[BioC] installation of Rsamtools
Conny [guest]
guest at bioconductor.org
Fri Dec 30 11:39:46 CET 2011
I still have problems installing Rsamtools. The first idea was that my R version was too old - so I updated it to the latest version. still the installation does not work - any ideas?
this is just the end of the list after:
> biocLite("Rsamtools")
Warning: S3 methods â[<-.CURLOptionsâ, â[[<-.CURLOptionsâ were declared in NAMESPACE but not found
Error in library.dynam(lib, package, package.lib) :
shared object âRCurl.soâ not found
ERROR: lazy loading failed for package âRsamtoolsâ
* removing â/home/lab/R/x86_64-pc-linux-gnu-library/2.14/Rsamtoolsâ
* restoring previous â/home/lab/R/x86_64-pc-linux-gnu-library/2.14/Rsamtoolsâ
The downloaded packages are in
â/tmp/RtmpRyJ4Zm/downloaded_packagesâ
Warning messages:
1: In install.packages(pkgs = pkgs, repos = repos, ...) :
installation of package âRCurlâ had non-zero exit status
2: In install.packages(pkgs = pkgs, repos = repos, ...) :
installation of package âXMLâ had non-zero exit status
3: In install.packages(pkgs = pkgs, repos = repos, ...) :
installation of package ârtracklayerâ had non-zero exit status
4: In install.packages(pkgs = pkgs, repos = repos, ...) :
installation of package âRsamtoolsâ had non-zero exit status
farther above there was also the error:
Error : package âRCurlâ required by ârtracklayerâ could not be found
ERROR: lazy loading failed for package ârtracklayerâ
-- output of sessionInfo():
R version 2.14.1 (2011-12-22)
Platform: x86_64-pc-linux-gnu (64-bit)
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=C LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] BiocInstaller_1.2.1
loaded via a namespace (and not attached):
[1] tcltk_2.14.1 tools_2.14.1
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