[Bioc-devel] biocLite Install Path

[Dario Strbenac]

Hello,

It seems like the 'lib' argument is being ignored when it gets passed onto install.packages.

> source("http://www.bioconductor.org/biocLite.R")
BiocInstaller version 1.1.19 loaded, type ?biocLite for help
> biocLite("GenomicFeatures", lib = "F:\\BIOC29")
Installing package(s) into ‘C:/Users/dario/Documents/R/win64-library/2.11’
(as ‘lib’ is unspecified)
trying URL 'http://www.bioconductor.org/packages/2.9/bioc/bin/windows/contrib/2.14/BiocInstaller_1.1.28.zip'
Content type 'application/zip' length 29003 bytes (28 Kb)
opened URL
downloaded 28 Kb

package ‘BiocInstaller’ successfully unpacked and MD5 sums checked

...             ...

> sessionInfo()
R version 2.14.0 alpha (2011-10-11 r57214)
Platform: i386-pc-mingw32/i386 (32-bit)

locale:
[1] LC_COLLATE=English_Australia.1252  LC_CTYPE=English_Australia.1252   
[3] LC_MONETARY=English_Australia.1252 LC_NUMERIC=C                      
[5] LC_TIME=English_Australia.1252    

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] BiocInstaller_1.1.28

loaded via a namespace (and not attached):
[1] tools_2.14.0

But when I look at F:\BIOC29, the packages are actually installed there.

--------------------------------------
Dario Strbenac
Research Assistant
Cancer Epigenetics
Garvan Institute of Medical Research
Darlinghurst NSW 2010
Australia