Re: [Rd] capture.output() is trying to allocate 17179869182.6 Gb on my not so big data.frame

From: Martin Maechler <maechler_at_stat.math.ethz.ch>
Date: Wed, 08 Feb 2012 09:55:18 +0100

>>>>> Martin Morgan <mtmorgan_at_fhcrc.org> >>>>> on Tue, 7 Feb 2012 19:31:41 -0800 writes:

    > On 02/07/2012 04:08 PM, Hervé Pagès wrote:

>> Hi,
>>
>> This is what I get with recent R devel on a 64-bit Ubuntu laptop:
>>
>> > mydf <- data.frame(a=1:2080, b=1001:2040, c=letters, d=LETTERS,
>> e=1:1040)
>> > mydf_in_a_character_vector <- capture.output(mydf)
>> Error in print.default(m, ..., quote = quote, right = right) :
>> cannot allocate memory block of size 17179869182.6 Gb

    > The error is thrown inside src/main/printarray.c:425

    > Rprintf("%*s%s", R_print.gap, "",
    > EncodeString(x[i + j * r], w[j], quote, right));

    > where the array w is the result of an unPROTECTed allocation earlier in
    > the function, and a garbage collection triggered in MatrixRowLabel (in
    > this case; allocation also occurs in MatrixColLabel, Rprintf).
    > PROTECTion seems to have been implemented in the file assuming that the
    > only allocations are at the head of the function; the return in the
    > _PRINT_DEAL_c_eq_0 macro makes it difficult to balance the protection
    > stack, and R_alloc seems to be a better solution anyway. 

yes, I think so too.

    > diff attached.

I'm testing that and will commit.. if things seem fine. Martin Maechler

    > Martin Morgan

>>
>> I get something similar with R 2.14.1.
>>
>> Cheers,
>> H.
>>
>> > sessionInfo()
>> R Under development (unstable) (2012-01-16 r58124)
>> Platform: x86_64-unknown-linux-gnu (64-bit)
>>
>> locale:
>> [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
>> [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
>> [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
>> [7] LC_PAPER=C LC_NAME=C
>> [9] LC_ADDRESS=C LC_TELEPHONE=C
>> [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
>>
>> attached base packages:
>> [1] stats graphics grDevices utils datasets methods base
>>

    > -- 
    > Computational Biology
    > Fred Hutchinson Cancer Research Center
    > 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109

    > Location: M1-B861 Telephone: 206 667-2793 x external: printarray.c.diff
    > text/x-patch, u [Click mouse-2 to display text]
    > ______________________________________________ R-devel_at_r-project.org
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