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Last seen 10.2 years ago
I am running VariantTools on 40 not particularly large bam files (~700
Mb). When running 5 in parallel on the same machine (12 cores, 48 Gig
RAM), each running on a single core, it took several hours for the
first one to finish, and the other 4 are still running. In total, the
remaing 4 are taking up 70% of the RAM. Does anyone have suggestions
for how to run VariantTools for optimum speed? I can increase the
number of cores, but then I have to run fewer files because otherwise
I run out of memory. And if I run 5 at a time each with a single core,
I'm coming close to using up all the memory, and I don't know if that
will really slow things down and if it would therefore be better to
run just 4 at a time. Any suggestions are appreciated.
Thank you.
Eric
-- output of sessionInfo():
These are running in batch mode so I don't have that information.
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