VIP
Re: https://github.com/keylabivdc/VIP
Hi,
Does anyone have experience of running VIP?
I've been trying to get it working under Ubuntu 18.04/20.04 with
Debian-Med installed in a Bioconda environment, but I've only managed to
get it running in the author's Ubuntu 14.04 VIP Docker container...
It's running, but very slowly, and "mafft" is only running on one core
even though there are 24 cores available and the "mafft" command-line
specifies 12 cores. I think it might be caused by running it on an AMD
Opteron 6000 that does not support SSE2 instructions, but any advice
about VIP would be welcome - It's been running for a week now :-(
We're using the pipeline to check Tetse fly microbiota for viruses, but
it may also be useful for Covid-19 work because the host databases are
human by default.
Thanks,
Tony.
--
Minke Informatics Limited, Registered in Scotland - Company No. SC419028
Registered Office: 3 Donview, Bridge of Alford, AB33 8QJ, Scotland (UK)
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