[R] Warning when running R - can't install packages either

[Jakub Jirutka]

Hi,

I’m maintainer of the R package in Alpine Linux.

I read on multiple places that some packages needs R_HOME variable set to the location where is R installed, so I’ve added it to the system-wide profile. Is this correct, or a misinformation?

What system dependencies does R need to compile modules from CRAN? On Alpine the following dependencies are needed to build R: bzip2-dev curl-dev gfortran lapack-dev pcre-dev perl readline-dev xz-dev zlib-dev. Are all of these dependencies needed for compiling modules?

Jakub

On 13. May 2016, at 11:31, Martin Morgan <martin.morgan at roswellpark.org> wrote:

> 
> 
> On 05/12/2016 10:25 PM, Alba Pompeo wrote:
>> Martin Morgan, I tried an HTTP mirror and it worked.
>> What could be the problem and how to fix?
>> Also, should I ignore the warning about ignoring environment value of R_HOME?
> 
> It depends on why you set the value in your environment in the first place; maybe you were trying to use a particular installation of R, but setting R_HOME is not the way to do that (I use an alias, e.g., R-3.3='~/bin/R-3-3-branch/bin/R --no-save --no-restore --silent')
> 
> Martin
> 
>> Thanks.
>> 
>> On Thu, May 12, 2016 at 5:59 PM, Tom Hopper <tomhopper at gmail.com> wrote:
>>> setInternet2() first thing after launching R might fix that.
>>> 
>>> 
>>>> On May 12, 2016, at 07:45, Alba Pompeo <albapompeo at gmail.com> wrote:
>>>> 
>>>> Hello.
>>>> 
>>>> I've tried to run R, but I receive many warnings and can't do simple
>>>> stuff such as installing packages.
>>>> 
>>>> Here's the full log when I run it.
>>>> 
>>>> http://pastebin.com/raw/2BkNpTte
>>>> 
>>>> Does anyone know what could be wrong here?
>>>> 
>>>> Thanks a lot.
>>>> 
>>>> ______________________________________________
>>>> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
>>>> and provide commented, minimal, self-contained, reproducible code.
>> 
>> ______________________________________________
>> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
>> https://stat.ethz.ch/mailman/listinfo/r-help
>> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
>> and provide commented, minimal, self-contained, reproducible code.
>> 
> 
> 
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