On Sat, Aug 8, 2009 at 12:18 PM, Peng Yu <pengyu.ut@gmail.com> wrote:

> On Sat, Aug 8, 2009 at 11:05 AM, Sean Davis<seandavi@gmail.com> wrote:
> >
> >
> > On Sat, Aug 8, 2009 at 11:52 AM, Peng Yu <pengyu.ut@gmail.com> wrote:
> >>
> >> Hi,
> >>
> >> Have $R_LIBS set. And I got the following warning, when install the
> >> package with biocLite. Will there be any consequence of the warning?
> >> How to get rid of the warning?
> >
> > Hi, Peng.
> >
> > The warning explains that the packages will be installed into the
> > "/path/to/a/directory/that/I/have/access/to".  Is that what you wanted
> based
> > on R_LIBS?  You can specify libs to get rid of the warning.
>
> Hi Sean,
>
> Yes, that path is what R_LIBS is set to. So this warning does not
> really matter, right?
>
> BTW, how to specify libs in biocLite? Can I specify a environment
> variable (in my command shell, say bash) so that biocLite would take
> it as 'libs' and does not generate a warning?
>

Warnings are not inherently bad, so there isn't really a problem with
getting one as long as you understand what it means.  That said, you can
pass lib=... to biocLite() and I think it will be passed along to
install.packages().

Sean

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