[R] hclust-segmentation fault

Martin Maechler maechler at stat.math.ethz.ch
Mon Aug 9 18:15:51 CEST 2004

>>>>> "MarioM" == Medvedovic, Mario (medvedm) <medvedm at UCMAIL.UC.EDU>
>>>>>     on Mon, 9 Aug 2004 11:31:45 -0400  writes:

    MarioM> Well, the use of debugger will take some time
did you try

    R -d gdb

    <... GDB welcome messages....>
    <... GDB welcome messages....>


and then the R commands and after the segmentation fault, simply
        { = 'backtrace' =^=  traceback() in R }

    MarioM> but here is a simple code that invariably causes the
    MarioM> fault.  Mario.

     indata <- matrix(rnorm(1000,0,1),ncol=10)
     ed <- dist(indata)
     hc.e <- hclust(ed,"average")

to make this really reproducible you'd have to give a 
at the beginning. But since you say it's "invariably", that's ok.
As for Prof Ripley's, these R calls also work here on our Opteron
machine w/o a problem.

Martin Maechler

    >> -----Original Message----- From: Prof Brian Ripley
    >> [mailto:ripley at stats.ox.ac.uk] Sent: Monday, August 09,
    >> 2004 11:14 AM To: Medvedovic, Mario (medvedm) Cc:
    >> 'r-help at stat.math.ethz.ch' Subject: Re: [R]
    >> hclust-segmentation fault
    >> On Mon, 9 Aug 2004, Medvedovic, Mario (medvedm) wrote:
    >>> I am getting the "Segmentation fault" when using hclust
    >>> in
    >> R-1.9.1 running
    >>> under SuSe 9.0 64-bit kernel on a dual opteron system
    >>> with
    >> 8G of RAM.
    >>> I was wandering if anybody could offer any insight?
    >>  Please try to use the debugger to supply more
    >> information, or give us some code we can reproduce on a
    >> similar system to see if we can reproduce the segfault.
    >> -- 
    >> 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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