Hi, this is correct. I had to set the TMPDIR and also set the JAVA_HOME to the root of the JDK Java directory and not the JRE for the packages that depend on Java...
[r...@localhost ~]# export TMPDIR=/var/tmp [r...@localhost ~]# export JAVA_HOME=/usr/java/latest I'M running on a CentOS (RHEL) system and installed the rpm version of R and JDK. I hope this helps. Best, Matias -----Original Message----- From: r-devel-boun...@r-project.org [mailto:r-devel-boun...@r-project.org] On Behalf Of William Dunlap Sent: Wednesday, September 30, 2009 10:31 AM To: Uwe Ligges; zong-pei....@imm.ox.ac.uk Cc: r-devel@r-project.org Subject: Re: [Rd] Installation problem from R 2.8.x In September 2009 Matias Silva reported a execution permission problem during a package installation (look in the r-devel archives for ' [Rd] Installing rJava RJDBC bad interpreter: Permission denied'). It was due to the fstab file marking /tmp as noexec, hence nothing in /tmp was executable, regardless of its file mode. Since the package was copied to /tmp before compilation he ran into the problem. I think he worked around it by setting TMPDIR=/var/tmp, where /var/tmp did not have this restriction, before doing the install. His error message was different but you might be having a similar problem. Bill Dunlap TIBCO Software Inc - Spotfire Division wdunlap tibco.com > -----Original Message----- > From: r-devel-boun...@r-project.org > [mailto:r-devel-boun...@r-project.org] On Behalf Of Uwe Ligges > Sent: Wednesday, September 30, 2009 9:49 AM > To: zong-pei....@imm.ox.ac.uk > Cc: r-devel@r-project.org > Subject: Re: [Rd] Installation problem from R 2.8.x > > What you call a bug in R has never been reported since R-2.8.0 was > recent. Hence I guess it is a permission issue on your system. > Or do you think nobody else tried to install a package during > the last > 12 months? > > Uwe Ligges > > > zong-pei....@imm.ox.ac.uk wrote: > > Dear Developers, > > > > Since 2.8, R installation has got a bug in it such > > that if a package has a "configure" file then it > > cannot be installed without modification. > > > > For example: > > > > * Installing *source* package 'foreign' ... > > ERROR: 'configure' exists but is not executable -- > > see the 'R Installation and Adminstration Manual' > > * Removing '/usr/local/source_code/Linux/R/R-2.9.2/library/foreign' > > make[2]: *** [foreign.ts] Error 1 > > > > In fact, 'configure' is executable!!! So I have to manually > > run 'configure', remove 'configure', and then repackage > > foreign_0.8-37.tar.gz so it can be installed. > > > > This bug makes it very time consuming to add any package > > which has a 'configure' in it. And the bug seems to be > > in src/library/tools/R/install.R > > > > Regards, > > > > Dr Zong-Pei Han > > UNIX Systems Administrator > > Computational Biology Research Group > > University of Oxford > > http://www.cbrg.ox.ac.uk/ > > > > ______________________________________________ > > 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 > ______________________________________________ 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
