Re: [R] about memory

From: ronggui <0034058_at_fudan.edu.cn>
Date: Thu 31 Mar 2005 - 00:02:04 EST

root@2[ronggui]# ulimit -a

core file size        (blocks, -c) 0
data seg size         (kbytes, -d) unlimited
file size             (blocks, -f) unlimited
max locked memory     (kbytes, -l) unlimited
max memory size       (kbytes, -m) unlimited
open files                    (-n) 1024
pipe size          (512 bytes, -p) 8
stack size            (kbytes, -s) 8192
cpu time             (seconds, -t) unlimited
max user processes            (-u) unlimited
virtual memory        (kbytes, -v) unlimited

so it seems the data segment size is not limited. and it is still free mem(1000k or so),and swap(100000k or so),and the error is(i translate it from chinese into english,maybe not exactly ,but i think the meanings are right): error:can not allocate the vector size of 390585kb. (错误: 无法分配大小为390585 Kb的向量)

On Wed, 30 Mar 2005 07:34:13 -0500
jon butchar <butchar.2@osu.edu> wrote:

> How much memory is free when R fails (e.g., what does "top" show while trying to run your clustering)? If there's still a sizeable amount of free memory you may have to look into the system limits, maximum data segment size in particular. Many Linux distros have it set to "unlimited" but default Debian may not. If this turns out to be the problem, please do not, _do not_ raise it to "unlimited," but only to enough for R to work.
>
> hth,
>
> jon b
>
>
>
> On Wed, 30 Mar 2005 18:36:37 +0800
> ronggui <0034058@fudan.edu.cn> wrote:
>
> > here is my system memory:
> > ronggui@0[ronggui]$ free
> > total used free shared buffers cached
> > Mem: 256728 79440 177288 0 2296 36136
> > -/+ buffers/cache: 41008 215720
> > Swap: 481908 60524 421384
> >
> > and i want to cluster my data using hclust.my data has 3 variables and 10000 cases.but it fails and saying have not enough memory for the vector size. I read the help doc and use $R --max-vsize=800M to start the R 2.1.0beta under debian linux.but it still can not get the solution.so is my pc'memory not enough to carry this analysis or my mistake on setting the memory?
> >
> > thank you.
> >
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R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html Received on Thu Mar 31 00:38:43 2005

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