Dear all,
We attempted to run a fuzzpro search of the UniProt database with the following
pattern:
[LIVMSTAC]-[LIVMFYWSTAGC]-[LIMSTAG]-[LIVMSTAGC]-x(2)-[DN]-x-{P}-
[LIVMWSTAC]-{DP}-[LIVMFSTAG]-W-[DEN]-[LIVMFSTAGCN]
The job appears to have brought the server into a hung state, and my best guess
is that the process consumed so much memory that it caused heavy swapping.
I'm still not 100% sure that my assumption is correct, but in any event, is
there a way to gauge how much memory will a fuzznuc/pro or dreg/preg job
consume, based on the complexity of the pattern, size of the database, expected
number of matches, etc?
Many thanks,
Daniel
--
Daniel Rozenbaum
Biocceleration, Inc.
OCIO/Office of Application Engineering & Development/Patent System Division
600 Dulany St.
Alexandria, VA 22314
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