Hi Ina

If you want to install developing version packages using biocLite(), you
also need to install the developing version of R (2.14.xxx) because biocLite
automatically matches the package version based on your R version.  To solve
the problem, you can either manually download the package and install it, or
use install.packages function.

Pan

On Wed, May 18, 2011 at 11:29 AM, Ina Hoeschele <inah@vbi.vt.edu> wrote:

> sorry for the stupid question, but how do I install the developing version
> of lumi 2.5.1  mentioned by Pan below?
>
> I'm running OpenSuse 11.2 and here is the R that I have installed:
>
> inah-960:~ # rpm -qa | grep R-
> R-patched-2.13.0-33.1.x86_64
> R-patched-devel-2.13.0-33.1.x86_64
>
> When I install lumi using biocLite, it tells me this:
>
> trying URL '
> http://bioconductor.org/packages/2.8/bioc/src/contrib/lumi_2.4.0.tar.gz'
>
> which is 2.4.0 and not 2.5.1.
>
> Many thanks, Ina
>
>
> ----- Original Message -----
> From: "Pan Du" <dupan.mail@gmail.com>
> To: "Chao-Jen Wong" <cwon2@fhcrc.org>
> Cc: bioconductor@r-project.org
> Sent: Wednesday, May 11, 2011 1:19:52 AM
> Subject: Re: [BioC] lumi: estimateMethylationBG problem
>
> Hi Chao-Jen
>
> Because infinium 450K includes two types of probe design, I added many
> updates for 450K in the developing version of lumi 2.5.1, which may fix
> some
> of these problems. Please check it. More updates for 450K will be added in
> the near future.
>
> Thanks Tim built the annotation package!
>
>
> Pan
>
>
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