[BioC] Error installing impute package

[Stephanie M. Gogarten]

Is the error occurring just in the R GUI, or in any R session?  I'm 
having a similar problem with DNAcopy when I try to load in the R GUI, 
but it works fine in the terminal or in Emacs.

This is what I get with the GUI:
 > library(DNAcopy)
Error in dyn.load(file, DLLpath = DLLpath, ...) :
   unable to load shared object 
'/Library/Frameworks/R.framework/Versions/3.0/Resources/library/DNAcopy/libs/DNAcopy.so':
 
dlopen(/Library/Frameworks/R.framework/Versions/3.0/Resources/library/DNAcopy/libs/DNAcopy.so, 
6): Library not loaded: /usr/local/lib/libgfortran.2.dylib
   Referenced from: 
/Library/Frameworks/R.framework/Versions/3.0/Resources/library/DNAcopy/libs/DNAcopy.so
   Reason: image not found
Error: package or namespace load failed for ‘DNAcopy’
 > sessionInfo()
R version 3.0.0 (2013-04-03)
Platform: x86_64-apple-darwin10.8.0 (64-bit)

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
[1] BiocInstaller_1.10.0

loaded via a namespace (and not attached):
[1] tools_3.0.0

Stephanie

On 4/10/13 2:41 PM, Peter Langfelder wrote:
> Hello,
>
> a user of my (CRAN) package WGCNA which depends on impute has a
> problem installing impute on his Mac OSX 10.8.3 under R 3.0.0. The
> problem seems to be loading the compiled libary impute.so. Can anyone
> please suggest a solution? Below is a transcript of his session.
>
> Thanks,
>
> Peter
>
>> biocLite("impute", lib = .libPaths())
> BioC_mirror: http://bioconductor.org
> Using Bioconductor version 2.12 (BiocInstaller 1.10.0), R version 3.0.0.
> Installing package(s) 'impute'
> trying URL 'http://bioconductor.org/packages/2.12/bioc/bin/macosx/contrib/3.0/impute_1.34.0.tgz'
> Content type 'application/x-gzip' length 652872 bytes (637 Kb)
> opened URL
> ==================================================
> downloaded 637 Kb
>
>
> The downloaded binary packages are in
>          /var/folders/x_/wps51c0n0tx33tx406_xt9n80000gn/T//Rtmpd8CN5X/downloaded_packages
>> library(impute)
> Error in dyn.load(file, DLLpath = DLLpath, ...) :
>    unable to load shared object
> '/Library/Frameworks/R.framework/Versions/3.0/Resources/library/impute/libs/impute.so':
>    dlopen(/Library/Frameworks/R.framework/Versions/3.0/Resources/library/impute/libs/impute.so,
> 6): Library not loaded: /usr/local/lib/libgfortran.2.dylib
>    Referenced from:
> /Library/Frameworks/R.framework/Versions/3.0/Resources/library/impute/libs/impute.so
>    Reason: image not found
> Error: package or namespace load failed for ‘impute’
>
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