[R-sig-Debian] problems with Rcmdr on R-2.10.0 with Karmic Koala

denis brion dbrion1 at yahoo.fr
Sun Nov 29 17:04:46 CET 2009 

I do not know whether this remark might be confusing, but giving a value to R_LIBS (ie something like that :
R_LIBS=/usr/local/lib/R/library:/usr/lib/R/library /usr/bin/R --vanilla #a
or
R_LIBS=/usr/lib/R/library:/usr/local/lib/R/library /usr/local/bin/R --vanilla #b
might swap the libraries of two Rs :
in the #a case, the standard R would have access to libraries for a tested R -put in /usr/local-
 and , in the case #b the tested R -compiled - would have access to libraries in an "official" place)
might give better control on the order libraries are accessed (else, ordinary users could not test new packages/libraries, in order to ignore them or recommand to their sys-admins.).

--- En date de : Mar 24.11.09, Dirk Eddelbuettel <edd at debian.org> a écrit :

> De: Dirk Eddelbuettel <edd at debian.org>
> Objet: Re: [R-sig-Debian] problems with Rcmdr on R-2.10.0 with Karmic Koala
> À: "Hodgess, Erin" <HodgessE at uhd.edu>
> Cc: r-sig-debian at r-project.org
> Date: Mardi 24 Novembre 2009, 10h28
> 
> On 23 November 2009 at 19:53, Hodgess, Erin wrote:
> | Hi again.
> | 
> | Here is what I have in .libPaths()
> | 
> | > .libPaths()
> | [1] "/home/erin/R/i486-pc-linux-gnu-library/2.10"
> | [2] "/usr/local/lib/R/site-library"     
>         
> | [3] "/usr/lib/R/site-library"       
>             
> | [4] "/usr/lib/R/library"       
>              
>    
> | >
> | 
> | Is the first entry throwing off the other ones, please?
> 
> That's for you to find out by running
> 
>        AP <-
> available.packages() 
> 
> and determining what you have in AP and what you expected
> there. Also, if you
> have multiple installations of a package, an unqualified
> library(foo) that
> does not give the lib.path will get the first one. That
> could be you problem.
> Or maybe it's something else, but I doubt tcl/tk is to
> blame.
> 
> Dirk
> 
> | Thanks,
> | Erin
> | 
> | 
> | Erin M. Hodgess, PhD
> | Associate Professor
> | Department of Computer and Mathematical Sciences
> | University of Houston - Downtown
> | mailto: hodgesse at uhd.edu
> | 
> | 
> | 
> | -----Original Message-----
> | From: Dirk Eddelbuettel [mailto:edd at debian.org]
> | Sent: Mon 11/23/2009 4:44 PM
> | To: Hodgess, Erin
> | Cc: mar36 at psu.edu; r-sig-debian at r-project.org
> | Subject: Re: [R-sig-Debian] problems with Rcmdr on
> R-2.10.0 with Karmic Koala
> |  
> | 
> | On 23 November 2009 at 14:27, Hodgess, Erin wrote:
> | | Hi!
> | | 
> | | By using the "update.packages(checkBuilt=TRUE)"
> statement, I got rid of the MASS error.
> | | 
> | | I got the packages from the Berkeley CRAN repository.
> | | 
> | | But the Rcmdr menu screen is not appearing.  I
> think that there may be an issue with tcltk.
> | 
> | It's just a hunch: but by mixing packages and
> hand-compilation you may no
> | longer use all the library path entries. So 'your' R may
> not see the
> | libraries installed from 'our R' which use:
> | 
> | R> .libPaths()
> | [1] "/usr/local/lib/R/site-library"
> "/usr/lib/R/site-library"   
>    "/usr/lib/R/library"     
>      
> | R> 
> | 
> | Run available.packages() and see if you get what you were
> expecting. It may
> | of course be something different alltogether...
> | 
> | Hth, Dirk
> | 
> | | Thanks,
> | | Erin
> | | 
> | | 
> | | Erin M. Hodgess, PhD
> | | Associate Professor
> | | Department of Computer and Mathematical Sciences
> | | University of Houston - Downtown
> | | mailto: hodgesse at uhd.edu
> | | 
> | | 
> | | 
> | | -----Original Message-----
> | | From: Michael Rutter [mailto:mar36 at psu.edu]
> | | Sent: Mon 11/23/2009 2:25 PM
> | | To: Hodgess, Erin
> | | Cc: r-sig-debian at r-project.org
> | | Subject: Re: [R-sig-Debian] problems with Rcmdr on
> R-2.10.0 with Karmic Koala
> | |  
> | | Erin,
> | | 
> | | I don't have a machine running Karmic yet (I have
> learned never to 
> | | update a linux distribution in the middle of the
> semester), so I can't 
> | | test this easily.  At what point are you getting
> the MASS error?
> | | 
> | | Also, are you using the ubuntu packages on CRAN or the
> ones that come 
> | | with Karmic in universe?
> | | 
> | | Michael
> | | 
> | | Hodgess, Erin wrote:
> | | > Dear R Debian People:
> | | > 
> | | > I have put this on regular R help as well, but
> thought that I'd try here too.
> | | > 
> | | > I updated to R-2.10.0 on Ubuntu Karmic Koala via
> apt-get update, apt-get install.
> | | > 
> | | > Then I had a problem that said that I need MASS
> <= R-2.9.2.  Fair enough.  Uwe Ligges was kind
> enough to point out that I needed to use 
> | | >> update.packges(checkBuilt=TRUE)
> | | > 
> | | > So I did.
> | | > 
> | | > Now the menu on Rcmdr does not appear.
> | | > 
> | | > Just as an experiment, I downloaded the
> R-2.10.0.tar.gz file and installed via ./configure, make,
> etc. and all is well there.
> | | > 
> | | > Any help would be much appreciated.
> | | > 
> | | > Thanks,
> | | > Sincerely,
> | | > Erin
> | | > 
> | | > 
> | | > Erin M. Hodgess, PhD
> | | > Associate Professor
> | | > Department of Computer and Mathematical Sciences
> | | > University of Houston - Downtown
> | | > mailto: hodgesse at uhd.edu
> | | > 
> | | > 
> | | >     [[alternative HTML version
> deleted]]
> | | > 
> | | > _______________________________________________
> | | > R-SIG-Debian mailing list
> | | > R-SIG-Debian at r-project.org
> | | > https://stat.ethz.ch/mailman/listinfo/r-sig-debian
> | | 
> | | -- 
> | | Dr. Michael A. Rutter
> | | School of Science
> | | Penn State Erie, The Behrend College
> | | Station Road
> | | Erie, PA 16563
> | | http://math.bd.psu.edu/faculty/rutter
> | | 
> | | 
> | |     [[alternative HTML version
> deleted]]
> | | 
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> | 
> | -- 
> | Three out of two people have difficulties with
> fractions.
> | 
> 
> -- 
> Three out of two people have difficulties with fractions.
> 
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