[BioC] affy won't load
jason smith
sjorges2002 at yahoo.com
Sun Jun 15 03:22:55 CEST 2008
Hi,
First I'd like to thank everyone for bioconductor- it has been very useful. I have installed R 2.7.0 GUI 1.24 (5102) on an intel Mac running OS 10.5.3. R seems to be working and when I use biocLite to load packages I get a warning. Then when I try to load the packages everything seems to work except affy (and some related) packages. Here is what I get:
> source("http://bioconductor.org/biocLite.R")
> biocLite()
Running biocinstall version 2.2.9 with R version 2.7.0
Your version of R requires version 2.2 of BioConductor.
Will install the following packages:
[1] "affy" "affydata" "affyPLM" "annaffy" "annotate" "Biobase" "Biostrings" "DynDoc" "gcrma"
[10] "genefilter" "geneplotter" "hgu95av2.db" "limma" "marray" "matchprobes" "multtest" "ROC" "vsn"
[19] "xtable" "affyQCReport"
Please wait...
Warning in install.packages(pkgs = pkgs, repos = repos, dependencies = dependencies, :
argument 'lib' is missing: using '/Users/sjorges2002/Library/R/2.7/library'
And later when I try to load affy:
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared library '/Users/sjorges2002/Library/R/2.7/library/affy/libs/i386/affy.so':
dlopen(/Users/sjorges2002/Library/R/2.7/library/affy/libs/i386/affy.so, 6): Library not loaded: /usr/local/lib/libintl.3.dylib
Referenced from: /Users/sjorges2002/Library/R/2.7/library/affy/libs/i386/affy.so
Reason: image not found
Error in library(affy) : .First.lib failed for 'affy'
What can I do to fix this?
Thanks,
Jason
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