Different results from different version about raxml-ng HOT 4 CLOSED

Could you please try using the same random seed (e.g. --seed 1) for both runs and post log files here? Thanks!

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Hi Alexey,

I have tested several times and I found that it is not because different versions. Even if I use same input and parameters in the same version, I can still got different loglikehood.(-14018 and -14407). Is it because the random seed? When I test this alignment on other softwares I can always got same results(about -14018).
The attachments are the log file. Both are from the PTHREADS version but got very different loglikehood.
Thanks.
dna.raxml.log
dna1.raxml.log

from raxml-ng.

Hi,
so I doubled-checked and it's simply an effect of different random seeds (and thus distinct starting trees) - and has nothing to do with PTHREADS vs. MPI version.This is expected behavior, and actually quite common on datasets with relatively few sites and thus weaker signal. It is therefore highly recommended to use multiple starting trees, e.g. --tree pars{10},rand{10}.

Hope this helps,
Alexey

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Hi Alexey,

Thanks for your reply!

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