On Wed, Mar 18, 2009 at 11:21:51AM -0700, Alexander Alekseyenko wrote: -> Hope it's not too late for this release, but I have one comment. -> BlastDB method blast can only process one sequence at a time, which -> can be slow due to numerous system calls when blasting a large -> database against some other database. I have uploaded to this group my -> implementation of processing a whole database in just one invocation -> of .blast method (see roche454.tgz:roche.py: blast_processor, -> process_library_blast and ReferenceDB.blast_library). The -> implementation creates a blast process in a thread that listens to -> fasta sequences being piped into it, feeds them into blast and writes -> blast results into return pipe. Do you think this can be included in -> the release?
(...without looking at the code or understanding the issues in detail...) I think we might as well try. I will put this on my list of things to look at this weekend. thanks, --titus --~--~---------~--~----~------------~-------~--~----~ You received this message because you are subscribed to the Google Groups "pygr-dev" group. To post to this group, send email to pygr-dev@googlegroups.com To unsubscribe from this group, send email to pygr-dev+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/pygr-dev?hl=en -~----------~----~----~----~------~----~------~--~---
