Hi, I get an error saying " Cannot allocate vector of size 71289kb". So I tried to increase memory by memory.limit(size=3000000000), I also tried other numbers. Each time I get the message NULL and then I still get the same error as above. I'm using Windows 2000. The system has 1G RAM, and 1.6GHz processor. I was only running R, and was trying to do use a BioConductor package. I apparociate your answer. Thanks, Kristina
On Thu, Mar 13, 2003 at 02:11:59PM -0800, Kristina Hanspers wrote:> Hi, > > I get an error saying " Cannot allocate vector of size 71289kb". So I tried > to increase memory by memory.limit(size=3000000000), I also tried other > numbers. Each time I get the message NULL and then I still get the same > error as above. I'm using Windows 2000. The system has 1G RAM, and 1.6GHz > processor. I was only running R, and was trying to do use a BioConductor > package. I apparociate your answer. Thanks, > > Kristina >It could truly mean that the memory is exhausted. I cannot think of doing any diagnosis before knowing more about what you are trying to do (which package in BioC are you using, what kind of dataset are you working on, what is it's size, etc...) Hopin' it helps, Laurent -- -------------------------------------------------------------- currently at the National Yang-Ming University in Taipei, Taiwan -------------------------------------------------------------- Laurent Gautier CBS, Building 208, DTU PhD. Student DK-2800 Lyngby,Denmark tel: +45 45 25 24 89 http://www.cbs.dtu.dk/laurent
Dear Kristina, There are some general suggestions one should always try when having problems with memory. Have you tried to: 1) check how much memory R really takes. Look at gc() and object.size(), and on system tools which tell how much memory a process is taking (like top on Unix). Try mem.limits() which tells if there are any limits currently in effect. 2) run your analysis on a subset of your data. Perhaps what you really want to do is something less complex? You get an idea how much the memory comnsumption depends on the size of your data. 3) It may well be the case that the memory on your computer is getting fragmented. Try another OS (unix/linux should be better), or reboot your computer and try again. Perhaps it helps. Ott | From: "Kristina Hanspers" <khanspers at gladstone.ucsf.edu> | Date: Thu, 13 Mar 2003 14:11:59 -0800 | | Hi, | | I get an error saying " Cannot allocate vector of size 71289kb". So I tried | to increase memory by memory.limit(size=3000000000), I also tried other | numbers. Each time I get the message NULL and then I still get the same | error as above. I'm using Windows 2000. The system has 1G RAM, and 1.6GHz | processor. I was only running R, and was trying to do use a BioConductor | package. I apparociate your answer. Thanks, | | Kristina