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Biowulf: 10 Years of Large-scale Computing at the NIH

Biowulf: 10 Years of Large-scale Computing at the NIH. Steven Fellini Scientific Computing Branch, Division of Computer System Services CIT, NIH. The NIH Biowulf Cluster http://biowulf.nih.gov. Central scientific supercomputing resource managed by CIT Operational since 1999

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Biowulf: 10 Years of Large-scale Computing at the NIH

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  1. Biowulf: 10 Years of Large-scale Computing at the NIH Steven Fellini Scientific Computing Branch, Division of Computer System Services CIT, NIH

  2. The NIH Biowulf Clusterhttp://biowulf.nih.gov • Central scientific supercomputing resource managed by CIT • Operational since 1999 • Funded through NIH Management Fund • Available to all NIH intramural scientists • Used by 19 ICs in 2008 • Among the largest biomedical clusters in the world • Value to the NIH: price/performance, economy of scale, unique resource

  3. NIH Biowulf Cluster Architecture Fileservers Core network switch Login node Network switches Compute nodes 3

  4. Cluster Supercomputing

  5. Biowulf 1999

  6. Biowulf 2000-2002

  7. Biowulf 2003-2005

  8. Biowulf 2006-2008

  9. Biowulf 2009

  10. NIH Biowulf Monthly Usage1999-2008

  11. Application Domains on Biowulf Sequence Analysis Blast, EMBOSS, Iprscan, MFOLD… Genome Assembly Phred/Phrap/Consed, MIRA, Velvet… Linkage Analysis PLINK, Mach, Fastlink, Genehunter… Phylogenetic Analysis PAUP, Phylip, PAML… Molecular Dynamics NAMD, Charmm, GROMACS… Proteomics OMSSA, X!Tandem, Inspect… Mathematics/Statistics R, Matlab, Mathematica, SAS… Image Analysis FSL, AFNI, Huygens, Imaris… Structural Biology Rosetta++, Xplor-NIH… Computational Chemistry Gaussian, GAMESS… 11

  12. Over 70 publications in 2008

  13. FY2009: Focus on Storage • Add 200-400 TB. • Re-architect storage from single to 3-tier. • High performance parallel file servers. • Goal: provide supercomputing-scale storage.

  14. The Helix/Biowulf Systems Staff

  15. NIH Biowulf FY2008 CPU Utilization by IC (total: 21,070,667 hours) Number of Jobs by IC (total: 671,739 jobs)

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