[BioC] Library loading problem

Dan Tenenbaum dtenenba at fhcrc.org
Sat Mar 22 23:11:34 CET 2014

----- Original Message -----
> From: "prabhakar ghorpade" <prabhakar_ghorpade at yahoo.co.in>
> To: bioconductor at r-project.org
> Sent: Saturday, March 22, 2014 2:48:29 PM
> Subject: [BioC] Library loading problem
> Hi,
> I have installed affy package in R version 3.0.3 from local zip
> library. When I tried access affy by library("affy") I am getting
> following message saying error in affy package at last. How can I
> resolve it. Similar problem is encountered in accessing other
> packages installed from local zip library. As in my university
> direct access to  is not permitted so I need to download them to run
> them. Thanks.
> > library("affy")
> Loading required package: BiocGenerics
> Loading required package: parallel
> Attaching package: ‘BiocGenerics’
> The following objects are masked from ‘package:parallel’:
>     clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
>     clusterExport, clusterMap, parApply, parCapply, parLapply,
>     parLapplyLB, parRapply, parSapply, parSapplyLB
> The following object is masked from ‘package:stats’:
>     xtabs
> The following objects are masked from ‘package:base’:
>     anyDuplicated, append, as.data.frame, as.vector, cbind, colnames,
>     duplicated, eval, evalq, Filter, Find, get, intersect,
>     is.unsorted,
>     lapply, Map, mapply, match, mget, order, paste, pmax, pmax.int,
>     pmin, pmin.int, Position, rank, rbind, Reduce, rep.int, rownames,
>     sapply, setdiff, sort, table, tapply, union, unique, unlist
> Loading required package: Biobase
> Welcome to Bioconductor
>     Vignettes contain introductory material; view with
>     'browseVignettes()'. To cite Bioconductor, see
>     'citation("Biobase")', and for packages 'citation("pkgname")'.
> Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck =
> vI[[i]]) :
>   there is no package called ‘affyio’

This is telling you that you also need to install the 'affyio' package. That might result in another similar error, keep installing the relevant package until the error goes away. If you had direct acess to the internet you could of course install affy and all its dependencies with a single command.


> In addition: Warning messages:
> 1: package ‘affy’ was built under R version 3.0.2
> 2: package ‘BiocGenerics’ was built under R version 3.0.2
> 3: package ‘Biobase’ was built under R version 3.0.2
> Error: package or namespace load failed for ‘affy’
> 	[[alternative HTML version deleted]]
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