[R] R-1.7.1 package installation problem

[Uwe Ligges]

Wang, Rong wrote:

> Hi there,
>    I am a bioinformatician working in DFCI. I am new to R. Yesterday I installed
> the R-1.7.1 to my Linux (since I am not able to find R-1.8 on the webpage). But
> I have some package installation problems ...

R-1.8.0 is still in development (alpha releases available).

> 1. install.packages2() function isn't  available. If I type at R prompt:
> 
>>install.packages2("Biobase")
> 
> Error: couldn't find function "install.packages2"
> *****************************************************
> 
> 2. If I try this:
> 
>>install.packages("Biobase")

It's a Bioconductor package:

  install.packages("Biobase", CRAN = getOption("BIOC"))



> trying URL `http://cran.us.r-project.org/src/contrib/PACKAGES'
> Content type `text/plain' length 127126 bytes
> opened URL
> .......... .......... .......... .......... ..........
> .......... .......... .......... .......... ..........
> .......... .......... ....
> downloaded 124Kb
> 
> Warning message: 
> No package "Biobase" on CRAN. in: download.packages(pkgs, destdir = tmpd,
> available = available, 
> ****************************************************************
> I did go to http://cran.us.r-project.org/src/contrib/PACKAGES to check the
> packages available there, there are quite few ... Many packages, such as
> Biobase, annotate and genefilter, are not included.
> 
> Could you please give me some clue? I do appreciate!
> 
> Sincerely,
> Rong
> 
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