Well, I've found that the line in INSTALL that gives the problem is gzip -dc "${1}" | (cd "${tmpdir}" && tar -xf -) ("tar: /usr/local/lib/libpthread.so.0: version `GLIBC_2.2' not found (required by /lib/librt.so.1)") If I run that command from the shell, i.e., gzip -dc KernSmooth_2.22-7.tar.gz | (cd /tmp/R.INSTALL.2186 && tar -xf -) it runs ok. I've compared my environment setings within R INSTALL and outside R INSTALL and found that a major difference is that in my shell I do not have LD_LIBRARY_PATH set to anything, while R sets LD_LIBRARY_PATH to: LD_LIBRARY_PATH=/usr/local/lib/R/bin:/usr/local/lib:/usr/local/lib:/usr/local/lib: /usr/lib/gcc-lib/i486-suse-linux/2.95.3:/usr/i486-suse-linux/lib:/usr/X11/lib:/usr/lib:/usr/lib: /usr/X11R6/lib:/usr/lib:/usr/lib:/usr/lib If I include unset LD_LIBRARY_PATH in INSTALL, R INSTALL works. Therefore, it's clear that I have a problem with the LD_LIBRARY_PATH env. var. that is set by R. Does anyone know what can be wrong with my R LD_LIBRARY_PATH ? Thanks Dr. Agustin Lobo Instituto de Ciencias de la Tierra (CSIC) Lluis Sole Sabaris s/n 08028 Barcelona SPAIN tel 34 93409 5410 fax 34 93411 0012 alobo at ija.csic.es -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html Send "info", "help", or "[un]subscribe" (in the "body", not the subject !) To: r-help-request at stat.math.ethz.ch _._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._
Peter Dalgaard BSA
2002-Jul-18 10:34 UTC
[R] R INSTALL: problem related to LD_LIBRARY_PATH
Agustin Lobo <alobo at paleo.ija.csic.es> writes:> Well, I've found that the line in INSTALL > that gives the problem is > gzip -dc "${1}" | (cd "${tmpdir}" && tar -xf -) > ("tar: /usr/local/lib/libpthread.so.0: version `GLIBC_2.2' not found > (required by /lib/librt.so.1)") > > If I run that command from the shell, i.e., > > gzip -dc KernSmooth_2.22-7.tar.gz | (cd /tmp/R.INSTALL.2186 && tar -xf -) > > it runs ok. > > I've compared my environment setings within R INSTALL and outside R > INSTALL and found that a major difference is that > in my shell I do not have LD_LIBRARY_PATH set to anything, while R > sets LD_LIBRARY_PATH to: > > LD_LIBRARY_PATH=/usr/local/lib/R/bin:/usr/local/lib:/usr/local/lib:/usr/local/lib: > /usr/lib/gcc-lib/i486-suse-linux/2.95.3:/usr/i486-suse-linux/lib:/usr/X11/lib:/usr/lib:/usr/lib: > /usr/X11R6/lib:/usr/lib:/usr/lib:/usr/lib > > If I include > unset LD_LIBRARY_PATH > > in INSTALL, R INSTALL works. > > Therefore, it's clear that I have a problem with the LD_LIBRARY_PATH env. > var. that is set by R. > > Does anyone know what can be wrong with my R LD_LIBRARY_PATH ?This is really Kurt's domain, but the absence of /lib in the path looks suspicious. You could try inserting it manually (and get rid of the duplicates). Also, are you sure you want to pick up libpthread from /usr/local (could this be an old version)? -- O__ ---- Peter Dalgaard Blegdamsvej 3 c/ /'_ --- Dept. of Biostatistics 2200 Cph. N (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~~~~~~~~~ - (p.dalgaard at biostat.ku.dk) FAX: (+45) 35327907 -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html Send "info", "help", or "[un]subscribe" (in the "body", not the subject !) To: r-help-request at stat.math.ethz.ch _._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._