[BioC] Upgrading R

[Robert Gentleman]

Hi,

On Mon, May 11, 2009 at 3:47 AM, arnaud Le Cavorzin <arnaudlc at msn.com> wrote:
>
> Hi,
>
> Yes you can do it, read the R FAQ on the cran website.
>
> I quote it :
>
>
> "That's a matter of taste.  For most people the best thing to do is to
> uninstall R (see the previous Q), install the new version, copy any
> installed packages to the library folder in the new installation, run
> update.packages(checkBuilt=TRUE, ask=FALSE) in the new R and then
> delete anything left of the old installation.  Different versions of R
> are quite deliberately installed in parallel folders so you can keep old
> versions around if you wish.

  well, for Bioconductor, since we bump all version numbers at each
release, the net effect is that all Bioconductor packages will be
reinstalled. Users may save a little bit of downloading doing this.
Also, for Bioconductor you need to be careful to ensure that your
repositories are set correctly so that update.packages finds the
Bioconductor one - which is why we prefer that users simply use the
directions posted on the Bioconductor site and reinstall at each
upgrade of R.

  best wishes
    Robert

>
>
> For those with a personal library (folder R\win-library\x.y
> of your home directory), you will need to update that too when the minor
> version of R changes (e.g. from 2.6.2 to 2.7.0).  A simple way
> to do so is to copy (say) R\win-library\2.6 to
> R\win-library\2.7 before running
> update.packages(checkBuilt=TRUE, ask=FALSE)."
> You can install the new version, copy your package from the old R version library to the new, and after uninstall the old version.
> I hope it will help you,
>
> Best regards
>
> Arnaud
>
>
> On Sat, May 9, 2009 at 4:33 PM, Sarmah, Chintanu Kumar
> <Chintanu.Sarmah2 at lincolnuni.ac.nz> wrote:
>> Hi,
>> Wonder if there is a way to upgrade R.
>> I’m currently using R 2.7.2, and wish to ‘upgrade’ to the latest one via some process that doesn’t make me reinstall all the packages again !! Please let me know.
>> Thank you !
>> Chintanu
>>
>>        [[alternative HTML version deleted]]
>>
>>
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>
>
>
> --
> Robert Gentleman, PhD
> Program in Computational Biology
> Division of Public Health Sciences
> Fred Hutchinson Cancer Research Center
> 1100 Fairview Ave. N, M2-B876
> PO Box 19024
> Seattle, Washington 98109-1024
> 206-667-7700
> rgentlem at fhcrc.org
>
>
>
>
>
>
> _________________________________________________________________
>
> n ligne... si nouveaux qu'ils ne sont pas encore sortis officiellement sur le marché !
>
>        [[alternative HTML version deleted]]
>
>
> _______________________________________________
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>



-- 
Robert Gentleman, PhD
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M2-B876
PO Box 19024
Seattle, Washington 98109-1024
206-667-7700
rgentlem at fhcrc.org