View Single Post
Old 01-25-2017, 06:08 AM   #410
Senior Member
Location: East Coast USA

Join Date: Feb 2008
Posts: 6,815

Originally Posted by boulund View Post
How does BBMap make use of an index on disk? I'm on a shared cluster system and I'm essentially wondering if BBMap performs a nice single pass of the index to read it into memory, or if it performs a lot of random access to the index on disk?

If it's the latter, I'll just copy it to node-local disks, so no worries. Just interested in how it works.
@Brian will confirm later but I think BBMap loads pre-made indexes on disk in memory if you provide path= option. Note: "nodisk" option builds indexes in memory from fasta files but am not sure if it can (or needs to) be used with path= option.
GenoMax is online now   Reply With Quote