications

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  1. Designing a cluster for geophysical fluid dynamics applications Göran Broström Dep. of Oceanography, Earth Science Centre, Göteborg University.

  2. Our cluster(me and Johan Nilsson, Dep. of Meterology, Stockholm University) • Grant from the Knut & Alice Wallenberg foundation (1.4 MSEK) • 48 cpu cluster • Intel P4 2.26 Ghz • 500 Mb 800Mhz Rdram • SCI cards • Delivered by South Pole • Run by NSC (thanks Niclas & Peter)

  3. What we study

  4. Geophysical fluid dynamics • Oceanography • Meteorology • Climate dynamics

  5. Thin fluid layersLarge aspect ratio

  6. Highly turbulentGulf stream: Re~1012

  7. Large variety of scales Parameterizations are important in geophysical fluid dynamics

  8. Timescales • Atmospheric low pressures: 10 days • Seasonal/annual cycles: 0.1-1 years • Ocean eddies: 0.1-1 year • El Nino: 2-5 years. • North Atlantic Oscillation: 5-50 years. • Turnovertime of atmophere: 10 years. • Anthropogenic forced climate change: 100 years. • Turnover time of the ocean: 4.000 years. • Glacial-interglacial timescales: 10.000-200.000 years.

  9. Some examples of atmospheric and oceanic low pressures.

  10. Timescales • Atmospheric low pressures: 10 days • Seasonal/annual cycles: 0.1-1 years • Ocean eddies: 0.1-1 year • El Nino: 2-5 years. • North Atlantic Oscillation: 5-50 years. • Turnovertime of atmophere: 10 years. • Anthropogenic forced climate change: 100 years. • Turnover time of the ocean: 4.000 years. • Glacial-interglacial timescales: 10.000-200.000 years.

  11. Normal state

  12. Initial ENSO state

  13. The ENSO state

  14. The ENSO state

  15. Timescales • Atmospheric low pressures: 10 days • Seasonal/annual cycles: 0.1-1 years • Ocean eddies: 0.1-1 year • El Nino: 2-5 years. • North Atlantic Oscillation: 5-50 years. • Turnovertime of atmophere: 10 years. • Anthropogenic forced climate change: 100 years. • Turnover time of the ocean: 4.000 years. • Glacial-interglacial timescales: 10.000-200.000 years.

  16. Positive NAO phase Negative NAO phase

  17. Positive NAO phase Negative NAO phase

  18. Timescales • Atmospheric low pressures: 10 days • Seasonal/annual cycles: 0.1-1 years • Ocean eddies: 0.1-1 year • El Nino: 2-5 years. • North Atlantic Oscillation: 5-50 years. • Turnovertime of atmophere: 10 years. • Anthropogenic forced climate change: 100 years. • Turnover time of the ocean: 4.000 years. • Glacial-interglacial timescales: 10.000-200.000 years.

  19. Temperature in the North Atlantic

  20. Timescales • Atmospheric low pressures: 10 days • Seasonal/annual cycles: 0.1-1 years • Ocean eddies: 0.1-1 year • El Nino: 2-5 years. • North Atlantic Oscillation: 5-50 years. • Turnovertime of atmophere: 10 years. • Anthropogenic forced climate change: 100 years. • Turnover time of the ocean: 4.000 years. • Glacial-interglacial timescales: 10.000-200.000 years.

  21. Ice coverage, sea level

  22. What model will we use?

  23. MIT General circulation model

  24. MIT General circulation model • General fluid dynamics solver • Atmospheric and ocean physics • Sophisticated mixing schemes • Biogeochemical modules • Efficient solvers • Sophisticated coordinate system • Automatic adjoint schemes • Data assimilation routines • Finite difference scheme • F77 code • Portable

  25. MIT General circulation model Spherical coordinates “Cubed sphere”

  26. MIT General circulation model • General fluid dynamics solver • Atmospheric and ocean physics • Sophisticated mixing schemes • Biogeochemical modules • Efficient solvers • Sophisticated coordinate system • Automatic adjoint schemes • Data assimilation routines • Finite difference scheme • F77 code • Portable

  27. MIT General circulation model

  28. MIT General circulation model

  29. MIT General circulation model

  30. MIT General circulation model

  31. MIT General circulation model

  32. MIT General circulation model

  33. MIT General circulation model

  34. MIT General circulation model

  35. Some computational aspects

  36. Some tests in INGVAR (32 AMD 900 Mhz cluster)

  37. Experiments with 60*60*20 grid points

  38. Experiments with 60*60*20 grid points

  39. Experiments with 60*60*20 grid points

  40. Experiments with 120*120*20 grid points

  41. MM5 Regional atmospheric model

  42. MM5 Regional atmospheric model

  43. MM5 Regional atmospheric model

  44. Choosing cpu’s, motherboard, memory, connections

  45. Specfp (swim)

  46. Run time on different nodes

  47. Choosing interconnection (requires a cluster to test) Based on earlier experience we use SCI from Dolphinics (SCALI)

  48. Our choice • Named Otto • SCI cards • P4 2.26 GHz (single cpus) • 800 Mhz Rdram (500 Mb) • Intel motherboards (the only available) • 48 nodes • NSC (nicely in the shadow of Monolith)

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