From ripley at stats.ox.ac.uk  Mon Feb  2 22:22:52 2009
From: ripley at stats.ox.ac.uk (Prof Brian Ripley)
Date: Mon, 2 Feb 2009 21:22:52 +0000 (GMT)
Subject: [Rd] Getting 'LinkingTo' to find the right library
In-Reply-To: <OF513E9410.5EB7FB0A-ON85257551.006C7BAD-85257551.00717734@epamail.epa.gov>
References: <OF513E9410.5EB7FB0A-ON85257551.006C7BAD-85257551.00717734@epamail.epa.gov>
Message-ID: <alpine.LFD.2.00.0902022117590.19068@gannet.stats.ox.ac.uk>

Where did you get the idea that R CMD INSTALL is reading .Rprofile?
(AFAIR it does so only to find the installation library, as R CMD 
INSTALL --help says it will.)

You need to set R_LIBS in the environment to get the library path you 
want.  This is not specific to 'LinkingTo'.

On Mon, 2 Feb 2009, Setzer.Woodrow at epamail.epa.gov wrote:

>
> I am experimenting with exporting pointers to some of the functions in
> deSolve so that other packages may import them, using the
> 'R_RegisterCCallable' mechanism.  I have added a header file and some
> other C code in inst/include of the deSolve source package that need to
> be accessible to other packages.  I have a site-library set up in
> Rprofile.site where all installed packages go, and as long as my
> experimental version of deSolve is installed there,  I'd like to install
> my modified copy of deSolve in a test library.  However, when I try to
> install my test package (which includes both Depends: deSolve and
> LinkingTo: deSolve, in its Description file, as described in 'R
> Extensions'), compilation fails, because the appropriate C code cannot
> be found (there is also an unrelated problem in deSolve_stubs.c
> triggering the "unexpected ')' before '*' token" error).
>
> [test]$ R CMD INSTALL -l C:/home/Rlib-test dma
>
>
> ---------- Making package dma ------------
>  adding build stamp to DESCRIPTION
>  installing NAMESPACE file and metadata
>  making DLL ...
> gcc  -std=gnu99  -Ic:/PROGRA~1/R/R-28~1.1PA/include
> -I"C:/PROGRA~1/R/site-librar
> y/deSolve/include"    -O3 -Wall  -c R_init_dma.c -o R_init_dma.o
> R_init_dma.c:1:27: error: deSolve_stubs.c: No such file or directory
> R_init_dma.c:3: error: expected ')' before '*' token
> make[3]: *** [R_init_dma.o] Error 1
> make[2]: *** [srcDynlib] Error 2
> make[1]: *** [all] Error 2
> make: *** [pkg-dma] Error 2
> *** Installation of dma failed ***
>
> Removing 'C:/home/Rlib-test/dma'
>
> It seems that although the 'site-library/deSolve/include' folder is
> included in the search list for included files, the
> 'Rlib-test/deSolve/include' folder is not.  The folder that includes
> both the experimental version of deSolve and the test package dma also
> contains a .Rprofile file which places 'C:/home/Rlib-test' at the front
> of the library search path, and I have confirmed that this is so (in
> fact, the above INSTALL command does not need the '-l ' argument; the
> default install location is Rlib-test for installs from this folder).
> It looks as if the code in INSTALL that sets up the -I arguments to gcc
> does not find the library path defined for this folder.  Can someone
> point me to the right way to do this?
>
> System information:
> Version:
> platform = i386-pc-mingw32
> arch = i386
> os = mingw32
> system = i386, mingw32
> status = Patched
> major = 2
> minor = 8.1
> year = 2009
> month = 01
> day = 04
> svn rev = 47474
> language = R
> version.string = R version 2.8.1 Patched (2009-01-04 r47474)
>
> Windows XP (build 2600) Service Pack 2
>
> Locale:
> LC_COLLATE=English_United States.1252;LC_CTYPE=English_United
> States.1252;LC_MONETARY=English_United
> States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252
>
> Search Path:
> .GlobalEnv, package:stats, package:graphics, package:grDevices,
> package:utils, package:datasets, package:methods, Autoloads,
> package:base
> R. Woodrow Setzer, Ph. D.
> National Center for Computational Toxicology
> http://www.epa.gov/comptox
> US Environmental Protection Agency
> Mail Drop B205-01/US EPA/RTP, NC 27711
> Ph: (919) 541-0128    Fax: (919) 541-1194
>
> ______________________________________________
> R-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-devel
>

-- 
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595



[Rd] Getting 'LinkingTo' to find the right library
Prof Brian Ripley