[Bioc-devel] upgrading

[Bernd Klaus]

Hi Kasper,

I also installed a clean devel version today and had no such problems,

also 

https://www.bioconductor.org/developers/how-to/useDevel/

works for me and says that using an R-devel version is necessary
to use Bioc-devel. I also get the correct BiocInstaller version:

> biocLite()
> BioC_mirror: https://bioconductor.org
> Using Bioconductor 3.3 (BiocInstaller 1.21.1), R Under development
> (unstable)
>   (2015-10-19 r69546).
> Installing package(s) ‘IRanges’, ‘AnnotationDbi’
> Warning: dependency ‘IRanges’ is not available
> 
 
There is however the IRanges issue I was asking about earlier.

Maybe clean the library and try again?

Best wishes,

Bernd

On Di, 2015-10-20 at 10:55 -0400, Kasper Daniel Hansen wrote:
> So I have an R-devel where I have a previous (pre-bioc-3.2) installed
> version of BiocInstaller.
> 
> 1) I re-compile R-devel today.
> 2) I run
>   source("http://www.bioconductor.org/biocLite.R")
> which gives me BiocInstaller 1.20.0.  However, the current one for
> Bioc-devel is 1.21.1.
> 
> When I try to push to a higher level version, by doing
>   library(BiocInstaller)
>   useDevel(TRUE)
> I get
> 
> > useDevel(TRUE)
> Error: 'devel' version requires a more recent R
> 
> If I now try to upgrade I get
> > biocLite("BiocUpgrade")
> Error: Bioconductor version 3.2 cannot be upgraded with R version 3.3.0
> 
> This all looks problematic.  How to I upgrade to Bioc-devel using R-devel?
> Btw. there are no instructions anymore at
>   https://www.bioconductor.org/developers/how-to/useDevel/
> 
> Best,
> Kasper
> 
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> 
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