From romain.francois at dbmail.com  Fri Jan 22 11:12:37 2010
From: romain.francois at dbmail.com (Romain Francois)
Date: Fri, 22 Jan 2010 11:12:37 +0100
Subject: [Rd] R CMD check error with the GNU Scientific Library
In-Reply-To: <20100122105928.xtyb7qn8oywwo0wc@web.supagro.inra.fr>
References: <20100122105928.xtyb7qn8oywwo0wc@web.supagro.inra.fr>
Message-ID: <4B597A15.4000007@dbmail.com>


Hi,

You'll need something like :

PKG_LIBS=-lgsl -lgslcblas

in your Makevars.

This is from package gsl (on CRAN). Or maybe you can just depend on the 
gsl package and let it worry about finding where gsl is, etc ...

Romain

On 01/22/2010 10:59 AM, pleydell at supagro.inra.fr wrote:
>
> I have been working on an R package that calls C code using .C(). I recently
> started including some functions from the GNU Scientific Library in my code.
> The code runs fine on my machine when not wrapped in the package. But I get the
> following error from "R CMD check"
>
> * checking whether the package can be loaded ... ERROR
> Loading required package: splancs
> Loading required package: sp
>
> Spatial Point Pattern Analysis Code in S-Plus
>
>   Version 2 - Spatial and Space-Time analysis
> Loading required package: ellipse
> Loading required package: mvtnorm
> Error in dyn.load(file, DLLpath = DLLpath, ...) :
>    unable to load shared library
> '/home/david/papers/inProgress/sharka_istanbull/package/sharka.Rcheck/sharka/libs/sharka.so':
>
> /home/david/papers/inProgress/sharka_istanbull/package/sharka.Rcheck/sharka/libs/sharka.so:
> undefined symbol: gsl_multimin_fminimizer_nmsimplex
> Error in library(sharka) : .First.lib failed for 'sharka'
> Execution halted
>
> Clearly there is some difficulty linking up with
> gsl_multimin_fminimizer_nmsimplex.
>
> I noticed the QRMlib library also includes gsl functions. In that package they
> include a src/gsl directory with the required .h files and in Makevars they
> have "PKG_CFLAGS = -I./gsl". I have copied this approach, but wonder if using
> the standard
>
> "R CMD build myPackage"
> "R CMD check myPackage"
>
> needs modifying in some way?
>
> All hints or ideas welcome.
> Thanks
> David


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Romain Francois
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[Rd] R CMD check error with the GNU Scientific Library
Romain Francois