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soedinglab / metaeuk

MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics
GNU General Public License v3.0
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[Question] How to estimate memory usage? #49

Open jolespin opened 2 years ago

jolespin commented 2 years ago

How would I go about doing this?

My MMSEQS2 database is 18GB so would I be able to specify 20GB for my compute job or do I need to factor in the query sequences?

elileka commented 2 years ago

Hi,

In the simplest case, where the target database is a protein database, what you wrote holds. If the target database is a profile database, then the search will flip the roles of target and query. You can read more about it here.