Message-ID: <alpine.LFD.1.10.0809051526520.20807@gannet.stats.ox.ac.uk>
Date: 2008-09-05T14:28:40Z
From: Brian Ripley
Subject: Problem installing Biobase on Solaris
In-Reply-To: <48C13C3A.1040503@genedrift.org>
What compiler is this? This is a compiler issue, not an R one.
My guess is that you are mixing gcc (which has __builtin_isnan) and cc
(which does not).
On Fri, 5 Sep 2008, Paulo Nuin wrote:
> Hi everyone
>
> This is my first post to the list. I had experience installing and using
> Bioconductor on Linux and Windows systems but I am encountering problems
> installing Biobase on Solaris running on Sparc. The package compilation works
> fine, with only a warning
>
> warning: implicit declaration of function `__builtin_isnan'
>
> the help files are generated but in the end it fails with an error also
> related __builtin_isnan
>
> ** building package indices ...
> Error in dyn.load(file, DLLpath = DLLpath, ...) :
> unable to load shared library
> '/usr/local/lib/R/library/Biobase/libs/Biobase.so':
> ld.so.1: R: fatal: relocation error: file
> /usr/local/lib/R/library/Biobase/libs/Biobase.so: symbol __builtin_isnan:
> referenced symbol not found
> Calls: <Anonymous> ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
> Execution halted
> ERROR: installing package indices failed
>
> The machine I am using is a Sun SPARC Victoria Falls SunOS 5.10
> Generic_127111-11 sun4v sparc SUNW,T5140
>
> I posted this message to the BioC list and it was suggested that I tried
> installing any R package that needed compilation. I installed the XML package
> with no problems. Any help is appreciated. Thanks in advance
>
> Paulo
>
> ______________________________________________
> R-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-devel
>
--
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