Hi, How did you upgraded your version of R? From source or from a Linux package?
Regards, Pascal On 05/31/2013 11:33 AM, Christoph Knapp wrote:
Hi, I recently updated to R 3.0.1. I'm running linux ubuntu 12.04. I realized that I have to update all the installed packages so I run > update.packages(checkBuilt=TRUE) as described here http://www.r-bloggers.com/r-3-0-0-is-released-whats-new-and-how-to-upgrade/ . The first thing it did was telling me that it will not update several packages. When it was finished I used the warnings function to have a look at what did not work. See the list below. > warnings() Warning messages: 1: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘boot’ had non-zero exit status 2: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘cluster’ had non-zero exit status 3: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘foreign’ had non-zero exit status 4: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘KernSmooth’ had non-zero exit status 5: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘MASS’ had non-zero exit status 6: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘Matrix’ had non-zero exit status 7: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘nlme’ had non-zero exit status 8: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘nnet’ had non-zero exit status 9: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘rpart’ had non-zero exit status 10: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘spatial’ had non-zero exit status 11: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘survival’ had non-zero exit status 12: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘class’ had non-zero exit status 13: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘epiR’ had non-zero exit status 14: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘gmodels’ had non-zero exit status 15: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘gplots’ had non-zero exit status 16: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘mgcv’ had non-zero exit status 17: In install.packages(update[instlib == l, "Package"], l, ... : installation of package ‘gregmisc’ had non-zero exit status I tried to reinstall them manually but this always failed because of a package dependency to the "compiler" package. Now, if I try to install the compiler package it tells me. > install.packages("compiler") Installing package into ‘/home/christoph/R/x86_64-pc-linux-gnu-library/3.0’ (as ‘lib’ is unspecified) Warning message: package ‘compiler’ is not available (for R version 3.0.1) The last line also came up all the time when the packages were updated Doing a bit of research does not deliver much only that the compiler package was included into R at version 2.13.0 (http://dirk.eddelbuettel.com/blog/2011/04/12/). Most of those packages which do not work any more are pretty important for some of my scripts and I would not even know what packages replace the packages above. Would anyone know how to fix this? Regards ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
