[R] (no subject)

[Gavin Simpson]

On Fri, 2010-10-22 at 05:54 -0700, Penny Adversario wrote:
> I am doing cluster analysis on 8768 respondents on 5 lifestyle
> variables and am having difficulty constructing a dissimilarity matrix
> which I will use for PAM.  I always get an error:  “cannot allocate
> vector of size 293.3 Mb” even if I have already increased my memory to
> its limit of 4000.  I did it on 2GB , 32-bit OS .  I tried ff and
> filehash and I still get the same error.  Can you please help me? 

You probably don't have quite enough RAM on your system. I can manage
this on a similar sized data set as yours using dummy data
(rnorm(8768*5)) with 3.7Gb of RAM available on Linux.

Did you leave all the other arguments unchanged?

df <- data.frame(matrix(rnorm(8678*5), ncol = 5))
require(cluster)
foo <- pam(df, k = 4)

works OK for me.

HTH

G

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 Dr. Gavin Simpson             [t] +44 (0)20 7679 0522
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