From leviwaldron at gmail.com  Thu Nov 22 20:00:53 2007
From: leviwaldron at gmail.com (leviwaldron at gmail.com)
Date: Thu, 22 Nov 2007 20:00:53 +0100 (CET)
Subject: [Rd] package gsl assumes incorrect gcc version during install
	(PR#10451)
Message-ID: <20071122190053.A34C5283416A@mail.pubhealth.ku.dk>

Full_Name: Levi Waldron
Version: 2.5.1
OS: Ubuntu Gutsy
Submission from: (NULL) (206.248.157.88)


I installed libgsl0-dev then tried to install the gsl cran package,
unsuccessfully (see output below).  As a workaround I created a symbolic link to
/usr/bin/gcc-4.2, ie:

sudo ln -s /usr/bin/gcc-4.1 /usr/bin/gcc-4.2

The correct behavior of the gsl package should be to use the executable
'/usr/bin/gcc' which is already linked to the current gcc version.


> install.packages("gsl",dependencies=T) 
Warning in install.packages("gsl", dependencies = T) : 
         argument 'lib' is missing: using '/usr/local/lib/R/site-library'
--- Please select a CRAN mirror for use in this session ---
Loading Tcl/Tk interface ... done
trying URL 'http://probability.ca/cran/src/contrib/gsl_1.8-8.tar.gz'
Content type 'application/x-tar' length 59084 bytes
opened URL
==================================================
downloaded 57Kb

* Installing *source* package 'gsl' ...
checking for gcc... gcc
checking for C compiler default output... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ANSI C... none needed
checking for gsl_sf_airy_Ai_e in -lgsl... yes
checking how to run the C preprocessor... gcc -E
checking for egrep... grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking gsl/gsl_version.h usability... yes
checking gsl/gsl_version.h presence... yes
checking for gsl/gsl_version.h... yes
checking if GSL version >= 1.8... yes
configure: creating ./config.status
** libs
gcc-4.2 -std=gnu99 -I/usr/share/R/include -I/usr/share/R/include      -fpic  -g
-O2 -c airy.c -o airy.o
/bin/bash: gcc-4.2: command not found
make: *** [airy.o] Error 127
chmod: cannot access `/usr/local/lib/R/site-library/gsl/libs/*': No such file or
directory
ERROR: compilation failed for package 'gsl'
** Removing '/usr/local/lib/R/site-library/gsl'

The downloaded packages are in
        /tmp/RtmpW60zFl/downloaded_packages
Warning message:
installation of package 'gsl' had non-zero exit status in:
install.packages("gsl", dependencies = T) 

> version
               _                           
platform       i486-pc-linux-gnu           
arch           i486                        
os             linux-gnu                   
system         i486, linux-gnu             
status                                     
major          2                           
minor          5.1                         
year           2007                        
month          06                          
day            27                          
svn rev        42083                       
language       R                           
version.string R version 2.5.1 (2007-06-27)
>



[Rd] package gsl assumes incorrect gcc version during install (PR#10451)
leviwaldron at gmail.com