PBB: A Parallel Bioinformatics Benchmark Suite for Shared Memory Multiprocessors. CHEN Wenguang HPC Inst., CS Dept., Tsinghua University. Outlines. Motivation Benchmark selection & construction Benchmark characteristics Performance results Conclusions, Q&A. Motivation.
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HPC Inst., CS Dept., Tsinghua University
=> There should be a parallel bioinfo. benchmark
=> We need a new one
our previous work, includes 5 parallel application
Being more complete
7 applications covering 7 of the most important domains of bioinfo.
Keeping pace with the changing world
all the applications are parallelized
most popular, most advanced
Workload analysis is performed on QP001
8P means QP001 with HT enabled
: time used to run application i on the reference system
: time used to run application i on the tested system
Rosetta is excluded for it produces random results
Tested on Unisys-ES700 with 16 Xeon