[BioC] memory.limit

[Henrik Bengtsson]

On 8/3/06, Dmitriy Scvortsov <scvortso at usc.edu> wrote:
> Hi guys
>
>   I am trying to load dataset of 50 cel files using   ReadAffy in my machine
>
>
> It runs win XP and I'm using R Version 2.3.1
>
> Each  cel file is about 13 mb  so estimated memory usage is at most 800 mb
> I have 2G available
>
> I have requested memory limit  2G by   memory.limit(size=2048  ) command,
> but  I keep getting
>
> Error message "Error: cannot allocate vector of size 518671 Kb"    which is
> less than default 1G.
>
> When I am trying to check amount of memory available  by
>
> >memory.size(max =T)
>
> >[1] 546152448
>
> Can anybody explain  me what's going on here , and  how to make it work ?

Anyone correct me if I'm wrong, but what the error message says is
that R could not allocate a *contiguous* vector of size 518671Kb in
RAM; that is that your memory is fragmented.  It might help shutting
down all applications (or even restart Windows) and restart R.

/Henrik

> Thank you
>
>
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