[BioC] failure to install: aCGH depends on unavailable package

[Patrick Aboyoun]

Ramon,
I am not sure what happened to the sma package on CRAN. It must have 
been removed from the repository over the past week since our build 
system had fresh installations last week and sma was still available. I 
e-mailed the package author and CRAN maintainer to find out why this 
change happened. I'll e-mail back my findings and what if any actions we 
in BioC will have to take.


Patrick


Ramon Diaz-Uriarte wrote:
> Dear All,
>
> I just noticed (failures installing a bunch of BioC packages in new R 
> installations) that aCGH depends on "sma", but sma is no longer available. 
> Thus, the recommended procedure
>
> source("http://bioconductor.org/biocLite.R")
> biocLite("aCGH")
> will fail. And any package which depends on aCGH (e.g., snapCGH) will fail to 
> install too.
>
> I guess this is a bug in sma but, if I understand correctly, it should not be 
> possible for a package to fail the standard installation procedure for the 
> stable release?
>
>
>
> Best,
>
> R.
>
> P.D. sma used to be available in CRAN, so it is possible to get an old version 
> from 
> http://cran.r-project.org/src/contrib/Archive/sma/
> install that, and then install aCGH. 
>
>
> ### this is one example; it fails on at least two other different systems too.
>
>   
>> version
>>     
>                _                           
> platform       x86_64-pc-linux-gnu         
> arch           x86_64                      
> os             linux-gnu                   
> system         x86_64, linux-gnu           
> status                                     
> major          2                           
> minor          9.2                         
> year           2009                        
> month          08                          
> day            24                          
> svn rev        49384                       
> language       R                           
> version.string R version 2.9.2 (2009-08-24)
>
>   
> ------------------------------------------------------------------------
>
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