Unable to load Roulette R

Question

I usually did various statistical analysis in R with routines using lapack like gam () lm (), etc., but after several library updates 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 Además: 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_ 

Version Information:

 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

UPDATE: I checked the lapack.so library

 leonardo@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) libblas.so.3gf => /usr/lib/libblas.so.3gf (0x00186000) ... 

object check

 leonardo@LyP :~$ R CMD objdump -T /usr/lib/liblapack.so.3gf|grep dpstrf 00327f10 g DF .text 000024d4 Base dpstrf_ 

but

 R CMD ldd /usr/lib/R/modules/lapack.so linux-gate.so.1 => (0x009f5000) libR.so => /usr/lib/R/lib/libR.so (0x00110000) liblapack.so.3gf => /usr/lib/R/lib/liblapack.so.3gf (0x009f6000) libblas.so.3gf => /usr/lib/R/lib/libblas.so.3gf (0x11eef000) 

R references another library and searches for an object:

 leonardo@LyP :~$ R CMD objdump -T /usr/lib/R/lib/liblapack.so.3gf|grep dpstrf 

gives empty

Any ideas?

Answer 1

I remove R using synaptics and marking all r-base and r-cran packages, reinstall it with

 sudo apt-get install r-base r-base-dev r-base-html 

and that it all works fine.

Thanks to all the commentators!

Answer 2

I had the same problem and tracked it in conflict with Revolution-mkl package

 sudo apt-get remove revolution-mkl 

fixed problem

Answer 3

Where did your mgcv package mgcv ? CRAN as a source? CRAN how r-cran-mgcv through Michael will rebuild my Debian package?

In my Ubuntu field, using the standard Ubuntu repo on CRAN, all is well:

 edd@max :~$ ldd /usr/lib/R/library/mgcv/libs/mgcv.so linux-vdso.so.1 => (0x00007ffff43ff000) liblapack.so.3gf => /usr/lib/liblapack.so.3gf (0x00007f0374f75000) libblas.so.3gf => /usr/lib/libblas.so.3gf (0x00007f0373ad6000) libm.so.6 => /lib/x86_64-linux-gnu/libm.so.6 (0x00007f03737d9000) libR.so => /usr/lib/libR.so (0x00007f0373215000) libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007f0372e56000) libgfortran.so.3 => /usr/lib/x86_64-linux-gnu/libgfortran.so.3 (0x00007f0372b3e000) libgcc_s.so.1 => /lib/x86_64-linux-gnu/libgcc_s.so.1 (0x00007f0372928000) libpthread.so.0 => /lib/x86_64-linux-gnu/libpthread.so.0 (0x00007f037270b000) libreadline.so.6 => /lib/x86_64-linux-gnu/libreadline.so.6 (0x00007f03724c8000) libpcre.so.3 => /lib/x86_64-linux-gnu/libpcre.so.3 (0x00007f037228b000) liblzma.so.5 => /usr/lib/x86_64-linux-gnu/liblzma.so.5 (0x00007f0372069000) libbz2.so.1.0 => /lib/x86_64-linux-gnu/libbz2.so.1.0 (0x00007f0371e58000) libz.so.1 => /lib/x86_64-linux-gnu/libz.so.1 (0x00007f0371c41000) librt.so.1 => /lib/x86_64-linux-gnu/librt.so.1 (0x00007f0371a39000) libdl.so.2 => /lib/x86_64-linux-gnu/libdl.so.2 (0x00007f0371834000) libgomp.so.1 => /usr/lib/x86_64-linux-gnu/libgomp.so.1 (0x00007f0371626000) /lib64/ld-linux-x86-64.so.2 (0x00007f0375de2000) libquadmath.so.0 => /usr/lib/x86_64-linux-gnu/libquadmath.so.0 (0x00007f03713f0000) libtinfo.so.5 => /lib/x86_64-linux-gnu/libtinfo.so.5 (0x00007f03711c8000) edd@max :~$ 

and

 edd@max :~$ 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: x86_64-pc-linux-gnu (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. Natural language support but running in an English locale R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. R> library(mgcv) This is mgcv 1.7-22. For overview type 'help("mgcv-package")'. R>