Sat, 19 Feb 2011 22:15:52 -0500, Nick Sabalausky wrote: > "retard" <[email protected]> wrote in message > news:[email protected]... >> Sat, 19 Feb 2011 14:32:27 -0500, dsimcha wrote: >> >>> On 2/19/2011 12:50 PM, Ulrik Mikaelsson wrote: >>>> Just a thought; I guess the references to the non-GC-scanned strings >>>> are held in GC-scanned memory, right? Are the number of such >>>> references also increased linearly? >>> >>> Well, first of all, the benchmark I posted seems to indicate >>> otherwise. >>> Second of all, I was running this program before on yeast DNA and it >>> was ridiculously fast. Then I tried to do the same thing on human DNA >>> and it became slow as molasses. Roughly speaking, w/o getting into >>> the biology much, I've got one string for each gene. Yeast have about >>> 1/3 as many genes as humans, but the genes are on average about 100 >>> times smaller. Therefore, the difference should be at most a small >>> constant factor and in actuality it's a huge constant factor. >>> >>> Note: I know I could make the program in question a lot more space >>> efficient, and that's what I ended up doing. It works now. It's just >>> that it was originally written for yeast, where space efficiency is >>> obviously not a concern, and I would have liked to just try a one-off >>> calculation on the human genome without having to rewrite portions of >>> it. >> >> Probably one reason for this behavior is the lack of testing. My >> desktop only has 24 GB of DDR3. I have another machine with 16 GB of >> DDR2, but don't know how to combine the address spaces via clustering. >> This would also horribly drag down GC performance. Even JVM is badly >> tuned for larger systems, they might use the Azul Java runtimes >> instead.. > > *Only* 24GB of DDR3, huh? :) > > Makes me feel like a pauper: I recently upgraded from 1GB to 2GB of DDR1 > ;) (It actually had been 2GB a few years ago, but I cannablized half of > it to build my Linux box.) > > Out of curiosity, what are you running on that? (Multiple instances of > Crysis? High-definition voxels?)
The largest processes are virtual machines, application servers, web server, IDE environment, several compiler instances in parallel. The Web browser also seems to have use for a gigabyte or two these days. As I recall, the memory was cheaper than now when I bought it. It's also cheaper than DDR2 or DDR (per gigabyte).
