On 3/11/09, Duncan Temple Lang wrote:
[...]
>
> That should probably be
> setenv LIBXML_INCDIR -I/usr/local/include/libxml2
>
> (rather than having the additional /libxml after it.)
OK, thanks. But this still fails.
> Did you install libxml2 version 2.7.3 yourself,
> i.e. separately from the installation of the operating system?
I did not install myself. It must have been installed as dependency of
some other package.
> Is /usr/local/lib being searched for .so files by your dynamic
> loader?
>
> Try
>
> ldd `which xmllint`
>
> to see what shared libraries it finds? Does it list
> libxml2.so.2 and if so, where is the file to which it points -
> /usr/lib or /usr/local/lib ? If it is /usr/lib, that is the
> problem.
erdos# ldd `which xmllint`
/usr/local/bin/xmllint:
libxml2.so.5 => /usr/local/lib/libxml2.so.5 (0x80063e000)
libz.so.4 => /lib/libz.so.4 (0x800884000)
libiconv.so.3 => /usr/local/lib/libiconv.so.3 (0x800998000)
libm.so.5 => /lib/libm.so.5 (0x800b91000)
libc.so.7 => /lib/libc.so.7 (0x800cab000)
> If this doesn't identify the problem, please download
> the XML_2.3-0.tar.gz file and issue the commands
>
> tar zxf XML_2.3-0.tar.gz
> R CMD INSTALL XML
>
> and send me the file XML/config.log and I can try to
> find out what is going wrong form the details in that.
[...]
Aha, thanks for the hint. Once I checked the config.log file, I found
the source of the error. XML was using a different version of gcc than
that used from building R-devel. So the solution was simply to do
R CMD INSTALL --configure-vars="MAKE=gmake CC=gcc44 ..." XML
Thanks very much for your help. Is there a way to automagically use
the configure-vars used to build R for any package installs without
having to explicitly pass them as above?
h.
--
+---
| Hiroyuki Kawakatsu
| Business School, Dublin City University
| Dublin 9, Ireland. Tel +353 (0)1 700 7496
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