Balázs Horváth

So far I'm only testing the Diamond, but all I/O systems are working fine and at full benchmarked speed (Gigabyte MZ72-HB0 MB, 4+6Tb Ultra-Fast M.2 with PCIe Gen4, 3200MHz RDIMM...

Clock speeds are good, this issue is clarified. An example: . . CPU154: 99.0% 3450 MHz CPU155: 0.0% 2300 MHz CPU156: 99.0% 3450 MHz CPU157: 0.0% 2300 MHz CPU158: 99.0%...

Also Matlab suffers similar issues, running Diamond in forced AVX2 mode is could be a solution? echo 'export MKL_DEBUG_CPU_TYPE=5' >> ~/.profile https://www.reddit.com/r/matlab/comments/dxn38s/howto_force_matlab_to_use_a_fast_codepath_on_amd/

Dear Benjamin, Thank you for the new additions! May I ask which linux distribution is running on that server? We chose the latest Ubuntu because it is traditionally one of...

Thanks, it seems then that this is a common issue, regardless of Ubuntu versions. What I've also noticed is that the "computing alignments phase" has a drop in CPU usage,...

Thank you for advance. Indeed, we are running 4 diamond copies (4*32 threads) parallel, until the improvement arrives.

An interesting article: maybe we should wait for linux kernel 5.18? (Benchmarking The AMD EPYC Speed Boost Coming To Linux 5.18, Thanks To Scheduler/NUMA Improvement) Mel Gorman. The author of...

Info: restarting system solves this issue....

Hi, no prob; linux versions not affected by this issue, but aligning (as I wrote) and database creation (it's a newly discovered bug) sometimes freezes down on Windows 10 /...

More information: first computing alignments steps: Linux: 252.988s (Intel(R) Xeon(R) CPU E5-2670 0 @ 2.60GHz * 32) 256GB RAM Win10: 1063.84s, Intel(R)_Xeon(R)_CPU_E5-2665_0_@_2.40GHz * 32 128GB RAM, getting slower, with decreasing...