Re: [R] Erro: cannot allocate vector of size 216.0 Mb

From: JosÚ Augusto Jr. <jamajbr_at_gmail.com>
Date: Tue, 22 Jul 2008 19:03:03 -0300

Dear all,

I have some news.

First, i sucessfully installed Ubuntu 8.04 LTS in my notebook with R too. The problem simply disappeared. Now, i can embed my 1.000.000 observations time-series even in 20 dimensions without problem, in the same notebook.

I'm writing this message to encourage people migrating to Ubuntu. W$ e M$ are shit.

Thank you all.

Regards,

jamaj

2008/7/21 JosÚ Augusto Jr. <jamajbr_at_gmail.com>:
> Dear all,
>
> Thank you by your attention.
>
> 1) I'm using a Core 2 Duo CPU with 2MB physical memory and Windows Vista
> 2) The main function, that┤s causing the error, is embedd(x=data,d,t).
> 3) The time series that i┤m using has 1.000.000 observations of real numbers.
> 4) Sometimes the function works, sometimes, not.
>
> Some things i┤m doing:
>
> 1) I have put x <- NULL and gc() in the end of each memory-intensive
> routine (embedding), to release memory.
>
> 2) I installed Ubuntu linux in the same machine and will try the same routine.
> "Efective men use Unix" :)
>
> And my plans to the future:
>
> 3) If this not work, i will try to rewrite the code to reduce memory
> requirements.
>
> 4) If this not work, i will try to parallelize the code, by using snow
> ou Rmpi, something like this.
>
> 5) If this not work, i will try to use a cluster, with sufficient
> memory to let this work.
>
> Any suggestions?
>
> Many thanks.
>
> Regards,
>
> jamaj
>
>
> 2008/7/21, Prof Brian Ripley <ripley_at_stats.ox.ac.uk>:
>> On Mon, 21 Jul 2008, Uwe Ligges wrote:
>>
>> > Several questions:
>> >
>> > - Before we go ahead: Are you sure 3 Gb are sufficient for your problem?
>> > - Which OS (I guess Windows)?
>> >
>>
>> (The only platform on which these functions are supported.)
>>
>> > - Which version of R (let's assume R-2.7.1)?
>> > - Is your Windows 3GB enabled in the boot flags, or is it a 64-bit version
>> of Windows?
>> >
>>
>> (No, or the default memory limit would be higher than 1.5Gb. R by default
>> uses as high a memory limit as is sensible if (as here) the address space is
>> the limiting factor.)
>>
>>
>> >
>> >
>> > Best wishes,
>> > Uwe Ligges
>> >
>> >
>> >
>> > JosÚ Augusto Jr. wrote:
>> >
>> > > Please,
>> > >
>> > > I have a 2GB computer and a huge time-series to embedd, and i tried
>> > > increasing memory.limit() and memory.size(max=TRUE), but nothing.
>> > >
>> > > Just before the command:
>> > >
>> > >
>> > > > memory.size(max=TRUE)
>> > > >
>> > > [1] 13.4375
>> > >
>> > > > memory.limit()
>> > > >
>> > > [1] 1535.875
>> > >
>> > > > gc()
>> > > >
>> > > used (Mb) gc trigger (Mb) max used (Mb)
>> > > Ncells 209552 5.6 407500 10.9 350000 9.4
>> > > Vcells 125966 1.0 786432 6.0 496686 3.8
>> > >
>> > >
>> > > I increased the memory limit:
>> > >
>> > >
>> > > > memory.limit(3000)
>> > > >
>> > > NULL
>> > >
>> > > > memory.limit()
>> > > >
>> > > [1] 3000
>> > >
>> > > > memory.size()
>> > > >
>> > > [1] 11.33070
>> > >
>> > > > memory.size(max=TRUE)
>> > > >
>> > > [1] 13.4375
>> > >
>> > > > gc()
>> > > >
>> > > used (Mb) gc trigger (Mb) max used (Mb)
>> > > Ncells 209552 5.6 407500 10.9 350000 9.4
>> > > Vcells 125964 1.0 786432 6.0 496686 3.8
>> > >
>> > >
>> > > And even trying to increase the memory.limits, i still get and error.
>> > >
>> > > Any sugestions?
>> > >
>> > >
>> > > Thanks in advance.
>> > >
>> > > jama
>> > >
>> > > ______________________________________________
>> > > R-help_at_r-project.org mailing list
>> > >
https://stat.ethz.ch/mailman/listinfo/r-help
>> > > PLEASE do read the posting guide
>> http://www.R-project.org/posting-guide.html
>> > > and provide commented, minimal, self-contained, reproducible code.
>> > >
>> >
>> > ______________________________________________
>> > R-help_at_r-project.org mailing list
>> > https://stat.ethz.ch/mailman/listinfo/r-help
>> > PLEASE do read the posting guide
>> http://www.R-project.org/posting-guide.html
>> > and provide commented, minimal, self-contained, reproducible code.
>> >
>> >
>>
>> --
>> Brian D. Ripley, ripley_at_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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https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. Received on Tue 22 Jul 2008 - 22:12:10 GMT

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