[R] Windows 7 R (32/64bit) running under cygwin: package not found

[Duncan Murdoch]

On 16/10/2012 3:02 PM, Aldi Kraja wrote:
> Thank you all including Bert,
>
> In my opinion the library() when is working in cygwin env., does not
> check the additional libraries, where R installed the additional packages.
>
> So the solution for this problem was to define manually in my programs
> where is located the library of additional packages:
> (although I was expecting library() itself to know about the additional
> packages
>
> library('rgenoud',lib.loc='C:/Users/aldi/Documents/R/win-library/2.15')
> This solved the problem. Now R works again in cygwin. :-)

Windows defines various environment variables to set a user's home 
directory, and Cygwin sets different ones.  R assumes the user library 
is in there.  I forget which variable to look in, but for you, Windows 
thinks your home directory is C:/Users/aldi, and Cygwin probably thinks 
it is something like C:/cygwin/home/aldi.

You can override this by setting the R_LIBS_USER variable in Cygwin to 
C:/Users/aldi/Documents/R/win-library/2.15 before you start R; then 
things should be fine.

Duncan Murdoch

>
> Thanks,
>
> Aldi
>
> On 10/16/2012 1:19 PM, Bert Gunter wrote:
> > I do not think that this has anything to do with the issue at hand,
> > but just to clarify ...
> >
> > On Tue, Oct 16, 2012 at 10:18 AM, Jeff Newmiller
> > <jdnewmil at dcn.davis.ca.us> wrote:
> >> Probably because when you run it from Cygwin the R_LIBS variable does not point to the user and install library directories. I don't know how Rgui knows where they are (registry?)
> > R for Windows need not use the registry at all, and does so optionally
> > for just a couple of minor issues. See the R for WIndows FAQ 2.17 for
> > details.
> >
> > ?library
> > ?.libPaths
> >
> > describe how R sets/gets library paths (including defaults).
> >
> > Cheers,
> > Bert
> >
> >
> >> but you can look in the .Library and .Library.site variables to see the results.
> >
> >> In a case like this, posting your sessionInfo() for each case is highly recommended.
> >> ---------------------------------------------------------------------------
> >> Jeff Newmiller                        The     .....       .....  Go Live...
> >> DCN:<jdnewmil at dcn.davis.ca.us>        Basics: ##.#.       ##.#.  Live Go...
> >>                                        Live:   OO#.. Dead: OO#..  Playing
> >> Research Engineer (Solar/Batteries            O.O#.       #.O#.  with
> >> /Software/Embedded Controllers)               .OO#.       .OO#.  rocks...1k
> >> ---------------------------------------------------------------------------
> >> Sent from my phone. Please excuse my brevity.
> >>
> >> Aldi Kraja <aldi at wustl.edu> wrote:
> >>
> >>> Hi,
> >>> Using R 2.15.1 on Windows 7. Have installed both versions 32 and 64bit.
> >>> In both of them among others I have installed a package rgenoud
> >>> When I open R gui of 32bit and write library(rgenoud) it responds by
> >>> showing a functional rgenoud version  5.7-8. The same it does on Rgui
> >>> 64bit.
> >>>
> >>> Now I am working in cygwin (v. 1.12.4.0) with xwin. Normally before
> >>> when
> >>> I had installed a package, I only had to call the library with the name
> >>>
> >>> of the package and R will find the right one to load.
> >>>
> >>> Now when I apply R CMD BATCH script1.R out1.txt, under cygwin the first
> >>>
> >>> thing it reports:
> >>>
> >>> R version 2.15.1 (2012-06-22) -- "Roasted Marshmallows"
> >>> After some generalities it reports
> >>>> library(rgenoud)
> >>> Error in library(rgenoud) : there is no package called 'rgenoud'
> >>> Execution halted
> >>>
> >>> So my question is why under cygwin in a batch mode, it does not find
> >>> the
> >>> installed package, which is already installed in my laptop's R?
> >>>
> >>> Thank you in advance,
> >>>
> >>> Aldi
> >>>
> >>>
> >>>
>
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