Quoting Godmar Back <god...@gmail.com>:
R respects LD_LIBRARY_PATH, see /usr/lib/R/etc/ldpaths where it
prepends its own path to any value in the environment when R is
invoked:
if test -z "${LD_LIBRARY_PATH}"; then
LD_LIBRARY_PATH="${R_LD_LIBRARY_PATH}"
else
LD_LIBRARY_PATH="${R_LD_LIBRARY_PATH}:${LD_LIBRARY_PATH}"
fi
export LD_LIBRARY_PATH
=====
Provide the output of
echo $LD_LIBRARY_PATH
or
env | grep LD_LIBRARY_PATH
to check that it's set correctly *BEFORE* you invoke R.
There's nothing there. However, you might have got me onto a
workaround. When
I see this:
$ diff /home/hrapgc/local/R-2.8.1/etc/ldpaths
/home/hrapgc/local/R-2.9.1/etc/ldpaths
2c2
< :
${R_JAVA_LD_LIBRARY_PATH=/usr/lib/gcj-4.1.2:/home/hrapgc/Rstuff/library/asreml/libs}
---
: ${R_JAVA_LD_LIBRARY_PATH=/usr/lib/gcj-4.1.2}
I think a little editing job will do the trick. Presumably, that happened at
compilation time and something screwy is happening with CentOS which doesn't
happen with other OSs.
The gcj thing IS a red herring, can we assume?
Thanks
- Godmar
On Wed, Jul 8, 2009 at 9:45 PM, <p_conno...@slingshot.co.nz> wrote:
Using R-2.8.0 and R-2.8.1, I get behaviour like this:
R version 2.8.0 (2008-10-20)
Copyright (C) 2008 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
[....]
Sys.getenv("LD_LIBRARY_PATH")
LD_LIBRARY_PATH
"/home/hrapgc/local/R-2.8.0/lib:/usr/local/lib:/usr/lib/gcj-4.1.1:/home/hrapgc/Rstuff/library/asreml/libs"
q()
Save workspace image? [y/n/c]: n
However:
R version 2.9.1 (2009-06-26)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
[...]
Sys.getenv("LD_LIBRARY_PATH")
LD_LIBRARY_PATH
"/home/hrapgc/local/R-2.9.1/lib:/usr/local/lib:/usr/lib/gcj-4.1.2"
I'm particularly dismayed by the fact that there are now only three
parts to LD_LIBRARY_PATH, and slightly mystified by the appearance of
/usr/lib/gcj-4.1.2 in place of /usr/lib/gcj-4.1.1. Maybe that's a red
herring since the former is a link to the latter.
I would appreciate help getting the rest of LD_LIBRARY_PATH back. I
set it in ~/.bash_profile in case that makes a difference to the
possible cause of the phenomenon.
$ uname -r
2.6.18-92.1.22.el5
The problem doesn't seem to arise with Fedora 8 nor with Mepis 6.5.
TIA
--
Patrick Connolly
HortResearch
Mt Albert
Auckland
New Zealand
Ph: +64-9 925 7079
~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~
I have the world`s largest collection of seashells. I keep it on all
the beaches of the world ... Perhaps you`ve seen it. ---Steven Wright
~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~
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