From ripley@stats.ox.ac.uk  Tue Apr 17 07:17:31 2001
From: ripley@stats.ox.ac.uk (ripley@stats.ox.ac.uk)
Date: Tue, 17 Apr 2001 08:17:31 +0200 (MET DST)
Subject: [Rd] cannot allocate vector of size 71773 Kb (PR#915)
Message-ID: <200104170617.IAA20047@pubhealth.ku.dk>

On Tue, 17 Apr 2001 cdhershberger@dow.com wrote:

> Full_Name: Doug Hershberger
> Version: 1.2.2
> OS: Red Hat-Linux 7.0
> Submission from: (NULL) (216.99.65.36)
>
>
> In the R FAQ I find the following entry explaining that R no longer has
> problems with memory.

No longer has the same problems....  There is also a section on
`What is a bug?' that you should read again.

> http://cran.r-project.org/doc/FAQ/R-FAQ.html#Why%20does%20R%20run%20out%20of%20of%20memory%3f
>
> However in my installation: R Version 1.2.2  (2001-02-26)
>
> Installed from the red hat RPM on your site on a Red Hat 7.0 i686
>
> I get the following error when working with large data sets:
>
>                 > source("/usr/local/genex/rcluster/lib/rcluster/r/hcluster.r");
>                > breadth.program("uploaded_data.txt", "average", 10)
>                 Read 2 items
>                 Read 8574 items
>                 Error: cannot allocate vector of size 71773 Kb
>                 Execution halted
>
> Is there a way to fix this? This is running as part of the GeneX

Install more memory, or write better R code, or use better statistical
methods.

> installation so I would have to dig through to figure out how to give R
> more memory.
>
> Besides which I don't think that will work.

We would need to know a lot more about the code to see the problem,
but as a quick guess, clustering 8574 items with the standard algorithms
takes a very large amount of memory (on any system), so it would be the
third alternative.

-- 
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 272860 (secr)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595


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[Rd] cannot allocate vector of size 71773 Kb (PR#915)
ripley@stats.ox.ac.uk