[BioC] Bioconductor on Unix: cannot load the library affy

[Duhaime Johanne]

Hello

I have installed R (1.7.0)  and Bionconductor (1.1)  on Unix (Solaris 2.6). I had no problem for the installation.

When I want to load the package affy (library(affy)) I have an error message as shown below. 

Here are the error, the ~Renviron file and the libraries installed.

-------------------------------------------------------------------------------------------------------------------------------------------

mercure{sasircm}103: bin/R

R : Copyright 2003, The R Development Core Team
Version 1.7.0  (2003-04-16)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type `license()' or `licence()' for distribution details.

R is a collaborative project with many contributors.
Type `contributors()' for more information.
Type `demo()' for some demos, `help()' for on-line help, or
`help.start()' for a HTML browser interface to help.
Type `q()' to quit R.

> library(affy)
Error in library(package, character.only = TRUE, logical = TRUE, warn.conflicts = warn.conflicts,  : 
        This is not a valid package -- no DESCRIPTION exists
Error in library(affy) : .First.lib failed
> q()
Save workspace image? [y/n/c]: n


mercure{sasircm}104: more ~/.Renviron 
R_LIBS="/opt/sasircm/R/R-1.7.0/lib"



mercure{sasircm}105: l /opt/sasircm/R/R-1.7.0/lib
total 38
drwxrwxrwx  18 sasircm  sequence     512 May  8 14:56 ./
drwxrwxrwx  16 sasircm  sequence    1024 May  8 14:42 ../
drwxr-xr-x  12 sasircm  sequence     512 May  8 14:45 Biobase/
-rw-r--r--   1 sasircm  sequence     608 May  8 14:56 R.css
drwxr-xr-x  10 sasircm  sequence     512 May  8 14:45 ROC/
drwxr-xr-x  14 sasircm  sequence     512 May  8 14:56 affy/
drwxr-xr-x  12 sasircm  sequence     512 May  8 14:45 annotate/
drwxr-xr-x  10 sasircm  sequence     512 May  8 14:45 edd/
drwxr-xr-x  12 sasircm  sequence     512 May  8 14:45 genefilter/
drwxr-xr-x  10 sasircm  sequence     512 May  8 14:45 geneplotter/
drwxr-xr-x  11 sasircm  sequence     512 May  8 14:48 graph/
drwxr-xr-x  11 sasircm  sequence     512 May  8 14:48 hexbin/
drwxr-xr-x  10 sasircm  sequence     512 May  8 14:46 marrayClasses/
drwxr-xr-x  11 sasircm  sequence     512 May  8 14:46 marrayInput/
drwxr-xr-x  10 sasircm  sequence     512 May  8 14:47 marrayNorm/
drwxr-xr-x  11 sasircm  sequence     512 May  8 14:47 marrayPlots/
drwxr-xr-x   9 sasircm  sequence     512 May  8 14:47 marrayTools/
drwxr-xr-x  14 sasircm  sequence     512 May  8 14:47 reposTools/
drwxr-xr-x  12 sasircm  sequence     512 May  8 14:47 vsn/


Note: trying a the following command does not work either
> memory.limit(size = NA)
Error: couldn't find function "memory.limit"
> 


Thank you in advance

Johanne Duhaime
IRCM
duhaimj at ircm.qc.ca
tel: (514) 987-5556
fax: (514) 987-5644
www.ircm.qc.ca