[BioC] Bioconductor installation for SUSE 11.1

[Sean Davis]

On Thu, Nov 26, 2009 at 8:56 AM, Jonathan Sive
<jonathan.sive at cancer.ucl.ac.uk> wrote:
> Dear List
>
> I'm having difficulties download Bioconductor onto an OpenSUSE 11.1 system.
> Many of the Biobase component packages install fine, but the full set won't download, nor will other Bioconductor packages eg GEOquery.
>
> Below is the final bit of the ouptput including error messages - the RCurl package seems to be a problem.

Did you install libcurl and the devel libraries for it?

Sean

> Any ideas how to get round this?
>
> Thanks
> Jonathan Sive
>
>
> Warning in library(pkg, character.only = TRUE, logical.return = TRUE, lib.loc = lib.loc) :
>  there is no package called 'affy'
> Error : package 'affy' could not be loaded
> ERROR: lazy loading failed for package ‘affyQCReport’
> * removing ‘/home/POGBDOM/regmjs9/R/x86_64-unknown-linux-gnu-library/2.10/affyQCReport’
>
> The downloaded packages are in
>        ‘/tmp/Rtmpp2hkWJ/downloaded_packages’
> There were 13 warnings (use warnings() to see them)
>> warnings()
> Warning messages:
> 1: In install.packages(pkgs = pkgs, repos = repos, ...) :
>  installation of package 'affyio' had non-zero exit status
> 2: In install.packages(pkgs = pkgs, repos = repos, ...) :
>  installation of package 'XML' had non-zero exit status
> 3: In install.packages(pkgs = pkgs, repos = repos, ...) :
>  installation of package 'RCurl' had non-zero exit status
> 4: In install.packages(pkgs = pkgs, repos = repos, ...) :
>  installation of package 'affy' had non-zero exit status
> 5: In install.packages(pkgs = pkgs, repos = repos, ...) :
>  installation of package 'biomaRt' had non-zero exit status
> 6: In install.packages(pkgs = pkgs, repos = repos, ...) :
>  installation of package 'affydata' had non-zero exit status
> 7: In install.packages(pkgs = pkgs, repos = repos, ...) :
>  installation of package 'annaffy' had non-zero exit status
> 8: In install.packages(pkgs = pkgs, repos = repos, ...) :
>  installation of package 'gcrma' had non-zero exit status
> 9: In install.packages(pkgs = pkgs, repos = repos, ...) :
>  installation of package 'vsn' had non-zero exit status
> 10: In install.packages(pkgs = pkgs, repos = repos, ...) :
>  installation of package 'affyPLM' had non-zero exit status
> 11: In install.packages(pkgs = pkgs, repos = repos, ...) :
>  installation of package 'genefilter' had non-zero exit status
> 12: In install.packages(pkgs = pkgs, repos = repos, ...) :
>  installation of package 'simpleaffy' had non-zero exit status
> 13: In install.packages(pkgs = pkgs, repos = repos, ...) :
>  installation of package 'affyQCReport' had non-zero exit status
>
>
>
>
>
>
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