[BioC] Downgrading R to an older version

[Steve Lianoglou]

Hi,

On Tue, Aug 12, 2014 at 10:43 PM, Chong Kim San Allen
<patcksa at nus.edu.sg> wrote:
> Hi,
> My server is running Debian and the most stable version of R for Debian is 2.1.5. I decided to use "apititude install r-base=3.1.0" to install a backport version of R but that command just upgraded it to R 3.1.1. I don't know why it installed 3.1.1 instead of 3.1.0?
>
> I have 2 software that I would like to run on my server: ChAMP and MeDIPS. It seems that ChAMP will not run on R 2.1.5 but is fine with R 3.1.1. The reverse is true for MeDIPS. I was told by someone that a compromise is to install R 3.1.0.

There really shouldn't be any difference between 3.1.1 and 3.1.0 --
which is to say that you should prefer to use the former.

The bioconductor folks provide daily build reports for the package in
the "release" and "devel" branch.

"release" should be run using R 3.1.x (3.1.1), and their build system
uses 3.1.1 to build these. Their reports suggest that everything is
feng shui, so perhaps there's likely something not quite right with
your server.

Here are the build reports I'm talking about:

http://bioconductor.org/checkResults/2.14/bioc-LATEST/

and you'll see that MeDIPS is being built fine.

So, we'd need some more info from you to help sort you out. The error
messages you get when you try to install MeDIPS via biocLite on your
server would be a good place to start.

HTH,
-steve

-- 
Steve Lianoglou
Computational Biologist
Genentech