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

[Agustin Lobo]

Good (but astonishing) news:
1. (As noted in previous message)
After having removed r-base-core and
installed back r-base and r-base-dev
the binary installation of robustbase
apt-get install r-cran-robustbase

still gives in R the same error as before:
> require(robustbase)
Loading required package: 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

2. After removing the binary
apt-get remove r-cran-robustbase

The source installation using install.packages("robustbase") from within
R works fine. The gcc step now works using lapack:

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 -llapack -lblas
-lgfortran -lm -lgfortran -lm -L/usr/lib/R/lib -lR

Thank you all.

Agus


Michael Rutter wrote:
> Once you have reinstalled the packages, you should re-install robustbase.
> 
> sudo R
> install.packages("robustbase")
> 
> If at that point it fails, I'm not sure what can be done.  It would seem 
> you system has a flaw and a re-install would be best.  Jaunty (9.04) 
> installs very quickly and works great.  I would give that a try.
> 
> Michael
> 
> Agustin Lobo wrote:
>> No. What I have is what is listed in
>> http://cran.r-project.org/bin/linux/ubuntu/
>>
>> deb http://<my.favorite.cran.mirror>/bin/linux/ubuntu hardy/
>>
>> which in my case is
>>
>> deb http://cran.r-project.org/bin/linux/ubuntu hardy/
>>
>> Should I include the one you suggest? Should I replace the one
>> I have with this one?
>>
>> Agus
>>
>> Michael Rutter wrote:
>>> Agus,
>>>
>>> Do you have this in your sources list:
>>>
>>> deb http://lib.stat.cmu.edu/R/CRAN/bin/linux/ubuntu hardy/
>>>
>>> The address could/should be a different mirror, but there needs to be 
>>> a cran mirror in you list somewhere.
>>>
>>> Michael
>>>
>>> Agustin Lobo wrote:
>>>> Michael:
>>>>
>>>> I do have the backports activated. This is the entry in my 
>>>> sources.list:
>>>> deb http://archive.ubuntu.com/ubuntu/ hardy-backports restricted 
>>>> main multiverse universe
>>>> deb-src http://archive.ubuntu.com/ubuntu/ hardy-backports restricted 
>>>> main multiverse universe
>>>>
>>>> And this is the output to what you suggested.
>>>>
>>>> root at alobo-laptop:/home/alobo# dpkg --get-selections | grep r-base
>>>> r-base-core                    install
>>>> r-base-dev                    install
>>>> r-base-html                    install
>>>> root at alobo-laptop:/home/alobo# dpkg --get-selections | grep r-cran
>>>> r-cran-abind                    deinstall
>>>> r-cran-boot                    install
>>>> r-cran-cluster                    install
>>>> r-cran-codetools                install
>>>> r-cran-effects                    deinstall
>>>> r-cran-foreign                    install
>>>> r-cran-kernsmooth                install
>>>> r-cran-lattice                    install
>>>> r-cran-matrix                    install
>>>> r-cran-mgcv                    install
>>>> r-cran-nlme                    install
>>>> r-cran-relimp                    deinstall
>>>> r-cran-robustbase                install
>>>> r-cran-rpart                    install
>>>> r-cran-survival                    install
>>>> r-cran-vr                    install
>>>>
>>>> My system is uptodate, I regularly install what I'm told by Update 
>>>> Manager.
>>>>
>>>> I'm going to uninstall and install back r-base from Synaptic.
>>>> If I keep having the same problem afterwards, do you expect
>>>> that installing everything from sources could solve the problem? 
>>>> Will it be hard ?
>>>> How much time should I pre-allocate?
>>>>
>>>> Thanks
>>>>
>>>> Agus
>>>>
>>>>
>>>>
>>>>
>>>> Michael Rutter wrote:
>>>>> Agus,
>>>>>
>>>>> robustbase just installed fine on my stock 8.04 system.  Please 
>>>>> make sure that you have added all the repositories and packages 
>>>>> suggested on this page:
>>>>>
>>>>> http://cran.r-project.org/bin/linux/ubuntu/
>>>>>
>>>>> Backports are important, and make sure you have r-base-dev
>>>>> installed.  You may also need to be root (via sudo) to install, 
>>>>> although there are instructions for local installation.  You can 
>>>>> run the following commands to see what R related packages you have 
>>>>> installed.
>>>>>
>>>>> dpkg --get-selections | grep r-base
>>>>> dpkg --get-selections | grep r-cran
>>>>>
>>>>> Michael
>>>>>
>>>>
>>>
>>
>