[R] Bioconductor installation on 64 bit R problem

[Prof Brian Ripley]

Bioconductor has its own list, but note that many of us (including the 
Bioconductor test farm) are happliy testing all the Bioconductor packages 
on 64-bit platforms (including Linux and Solaris -- some at least have 
been used on 64-bit Mac OS 10.5).

So please read the posting guide and follow up on the Bioconductor list 
with all the details requested.

On Mon, 6 Oct 2008, Octavio Espinosa wrote:

> Hello,
>
> I am attempting to install Bioconductor on 64 bit R. The installation of some bioconductor packages fails with the errors below. I would be very grateful for any help on how to resolve the issue.
>
> Best regards,
>
> Octavio Espinosa
>
>
>
> ---------------------
>
>
> Most of the bioconductor packages won't install, for examples 'Biobase'
> errors with:
>
> ** building package indices ...
> Loading required package: methods
> Error in dim(robj) <- c(dX, dY) :
>  dims [product 8] do not match the length of object [16]
> Calls: <Anonymous> ... list_files_with_type -> .make_file_exts -> switch
> -> outer
> Execution halted
> ERROR: installing package indices failed
> ** Removing '/usr/local/lib/R/library/Biobase'
>
> The downloaded packages are in
>        /tmp/RtmpHGbpND/downloaded_packages
> Updating HTML index of packages in '.Library'
> Warning message:
> In install.packages(pkgs = pkgs, repos = repos, dependencies =
> dependencies,  :
>  installation of package 'Biobase' had non-zero exit status
>
>
> It looks like it doesn't work with 64bit stuff (the byte lengths
> mismatch)
>
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>
>
>
> 	[[alternative HTML version deleted]]
>
> ______________________________________________
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> 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