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John VanDyk has been innovating with information technology for more than 20 years. Read more... |
How Does Hyperthreading Affect an ALLPATHS-LG Run?
Submitted by John on Thu, 2014-10-23 08:50
In running ALLPATHS-LG, a short read genome assembler, on a Dell PowerEdge R920 with four Xeon E7-4860v2 processors running at 2.60GHz, I did one run with hyperthreading on and one with hyperthreading off. This was mainly to see if the increased cache size on the physical CPU core with hyperthreading off had a positive effect on performance.
I'll take all the anticipation away: Nope. Hyperthreading wins.
No Hyperthreading | Hyperthreading | |
---|---|---|
available cpus | 24 | 48 |
GB of total available memory | 1511.6 | 1511.6 |
hours of total elapsed time | 30.32 | 28.81 |
hours of total per-module elapsed | 30.33 | 28.82 |
hours of total per-module user time | 357.57 | 630.52 |
effective parallelization factor | 11.79 | 21.88 |
GB memory usage peak | 457.13 | 457.13 |
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