--- Rick Westerman <westerman@purdue.edu> wrote: > > >Does anyone have any experience of distributing GCG > applications (e.g. > >pileup and srsupdate) using Sun's GridEngine? > After a trawl through the web > >it seems that some GCG applications FrameSearch, > BLAST, FASTA, FASTAX, > >FASTX, TFASTA, TFASTX and SSearch) are threaded and > can take advantage of a > >multi-processor architecture. I am more interested > in distributing > >cpu-intensive jobs like pileup and srsupdate that > are not threaded. For > >pileup I suppose the way to go is to split up the > input file and kick off a > >number of jobs on different servers using > GridEnginec - does anyone have any > >comments? As for srsupdate, I'm not sure how to > procede, but its pig slow > >and I am sure there must be a way to speed it up > with distribution. > > No experience. And I am not sure if many other > people have gone down > this path because I suspect that your GCG license > does not allow running on > more than 'X' number of boxes -- 'X' being the > number of RTR (right to run) > licenses you have purchased. Yet another reason to > migrate to Emboss, et.al. I also don't have any experience with pileup or srsupdate, but what is the exact problem you want to solve? If you only have X number of licenses, you can set up a requestable resource, then SGE will make sure it starts less then or equal to X jobs that request the license. This way you can have your license used up 7x24 (as long as you have jobs queued up waiting for the license). -Ron __________________________________________________ Do You Yahoo!? Yahoo! Shopping - Mother's Day is May 12th! http://shopping.yahoo.com