[BioC] (no subject)

[Robert Gentleman]

On Mon, Mar 03, 2003 at 04:44:56PM -0800, Tiago R Magalhaes wrote:
> I am sorry to bother you with such an irrelevant question and I understand 
> if you can't reply to it
> 
> I am biologist working on microarrays (Affy) and I am trying to run R (I 
> have some experience on S plus)
> I tryed to install the Bioconductor Package and I cannot
> it tells me that I have to install an XML file:
> Package annotate version 1.0.5 requires package XML version >= 0.92-2, 
> would you like to try to install this package? [yes/no] yes
> 
> when I click yes it runs, dowloads something and then:
> Warning message:
> Running R version 1.6.2 and package XML was built for R version 1.6.1, 
> skipping.
> Please look at the option versForce if you would like to continue. in: 
> installPkg(fileName, pkg, pkgVer, type, lib, repEntry, versForce)

  Hmm,
   I am not sure where you are getting an old XML from?,
  but what you can do is,
  start R
  use the menu named Packages
  from that select the item 
   Install Package from CRAN
  from the dialog select
   XML
 
 and that should handle XML; then try to install Bioconductor again
 with that in

 Robert


> 
> and I am stuck
> 
> any ideas on how to solve this problem?
> 
> thanks very much
> 
> 
> tiago magalhaes
> 
> 
> (follows the all dialogue with the computer)
> 
> [1] "Getting/installing packages reposTools and Biobase"
> Package annotate version 1.0.5 requires package XML version >= 0.92-2, 
> would you like to try to install this package? [yes/no] yes
> Note: No specified download type, defaulting to Win32
> [1] "Attempting to download XML from 
> http://www.bioconductor.org//CRANrepository"
> [1] "Download complete."
> [1] "Installing XML"
>  From URL:  http://www.bioconductor.org//CRANrepository
>          XML version 0.93-1
> 
> Packages that were not updated:
>          annotate
>          genefilter
>          geneplotter
>          edd
>          ROC
>          multtest
>          Biobase
>          tkWidgets
> 
> Warning message:
> Running R version 1.6.2 and package XML was built for R version 1.6.1, 
> skipping.
> Please look at the option versForce if you would like to continue. in: 
> installPkg(fileName, pkg, pkgVer, type, lib, repEntry, versForce)
> 
> _______________________________________________
> Bioconductor mailing list
> Bioconductor@stat.math.ethz.ch
> http://www.stat.math.ethz.ch/mailman/listinfo/bioconductor

-- 
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| Robert Gentleman                 phone : (617) 632-5250                   |
| Associate Professor              fax:   (617)  632-2444                   |
| Department of Biostatistics      office: M1B20                            |
| Harvard School of Public Health  email: rgentlem@jimmy.dfci.harvard.edu   |
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