04SAAHPCpresentationScalableSystolicArray

4ghz opteron baseline 192224 length 450 distance

Info iconThis preview shows page 1. Sign up to view the full content.

View Full Document Right Arrow Icon
This is the end of the preview. Sign up to access the rest of the document.

Unformatted text preview: ours on 2.4GHz Opteron # FPGAs 1 4 96 128 192 (est.) Runtime (sec) 47,616 12,014 503 391 270 Speedup 833 3,304 78,914 101,518 147,013 # FPGAs 1 4 96 128 192 (est.) Runtime (sec) 23,846 5,966 250 188 127 Speedup 827 3,307 78,926 104,955 155,366 # FPGAs 1 4 96 128 192 (est.) Runtime (sec) 13,522 3,429 144 118 77 Speedup 3,108 12,255 291,825 356,125 545,751 Results on Novo-G for NW (left), SW (Center), and ND (Right). Each table shows scaling performance with varying number of FPGAs under optimal input conditions. Estimated performance on Novo-G comparable or better than biggest supercomputers on www.Top500.org Jaguar @ ORNL: 224,162 cores 2.4 GHz Hexacore Opterons; 6.95 MW Novo-G Power Roadrunner @ LANL: 122,400 cores 3.2 GHz Cells + 1.8GHz Opterons; 2.35 MW 8 KW Max. } 17 17 Thanks for listening! Questions Questions? 18 18 [1] W. Pearson and W. Miller, "Dynamic programming algorithms for biological sequence comparison," Methods Enzymol. 210: 575-601, 1992. [2] Y. Sun, Y. Cai, L. Liu, F. Yu, M.L. Farrell, W. McKendree, W. Farmerie, "ESPRIT: Estimating Species Richness Using Large Collections of 16S rRNA Pyrosequences," Nucleic Acids Research, vol. 37, no. 10 e76, May 2009. PMCID: PMC2691849. [3] S. Lloyd and Q. Snell, "Hardware Accelerated Sequence Alignment with Traceback," Int. Journal of RC, vol. 2009, Article ID 762362. [4] O. Storaasli, W. Yu, D. Strenski, J. Maltby, "Performance Evaluation of FPGA-Based Biological Applications," Proc. Cray Users Group, Seattle, WA, May 2007. [5] K. Benkrid, Y. Liu, and A. Benkrid, "A Highly Parameterized and Efficient FPGA-Based Skeleton for Pairwise Biological Sequence Alignment," IEEE Trans. VLSI Systems, vol. 17, pp. 561-570, 2009. [6] Novo-G architecture overview, www.chrec.org/~george/Novo-G.pdf [7] ESPRIT download, plaza.ufl.edu/sunyijun/ESPRIT.htm References 19...
View Full Document

This note was uploaded on 03/27/2012 for the course EEL 4930 taught by Professor Staff during the Spring '08 term at University of Florida.

Ask a homework question - tutors are online