Scalable Informatics, a leader in high performance computing systems, solutions, and support, announces new performance results and immediate availability of higher performing HMMer and BLAST binaries.

Scalable Informatics has benchmarked recently tuned HMMer (http://hmmer.wustl.edu) and blastn (http://www.ncbi.nlm.nih.gov) programs. Measurements of wall clock execution time was performed using the BBSv3 benchmark system on several single and dual core Opteron systems, with 4 GB ram, and SATA drives running SuSE 9.3 Pro.

The blastn benchmarks demonstrated a consistent 1.2x performance increase (seen as a 22-24% reduction in wall clock time) when using the Scalable Informatics build as compared to the build available from NCBI. The HMMer benchmarks demonstrated a consistent 2x performance increase over Opteron binaries available from Professor Eddy's web site. On a customer test case, 2.5x performance advantage was observed for the Scalable Informatics binary, even though this binary was running on a machine with a 200 MHz clock speed disadvantage.

The accelerated programs are immediately available from Scalable Informatics and our partners. Contact our partners, or sales@scalableinformatics.com for more details on how to obtain the accelerated programs.