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R lapack routines cannot be loaded

4 messages · Martin Morgan, Brian Ripley, arysar

arysar
# 
I usually ran different statistical analysis in R with routines that
use lapack like gam() lm(), etc but after several updates of libraries
the following error appears:

library(mgcv)
This is mgcv 1.7-22. For overview type 'help("mgcv-package")'.

model <- with(chlaR,gam(ClorMAX ~ s(DegDay_NM)))
Error en eigen(St, symmetric = TRUE) :
lapack routines  cannot be loaded
Adem?s: Mensajes de aviso perdidos
In eigen(St, symmetric = TRUE) :
  unable to load shared object '/usr/lib/R/modules//lapack.so':
  /usr/lib/R/modules//lapack.so: undefined symbol: dpstrf_

model <- with(chlaR,lm(ClorMAX ~ DegDay_NM))
summary(model)
Error en chol2inv(Qr$qr[p1, p1, drop = FALSE]) :
  lapack routines  cannot be loaded

The version information is:

platform i686-pc-linux-gnu
arch i686
os linux-gnu
system i686, linux-gnu
status
major 2
minor 15.2
year 2012
month 10
day 26
svn rev 61015
language R

I am using Ubuntu 12.04.1 LTS

Any ideas?
Martin Morgan
#
On 11/23/2012 08:05 AM, arysar wrote:
https://stat.ethz.ch/pipermail/r-help/2012-November/329946.html

  
    

      
      
    

  


  


      

    

    

      
      

        


  

        

      Brian Ripley
    

    

      
      #
    

  


  

      
This was answered this week in 
https://stat.ethz.ch/pipermail/r-help/2012-November/329946.html

        
On 23/11/2012 16:05, arysar wrote:

            

      
      
      
    

        

      
      
    

        

  
    

      
      
    

  


  


      

    

    

      
      

        


  

        

      arysar
    

    

      
      #
    

  


  

      
Yes I read that link but I have lapack version 3.3.1-1:


Paquete: liblapack3gf
Nuevo: s?
Estado: instalado
Instalado autom?ticamente: s?
Versi?n: 3.3.1-1
Prioridad: opcional
Secci?n: libs
Desarrollador: Ubuntu Developers <ubuntu-devel-discuss at lists.ubuntu.com>
Arquitectura: i386
Tama?o sin comprimir: 8.098 k
Depende de: debconf (>= 0.5) | debconf-2.0, libblas3gf |
libblas.so.3gf | libatlas3gf-base, libc6 (>=
            2.1.3), libgcc1 (>= 1:4.1.1), libgfortran3 (>= 4.6)
Tiene conflictos con: lapack99
Reemplaza: lapack99
Proporciona: liblapack.so.3gf


just to confirm the problem:

leonardo at LyP:~$ R

R version 2.15.2 (2012-10-26) -- "Trick or Treat"
Copyright (C) 2012 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
Platform: i686-pc-linux-gnu (32-bit)

R es un software libre y viene sin GARANTIA ALGUNA.
Usted puede redistribuirlo bajo ciertas circunstancias.
Escriba 'license()' o 'licence()' para detalles de distribucion.

R es un proyecto colaborativo con muchos contribuyentes.
Escriba 'contributors()' para obtener m?s informaci?n y
'citation()' para saber c?mo citar R o paquetes de R en publicaciones.

Escriba 'demo()' para demostraciones, 'help()' para el sistema on-line de ayuda,
o 'help.start()' para abrir el sistema de ayuda HTML con su navegador.
Escriba 'q()' para salir de R.

            

      
      
      
    

        
chol> ( m <- matrix(c(5,1,1,3),2,2) )
     [,1] [,2]
[1,]    5    1
[2,]    1    3

chol> ( cm <- chol(m) )
Error en chol.default(m) : rutinas lapack no pueden ser cargadas
Adem?s: Mensajes de aviso perdidos
In chol.default(m) :
  unable to load shared object '/usr/lib/R/modules//lapack.so':
  /usr/lib/R/modules//lapack.so: undefined symbol: dpstrf_


but the object lapack.so exist and is properly linked to
liblapack.so.3gf library


leonardo at LyP:~$ ldd  /usr/lib/R/modules/lapack.so
    linux-gate.so.1 =>  (0x009ec000)
    libR.so => /usr/lib/libR.so (0x0023a000)
    liblapack.so.3gf => /usr/lib/liblapack.so.3gf (0x00ba3000)
    libm.so.6 => /lib/i386-linux-gnu/libm.so.6 (0x00622000)
    libc.so.6 => /lib/i386-linux-gnu/libc.so.6 (0x0064e000)
    libblas.so.3gf => /usr/lib/libblas.so.3gf (0x00186000)
    libreadline.so.6 => /lib/i386-linux-gnu/libreadline.so.6 (0x00110000)
    libpcre.so.3 => /lib/i386-linux-gnu/libpcre.so.3 (0x0014a000)
    liblzma.so.5 => /usr/lib/i386-linux-gnu/liblzma.so.5 (0x00203000)
    libbz2.so.1.0 => /lib/i386-linux-gnu/libbz2.so.1.0 (0x008d0000)
    libz.so.1 => /lib/i386-linux-gnu/libz.so.1 (0x005d4000)
    librt.so.1 => /lib/i386-linux-gnu/librt.so.1 (0x0022a000)
    libdl.so.2 => /lib/i386-linux-gnu/libdl.so.2 (0x00233000)
    libgomp.so.1 => /usr/lib/i386-linux-gnu/libgomp.so.1 (0x00a17000)
    libpthread.so.0 => /lib/i386-linux-gnu/libpthread.so.0 (0x005ea000)
    /lib/ld-linux.so.2 (0x00b4f000)
    libgfortran.so.3 => /usr/lib/i386-linux-gnu/libgfortran.so.3 (0x008e1000)
    libgcc_s.so.1 => /lib/i386-linux-gnu/libgcc_s.so.1 (0x007f8000)
    libtinfo.so.5 => /lib/i386-linux-gnu/libtinfo.so.5 (0x00816000)
    libquadmath.so.0 => /usr/lib/i386-linux-gnu/libquadmath.so.0 (0x00835000)



leonardo at LyP:~$

On Sat, Nov 24, 2012 at 5:05 AM, Prof Brian Ripley

        
<ripley at stats.ox.ac.uk> wrote: