[BioC] Biobase in R 2.12 referencing libR.dylib from R 2.11, bug?

[Hervé Pagès]

Hi Josef and Emad,

Yes sadly our Mac binaries have this problem. Some people already
reported this on the BioC-devel list:

   https://stat.ethz.ch/pipermail/bioc-devel/2010-October/002348.html

We are currently rebuilding them and will update you when they are
fixed.

Thanks for your patience and sorry for the inconvenience,
H.


On 10/19/2010 02:20 PM, Josef Spidlen wrote:
> Hi guys,
> we have installed R 2.12 and BioConductor on a new Mac. The installation
> worked fine without any errors; however, the following error is produced
> when trying to load Biobase:
>
>  > library(Biobase)
> Error in dyn.load(file, DLLpath = DLLpath, ...) :
> unable to load shared object
> '/Users/eramadan/Library/R/2.12/library/Biobase/libs/x86_64/Biobase.so':
> dlopen(/Users/eramadan/Library/R/2.12/library/Biobase/libs/x86_64/Biobase.so,
> 6): Library not loaded:
> /Library/Frameworks/R.framework/Versions/2.11/Resources/lib/libR.dylib
> Referenced from:
> /Users/eramadan/Library/R/2.12/library/Biobase/libs/x86_64/Biobase.so
> Reason: image not found
> Error: package/namespace load failed for 'Biobase'
>
> The odd thing is the "2.11" in the path to libR.dylib; this does not
> exist and should likely be 2.12. Subsequently, all the BioConductor
> packages fail to load since they depend on Biobase.
>
> Please help.
>
> We are using the following configuration:
>  > sessionInfo()
> R version 2.12.0 Patched (2010-10-19 r53362)
> Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)
>
> locale:
> [1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
>
> attached base packages:
> [1] stats graphics grDevices utils datasets methods base
>
> loaded via a namespace (and not attached):
> [1] tools_2.12.0
>
> Thanks so much,
> Josef and Emad
>
>


-- 
Hervé Pagès

Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
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