[R-sig-Debian] ubuntu problem with 'r-cran-robustbase' [FWD Agustin Lobo]

[Dirk Eddelbuettel]

On 12 May 2009 at 11:45, Martin Maechler wrote:
| Agustin, posted on R-help.
| I think the problem is one of the debian/ubuntu package
| 'r-cran-robustbase' and its setup or (missing?) dependencies.
| 
| I can confirm Agustin's problem, working on Ubuntu 8.04.2
| (8.04 is a "LTS" = long time support version).
| 
|   apt-get install r-cran-robustbase
| 
| works fine, but when trying to load the package,
| there's a DLL - dependency on libRlapack.so 
| which is not fulfilled (and not fulfillable: There's *no*
| libRlapack.so).
| 
| For me,
| 
|   $ /usr/bin/R CMD config LAPACK_LIBS
|   -llapack
| 
| and lapack.so is found inside /usr/lib/R/modules/ 
| and liblapack.so from the 'lapack3' Debian/Ubuntu package 
| is simply in /usr/lib/libpack.so  
| 
| Could it be that this is caused by an Ubuntu / Debian 
| mismatch?

Scratch Debian here. It works there:

edd at ron:~> echo 'library(robustbase);cat("Hi\n")' | R --silent --no-save
R> library(robustbase);cat("Hi\n")
Hi
R>
edd at ron:~>

It looks like Ubuntu failed to rebuild the package. The Rlapack.so vs
lapack.so is an old one from the Atlas 3.6 / gfortran transition well over a
year ago and had affected other package.

So on Ubuntu, uninstall r-cran-robustbase and re-install robustbase from CRAN
sources.  And file a bug report with Ubuntu.

Dirk


| Thank you in advance,
| 
| Martin Maechler, ETH Zurich
| 
| ------- start of forwarded message -------
| From: Agustin Lobo <aloboaleu at gmail.com>
| To: "r-help at r-project.org" <r-help at r-project.org>
| Subject: [R] robustbase: cannot install
| Date: Mon, 11 May 2009 18:20:14 +0200
| 
| This is really odd,
| I've installed the binary of robustbase through synaptic on an ubuntu 
| 8.04 machine and get:
|  > library(robustbase)
| Error in dyn.load(file, DLLpath = DLLpath, ...) :
|    unable to load shared library 
| '/usr/lib/R/site-library/robustbase/libs/robustbase.so':
|    libRlapack.so: cannot open shared object file: No such file or directory
| Error: package/namespace load failed for 'robustbase'
|  >
| 
| The package is where it is suposed to be:
| /usr/lib/R/site-library/robustbase
| 
| is this not a problem at compiling?
| 
| The problem is that if I try to install the source with 
| install.packages("robustbase"), I get:
| gcc -std=gnu99 -shared -o robustbase.so R-rng4ftn.o init.o lmrob.o mc.o 
| qn_sn.o rf-common.o rffastmcd.o rfltsreg.o wgt_himed.o -L/usr/lib/R/lib 
| -lRlapack -lblas -L/usr/lib/gcc/i486-linux-gnu/4.2 -lgfortran -lm 
| -L/usr/lib/gcc/i486-linux-gnu/4.2 -lgfortran -lm -L/usr/lib/R/lib -lR
| /usr/bin/ld: cannot find -lRlapack
| collect2: ld returned 1 exit status
| 
| Despite the fact that I do have Rlapack:
| ~$ R CMD config LAPACK_LIBS
| -L/usr/lib/R/lib -lRlapack
| 
| Am I doing something wrong?
| 
| Thanks
| 
| Agus
| -- 
| Dr. Agustin Lobo
| Institut de Ciencies de la Terra "Jaume Almera" (CSIC)
| LLuis Sole Sabaris s/n
| 08028 Barcelona
| Spain
| Tel. 34 934095410
| Fax. 34 934110012
| email: Agustin.Lobo at ija.csic.es
| http://www.ija.csic.es/gt/obster
| 
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| and provide commented, minimal, self-contained, reproducible code.
| ------- end of forwarded message -------
| 
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