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installation problems from an Rstudio server
2 messages · Erin Hodgess, Brian Ripley
On 20/06/2013 09:53, Erin Hodgess wrote:
Dear R People: I'm not sure if this is an R problem or a Centos 5 problem, but here it goes:
It is not an R problem. Your message is garbled (don't send HTML?), but the essence is gcc: error trying to exec 'as': execvp: Permission denied That is a problem with your compiler installation: it cannot execute its assembler pass.
I'm running Rstudio from a Centos 5 server. When I try to install packages from a non-root account, I get the following:
Sys.umask()[1] "22"> install.packages("maps")Installing package into ?/home/erin1/R/x86_64-unknown-linux-gnu-library/3.0?
(as ?lib? is unspecified)trying URL 'http://cran.rstudio.com/src/contrib/maps_2.3-2.tar.gz'Content type 'application/x-gzip' length 1426362 bytes (1.4 Mb)opened URL==================================================downloaded 1.4 Mb * installing *source* package ?maps? ...** package ?maps? successfully unpacked and MD5 sums checked** libs** arch - gcc -std=gnu99 -g -O2 -I/usr/local/include -L/usr/local/lib64 Gmake.c -o GmakeGmake.c: In function ?get_lh?: Gmake.c:111: warning: cast from pointer to integer of different sizeGmake.c:113: warning: cast from pointer to integer of different sizeGmake.c: In function ?main?:Gmake.c:211: warning: cast from pointer to integer of different sizeGmake.c:214: warning: cast from pointer to integer of different sizeGmake.c:217: warning: cast from pointer to integer of different sizeGmake.c:219: warning: cast from pointer to integer of different sizeGmake.c:221: warning: cast from pointer to integer of different sizeGmake.c:224: warning: cast from pointer to integer of different sizeGmake.c:227: warning: cast from pointer to integer of different sizegcc: error trying to exec 'as': execvp: Permission deniedmake: *** [Gmake] Error 1ERROR: compilation failed for package ?maps?* removing ?/home/erin1/R/x86_64-unknown-linux-gnu-library/3.0/maps?Warning in install.packages : installation of package ?maps? had non-zero exit status The downloaded source packages are in ?/tmp/RtmpIF6S0R/downloaded_packages?> sessionInfo()R version 3.0.1 (2013-05-16) Platform: x86_64-unknown-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8 [4] LC_COLLATE=en_US.UTF-8 LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=C LC_NAME=C LC_ADDRESS=C [10] LC_TELEPHONE=C LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base loaded via a namespace (and not attached): [1] tools_3.0.1
I've changed the permissions, and updated the umask to 022. Any help would be much appreciated. Sincerely, Erin
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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