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Research Computing Initiative

Research Computing Initiative. Dimitri Mavriplis Department of Mechanical Engineering Alex Buerkle Department of Botany Dan Stanescu Department of Mathematics. Research Computing at UW. The RCI fills various roles EPSCoR RII calls for comprehensive cyberinfrastructure plan

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Research Computing Initiative

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  1. Research Computing Initiative Dimitri Mavriplis Department of Mechanical Engineering Alex Buerkle Department of Botany Dan Stanescu Department of Mathematics

  2. Research Computing at UW • The RCI fills various roles • EPSCoR RII calls for comprehensive cyberinfrastructure plan • RCI fills this role • Computational Science is a strategic area of emphasis at UW • RCI will provide focus across campus • RCI will leverage current and growing UW strengths in this area

  3. Research Computing at UW • The RCI is research centric • Cyberinfrastructure to further research goals of ESICT (FOSTER/SOLPIN) • The RCI has an academic component • Interdisciplinary minor in Computational Science

  4. RCI for ESICT • Provide hardware/software and expertise to support SOLPIN, FOSTER and other experiments • Networks : Data acquisition, retrieval, dissemination • Mass storage facility: Data archiving, mining • High performance computing hardware: Simulation as complement to observational data

  5. RCI across Campus • UW has targeted computational science as area of emphasis • Growing importance in all science areas • Energy related areas in particular • Various recent faculty hires • NCAR Petaflops center • Campus wide facility/expertise required to advance to further this emphasis

  6. Academic Component : ICS Minor • Undergraduate minor in computational science approved and underway, Graduate minor degree program under formation • Core required courses combined with elective courses • Requires development of various new courses • Interdisciplinary nature is key • Mathematics, computer science, science domain • Training future computational scientists is recognized as a national imperative

  7. RCI Hardware • Fast networks and good connectivity for SOLPIN/FOSTER • Petabyte storage facility • High performance computing (HPC) platform • e.g. 2000 cpus • Necessary to bridge gap between ad-hoc departmental clusters and national supercomputing facilities (NCAR, others)

  8. RCI Personnel • 3 support staff positions • Head System administrator/HPC specialist • Administer RCI facility, provide HPC expertise • Assistant System administrator/HPC specialist • Support facility, scientific libraries, training • HPC Application support position • Application domain HPC specialist • Positions report to IT Department • Overseen by RCI Director (Faculty member)

  9. RCI Related Faculty Positions • Request 2 faculty positions through EPSCoR RII • Support for startup packages • Faculty Areas of Specialization: • 1: Computer Architectures for High Performance Computing • (Dept. of Computer Science ) • 2: Computational Science • Broad search, Earth science related • Joint appointment possible • e.g. science domain, math or computer science

  10. Fine-scale static model Production Data Well Configurations Up-scaled static model History Matching Predictive model Oil, Water & Rock Properties EOR Injected Fluid Properties (Modified from Gordon Adamson et al, Oilfield Review, 1996) Reservoir Simulation (EORI)

  11. Fully dynamic particle-based modeling of three-phase flow in a voxel image of the rock(Dept. Chem/Petroleum Eng) Smoothed Particle Hydrodynamics Lattice Boltzmann Methods Experimental Scanning Facilities currently being acquired (Figure by Bakke, 1997 and Øren 1998, 2002)

  12. Computational biology at UW(c/o A. Buerkle, Botany) Research areas include: • Reconstruction of evolutionary relationships and ancestral states among organisms (phylogenetics). • Comparative and population genomics to discover genes of significance to human health, agriculture and adaptation. • Modeling of 3D protein structure. Computational tasks: Estimation of evolutionary trees of protein structures are large optimization problems Many inferences are based on large sets of (often parallel) simulations UW work currently on mid-size clusters. Ripe for migration to higher capacity hardware Partial representation of mammalian supertree (from Bininda-Emonds et al. 2007, Nature 446:507)

  13. Computational Aeroacoustics Dan Stanescu (Math) • Aeroacoustic Simulations using High-Order Spectral Difference Methods • 22M pts, 6th order accurate in space • Run on up to 512 CPUS (IBM Power4)

  14. Round Jet Simulation(Dan Stanescu) Iso-vorticity surfaces for round jet flow Mesh size 40 x 30 x 30 , p = 4 Reynolds number = 100,000, Mach = 0.15

  15. Scalability of Unstructured Mesh Multigrid Solver on NASA Columbia Supercomputer • D. Mavriplis, M. Aftosmis, M. Berger: High-Resolution Aerospace Applications on the NASA Columbia Supercomputer, Best paper award, SC05, Seattle, Nov 2005 • Blue Gene/L, Cray XT-3 Benchmarks. 72 million grid points Unstructured Mesh Finite Volume Multigrid Requires combined MPI/OMP: 5.2 Tflops

  16. Summary • Research Computing Initiative will provide critical support for the ESICT project • Indispensible cyberinfrastructure component • RCI will result in an integrative strategy for research computing across campus • Focus and support for research programs • Coordinate educational efforts

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