[BioC] shared object ‘mzR.so’ not found after mzR update

[Steve Lianoglou]

Hi,

The errors you paste below suggest that you likely only have the 64bit
version of mzR installed. Assuming that R is set to run in 64bit mode
by default, if you try to install your package from the command line
like so:

R CMD INSTALL --no-multiarch /path/to/yourPackage

Does it work?

HTH,

-steve

On Thu, Mar 28, 2013 at 2:36 AM, Alejandra Gonzalez-Beltran
<alejandra.gonzalez.beltran at gmail.com> wrote:
> Dear all,
>
> After I updated the mzR package, I am unable to check or install my package
> due to 'shared object ‘mzR.so’ not found' . I am including the whole error
> and my sessionInfo() below.
>
> I thought it could be related to the recent changes as discussed in the
> thread entitled "mzR crashes R" and I have followed the discussion and
> tried to re-install mzR in different ways (e.g. indicating the mirror site,
> from source) but the problem persists.
>
> I will be grateful to get some guidance on how to solve this issue.
>
> Best regards,
>
> Alejandra
>
> ___
> * installing *source* package ‘Risa’ ...
> ** R
> ** inst
> ** preparing package for lazy loading
> ** help
> *** installing help indices
> ** building package indices
> ** installing vignettes
>    'Risa.Rnw'
> ** testing if installed package can be loaded
> *** arch - i386
> Error in library.dynam(lib, package, package.lib) :
>   shared object ‘mzR.so’ not found
> Calls: sys.load.image ... tryCatch -> tryCatchList -> tryCatchOne ->
> <Anonymous>
> Execution halted
> *** arch - x86_64
> During startup - Warning message:
> Class "C++Object" is defined (with package slot ‘Rcpp’) but no metadata
> object found to revise subclass information---not exported?  Making a copy
> in package ‘.GlobalEnv’
> ERROR: loading failed for 'i386'
> ___
>
> ___  sessionInfo()
>> sessionInfo()
> R version 2.15.3 (2013-03-01)
> Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)
>
> locale:
> [1] en_GB.UTF-8/en_GB.UTF-8/en_GB.UTF-8/C/en_GB.UTF-8/en_GB.UTF-8
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] Risa_1.1.0          biocViews_1.26.0    Rcpp_0.10.3
> Biobase_2.18.0      BiocGenerics_0.4.0  BiocInstaller_1.8.3
>
> loaded via a namespace (and not attached):
>  [1] codetools_0.2-8 graph_1.36.2    mzR_1.4.7       RBGL_1.34.0
> RCurl_1.95-4.1  RUnit_0.4.26    stats4_2.15.3
>  [8] tools_2.15.3    xcms_1.34.0     XML_3.95-0.2
> ____
>
>         [[alternative HTML version deleted]]
>
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at r-project.org
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor



-- 
Steve Lianoglou
Defender of The Thesis
 | Memorial Sloan-Kettering Cancer Center
 | Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact