Kevin E. Thorpe
2005-Jul-15 18:06 UTC
[R] Cannot update some packages after upgrade to 2.1.1
I just upgraded to version 2.1.1 (from 2.0.1) today.
> R.version
_
platform i686-pc-linux-gnu
arch i686
os linux-gnu
system i686, linux-gnu
status
major 2
minor 1.1
year 2005
month 06
day 20
language R
I am using SuSE 9.2 and did the upgrade using rpm -U with the RPM
available on CRAN. After upgrading r-base, I ran update.packages().
Four previously installed packages failed to update:
Matrix (0.95-5 to 0.97-4)
gam (0.93 to 0.94)
lme4 (0.95-3 to 0.96-1)
mgcv (1.3-1 to 1.3-4)
In the case of Matrix, gam and mgcv I get the message:
[long path]/ld: cannot find -lf77blas
In the case of lme4 the messages are:
** preparing package for lazy loading
Error in setMethod("coef", signature(object = "lmList"),
function(object, :
no existing definition for function 'coef'
Error: unable to load R code in package 'lme4'
Execution halted
ERROR: lazy loading failed for package 'lme4'
I have searched the SuSE repository for any package that provides
f77blas but came up empty.
I also could not identify any relevant messages in the mailing list
archives.
Is R looking for that library because it was present on the machine
the RPM was built on? Would building R myself solve the missing library
problem or did I do something wrong?
--
Kevin E. Thorpe
Biostatistician/Trialist, Knowledge Translation Program
Assistant Professor, Department of Public Health Sciences
Faculty of Medicine, University of Toronto
email: kevin.thorpe at utoronto.ca Tel: 416.946.8081 Fax: 416.971.2462
Prof Brian Ripley
2005-Jul-16 07:05 UTC
[R] Cannot update some packages after upgrade to 2.1.1
-lf77blas is part of ATLAS, so I do suspect the RPM builder had ATLAS installed. lme4 needs a compatible Matrix installed. I do think installing from the sources would solve this, but probably you need to discuss this with the RPM maintainer as a dependency appears to be missing. On Fri, 15 Jul 2005, Kevin E. Thorpe wrote:> I just upgraded to version 2.1.1 (from 2.0.1) today. > > > R.version > _ > platform i686-pc-linux-gnu > arch i686 > os linux-gnu > system i686, linux-gnu > status > major 2 > minor 1.1 > year 2005 > month 06 > day 20 > language R > > I am using SuSE 9.2 and did the upgrade using rpm -U with the RPM > available on CRAN. After upgrading r-base, I ran update.packages(). > Four previously installed packages failed to update: > > Matrix (0.95-5 to 0.97-4) > gam (0.93 to 0.94) > lme4 (0.95-3 to 0.96-1) > mgcv (1.3-1 to 1.3-4) > > In the case of Matrix, gam and mgcv I get the message: > > [long path]/ld: cannot find -lf77blas > > In the case of lme4 the messages are: > > ** preparing package for lazy loading > Error in setMethod("coef", signature(object = "lmList"), function(object, : > no existing definition for function 'coef' > Error: unable to load R code in package 'lme4' > Execution halted > ERROR: lazy loading failed for package 'lme4' > > I have searched the SuSE repository for any package that provides > f77blas but came up empty. > > I also could not identify any relevant messages in the mailing list > archives. > > Is R looking for that library because it was present on the machine > the RPM was built on? Would building R myself solve the missing library > problem or did I do something wrong? > > -- > Kevin E. Thorpe > Biostatistician/Trialist, Knowledge Translation Program > Assistant Professor, Department of Public Health Sciences > Faculty of Medicine, University of Toronto > email: kevin.thorpe at utoronto.ca Tel: 416.946.8081 Fax: 416.971.2462 > > ______________________________________________ > R-help at stat.math.ethz.ch mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html >-- Brian D. Ripley, ripley at stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UK Fax: +44 1865 272595