[adegenet-forum] installation problem

Rute Fonseca rute.r.da.fonseca at gmail.com
Sun Aug 5 23:19:06 CEST 2012

Hi, I'm trying to install adegenet on Ubuntu, R version 2.13.1 (2011-07-08)
and I get the following error message:

> install.packages("adegenet_1.3-4.tar.gz", dep = TRUE)
Installing package(s) into ‘/usr/local/lib/R/site-library’
(as ‘lib’ is unspecified)
inferring 'repos = NULL' from the file name
* installing *source* package ‘adegenet’ ...
** libs
gcc -I/usr/share/R/include      -fpic  -std=gnu99 -O3 -pipe  -g -c
GLfunctions.c -o GLfunctions.o
gcc -I/usr/share/R/include      -fpic  -std=gnu99 -O3 -pipe  -g -c adesub.c
-o adesub.o
gcc -I/usr/share/R/include      -fpic  -std=gnu99 -O3 -pipe  -g -c
monmonier-utils.c -o monmonier-utils.o
gcc -I/usr/share/R/include      -fpic  -std=gnu99 -O3 -pipe  -g -c
sharedAll.c -o sharedAll.o
gcc -I/usr/share/R/include      -fpic  -std=gnu99 -O3 -pipe  -g -c snpbin.c
-o snpbin.o
gcc -shared -o adegenet.so GLfunctions.o adesub.o monmonier-utils.o
sharedAll.o snpbin.o -L/usr/lib/R/lib -lR
installing to /usr/local/lib/R/site-library/adegenet/libs
** R
** data
** inst
** preparing package for lazy loading

Attaching package: 'ade4'

The following object(s) are masked from 'package:base':


Error in setGeneric(f, where = where) :
  must supply a function skeleton, explicitly or via an existing function
Error : unable to load R code in package 'adegenet'
ERROR: lazy loading failed for package ‘adegenet’
* removing ‘/usr/local/lib/R/site-library/adegenet’
Warning message:
In install.packages("adegenet_1.3-4.tar.gz", dep = TRUE) :
  installation of package 'adegenet_1.3-4.tar.gz' had non-zero exit status

Can you help me with this? Thanks :)

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