[BioC] Problem installing BiocGenerics package
Eric Lucas [guest]
guest at bioconductor.org
Tue Jan 21 14:21:20 CET 2014
Hello,
I am trying to install the BiocGenerics package in R 3.0.1 on Linux Mint 16 (based on Ubuntu 13.10). When I run "biocLite('BiocGenerics'), I get an error saying 'no item called "(unknown)" on the search list' (full output below). I've had a look but couldn't find any other record of this problem online. Any help would be gratefully appreciated
Thanks
Eric
-- output of sessionInfo():
> source('http://bioconductor.org/biocLite.R')
Bioconductor version 2.13 (BiocInstaller 1.12.0), ?biocLite for help
> biocLite('BiocGenerics')
BioC_mirror: http://bioconductor.org
Using Bioconductor version 2.13 (BiocInstaller 1.12.0), R version 3.0.1.
Installing package(s) 'BiocGenerics'
trying URL 'http://bioconductor.org/packages/2.13/bioc/src/contrib/BiocGenerics_0.8.0.tar.gz'
Content type 'application/x-gzip' length 30969 bytes (30 Kb)
opened URL
==================================================
downloaded 30 Kb
* installing *source* package âBiocGenericsâ ...
** R
** inst
** preparing package for lazy loading
Creating a new generic function for âappendâ in package âBiocGenericsâ
Creating a new generic function for âas.data.frameâ in package âBiocGenericsâ
Creating a new generic function for âas.vectorâ in package âBiocGenericsâ
Creating a new generic function for âcbindâ in package âBiocGenericsâ
Creating a new generic function for ârbindâ in package âBiocGenericsâ
Creating a new generic function for âduplicatedâ in package âBiocGenericsâ
Creating a new generic function for âanyDuplicatedâ in package âBiocGenericsâ
Creating a new generic function for âevalâ in package âBiocGenericsâ
Creating a new generic function for âpmaxâ in package âBiocGenericsâ
Creating a new generic function for âpminâ in package âBiocGenericsâ
Creating a new generic function for âpmax.intâ in package âBiocGenericsâ
Creating a new generic function for âpmin.intâ in package âBiocGenericsâ
Creating a new generic function for âReduceâ in package âBiocGenericsâ
Creating a new generic function for âFilterâ in package âBiocGenericsâ
Creating a new generic function for âFindâ in package âBiocGenericsâ
Creating a new generic function for âMapâ in package âBiocGenericsâ
Creating a new generic function for âPositionâ in package âBiocGenericsâ
Creating a new generic function for âgetâ in package âBiocGenericsâ
Creating a new generic function for âmgetâ in package âBiocGenericsâ
Creating a new generic function for âis.unsortedâ in package âBiocGenericsâ
Creating a new generic function for âlapplyâ in package âBiocGenericsâ
Creating a new generic function for âsapplyâ in package âBiocGenericsâ
Creating a new generic function for âmapplyâ in package âBiocGenericsâ
Creating a new generic function for âmatchâ in package âBiocGenericsâ
Creating a new generic function for âorderâ in package âBiocGenericsâ
Creating a new generic function for âpasteâ in package âBiocGenericsâ
Creating a new generic function for ârankâ in package âBiocGenericsâ
Creating a new generic function for ârep.intâ in package âBiocGenericsâ
Creating a new generic function for ârownamesâ in package âBiocGenericsâ
Creating a new generic function for âcolnamesâ in package âBiocGenericsâ
Creating a new generic function for âunionâ in package âBiocGenericsâ
Creating a new generic function for âintersectâ in package âBiocGenericsâ
Creating a new generic function for âsetdiffâ in package âBiocGenericsâ
Creating a new generic function for âsortâ in package âBiocGenericsâ
Creating a new generic function for âtableâ in package âBiocGenericsâ
Creating a new generic function for âtapplyâ in package âBiocGenericsâ
Creating a new generic function for âuniqueâ in package âBiocGenericsâ
Creating a new generic function for âunlistâ in package âBiocGenericsâ
Creating a new generic function for âxtabsâ in package âBiocGenericsâ
Creating a new generic function for âclusterCallâ in package âBiocGenericsâ
Creating a new generic function for âclusterApplyâ in package âBiocGenericsâ
Creating a new generic function for âclusterApplyLBâ in package âBiocGenericsâ
Creating a new generic function for âclusterEvalQâ in package âBiocGenericsâ
Error in as.environment(db) :
no item called "(unknown)" on the search list
Error : unable to load R code in package âBiocGenericsâ
ERROR: lazy loading failed for package âBiocGenericsâ
* removing â/media/Share/R/x86_64-pc-linux-gnu-library/3.0/BiocGenericsâ
The downloaded source packages are in
â/tmp/RtmpLwTcEP/downloaded_packagesâ
Warning message:
In install.packages(pkgs = pkgs, lib = lib, repos = repos, ...) :
installation of package âBiocGenericsâ had non-zero exit status
--
Sent via the guest posting facility at bioconductor.org.
More information about the Bioconductor
mailing list