----- Original Message ----- > From: "Prof Brian Ripley" <rip...@stats.ox.ac.uk> > To: r-devel@r-project.org > Sent: Monday, September 23, 2013 2:53:08 PM > Subject: Re: [Rd] tar warnings in R-3.0.2 RC when R is installed by a > different (non-root) user > > The issue is not the ownership (uname) but the uid. A tarball can > only > store uids up to 'nobody' (usually 32767), and certainly larger ones > cannot be unpacked portably. >
Thanks. I've changed the uid of this user and the warnings went away. Dan > The warnings did not occur before, but the tarball produced could > cause > problems when unpacking with other tools. > > On 23/09/2013 20:55, Dan Tenenbaum wrote: > > Hi, > > > > I created a package as follows: > > > >> a = 1 > >> package.skeleton() > > > > Then I got the following output when building the package: > > > > * checking for file ‘anRpackage/DESCRIPTION’ ... OK > > * preparing ‘anRpackage’: > > * checking DESCRIPTION meta-information ... OK > > * checking for LF line-endings in source and make files > > * checking for empty or unneeded directories > > * looking to see if a ‘data/datalist’ file should be added > > * building ‘anRpackage_1.0.tar.gz’ > > Warning: invalid uid value replaced by that for user 'nobody' > > Warning: invalid uid value replaced by that for user 'nobody' > > Warning: invalid uid value replaced by that for user 'nobody' > > Warning: invalid uid value replaced by that for user 'nobody' > > Warning: invalid uid value replaced by that for user 'nobody' > > Warning: invalid uid value replaced by that for user 'nobody' > > Warning: invalid uid value replaced by that for user 'nobody' > > > > One thing to note is that I am logged in as 'pkgbuild' and R was > > installed by the user 'biocbuild'. I explicitly point to the R > > that was installed by 'biocbuild' when building the package above. > > (I used the command "~biocbuild/bbs-2.13-bioc/R/bin/R CMD build > > anRpackage"). > > > > There doesn't seem to be anything wrong with the ownership of the > > files in anRpackage: > > > > $ ls -lR anRpackage > > anRpackage: > > total 20 > > drwxr-xr-x 2 pkgbuild users 4096 Sep 23 12:42 data > > -rw-r--r-- 1 pkgbuild users 283 Sep 23 12:42 DESCRIPTION > > drwxr-xr-x 2 pkgbuild users 4096 Sep 23 12:42 man > > -rw-r--r-- 1 pkgbuild users 31 Sep 23 12:42 NAMESPACE > > -rw-r--r-- 1 pkgbuild users 420 Sep 23 12:42 Read-and-delete-me > > > > anRpackage/data: > > total 4 > > -rw-r--r-- 1 pkgbuild users 59 Sep 23 12:42 a.rda > > > > anRpackage/man: > > total 8 > > -rw-r--r-- 1 pkgbuild users 1051 Sep 23 12:42 anRpackage-package.Rd > > -rw-r--r-- 1 pkgbuild users 503 Sep 23 12:42 a.Rd > > > > These warnings did not appear with an earlier version of R-patched > > (r63824). > > > > Thanks, > > Dan > > > > > > > >> sessionInfo() > > R version 3.0.2 RC (2013-09-17 r63944) > > Platform: x86_64-unknown-linux-gnu (64-bit) > > > > locale: > > [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C > > [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 > > [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 > > [7] LC_PAPER=en_US.UTF-8 LC_NAME=C > > [9] LC_ADDRESS=C LC_TELEPHONE=C > > [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C > > > > attached base packages: > > [1] stats graphics grDevices utils datasets methods > > base > > > > ______________________________________________ > > R-devel@r-project.org mailing list > > https://stat.ethz.ch/mailman/listinfo/r-devel > > > > > -- > Brian D. Ripley, rip...@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 > > ______________________________________________ > R-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-devel > ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
