On 19 December 2008 at 19:53, Bill Harris wrote: | That did sound promising. I ran | | ,---- | | sudo R CMD REMOVE -l /usr/lib/R/site-library/ lme4 | `---- | | and the files disappeared.
Still not a good idea. See /etc/R/Renviron -- the directory /usr/lib/R/site-library is used by your Ubuntu R/CRAN packages. As you installed them via apt-get / aptitude / ... you should uninstall them via the package management system. R and Ubuntu and somewhat unaware of their respective package systems. So your Ubuntu system now thinks it has files below /usr/lib/R/site-library/lme4/ when it really doesn't anymore. This can lead to inconsistent bahviour. You could just re-install the Ubuntu version, and then remove it, or you could leave it as it is. As a general rule, files below /usr/local or /opt or /home are yours, everything else is done via the package management system. | Then I ran | | ,---- | | > install.packages("lme4") | `---- | | - From inside R, selected a mirror in WA (USA), and let it run. I got You can also hardwire a mirror via ~/.Rprofile and a line like options("repos"=c(CRAN="http://cran.us.r-project.org")) which selects the same Fred Hutch. mirror too. | ,---- | | trying URL 'http://cran.fhcrc.org/src/contrib/lme4_0.999375-28.tar.gz' | | Content type 'application/x-gzip' length 678443 bytes (662 Kb) | | opened URL | | ================================================== | | downloaded 662 Kb | | | | * Installing *source* package 'lme4' ... | | ** libs [...] That's what I suggested in my last email too. | | > display() | | Error: could not find function "display" | `---- | | The two unexpected things were the fact it seemed to load Matrix after | getting lme4 -- did that mess anything up? -- and "The following Normal -- that is what the Depends: the DESCRIPTION file for lme4 imples. | object(s) are masked from package:stats : xtabs" statement, which seemed | odd but I don't know what it means. Normal warning telling you that the xtabs function are masked. Not to worry. Hope this helps, Dirk -- Three out of two people have difficulties with fractions. ______________________________________________ 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.