Re: [R] How to increase memory for R on Soliars 10 with 16GB and 64bit R

From: Dongseok Choi <choid_at_ohsu.edu>
Date: Thu 14 Jul 2005 - 04:34:54 EST


Thank you very much for your help!!
Now, it runs without any problem.

Is it going to be fixed in the next release?

Thanks again,
Dongseok

Dongseok Choi, Ph.D.
Assistant Professor
Division of Biostatistics
Department of Public Health & Preventive Medicine Oregon Health & Science University
3181 SW Sam Jackson Park Road, CB-669
Portland, OR 97239-3098
TEL) 503-494-5336
FAX) 503-494-4981
choid@ohsu.edu

>>> "Prof Brian Ripley" <ripley@stats.ox.ac.uk> 07/13/05 12:03 AM >>>
On Tue, 12 Jul 2005, Dongseok Choi wrote:

> My machine is SUN Java Workstation 2100 with 2 AMD Opteron CPUs and 16GB RAM.
> R is compiled as 64bit by using SUN compilers.
> I trying to fit quantile smoothing on my data and I got an message as below.
>
>> fit1<-rqss(z1~qss(cbind(x,y),lambda=la1),tau=t1)
> Error in as.matrix.csr(diag(n)) :
cannot allocate memory block of size 2496135168
>
> The lengths of vector x and y are both 17664.
> I tried and found that the same command ran with x[1:16008] and y[1:16008].
> So, it looks to me a memory related problem, but I'm not sure how I can allocate memory block.
> I read the command line option but not sure what do to with it.
> Could you help me on this?

It is trying to allocate a single memory block of size over 2^31-1 bytes. R internally uses ints for sizes of vectors and that is a limit (see help("Memory-limits") ). However, it is intended that on 64-bit systems that there is a limit here of 8*(2^31-1) but there was a typo. Please change line 1534 of src/main/memory.c to

#if SIZEOF_LONG > 4

and re-compile.

-- 
Brian D. Ripley,                  ripley@stats.ox.ac.uk 
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/ 
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595

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Received on Thu Jul 14 04:39:25 2005

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