Well, I'm not sure it is really an rgdal "problem" as much as having a stale so and I didn;t want to go wreck the thing to capture the exact error message, the point was that apache build seems to have come with incompatible expat so. In the apache/lib dir, I apparently had a much different libs, now named xxx, than that which was in /lib64. If I dump the symbols with objdump the one rgdal complained about, IIRC XML_StopParser does not appear in either output but they do grep differently as shown below (
-rw-r--r-- 1 root root 605314 May 1 07:09 libexpat.a -rwxr-xr-x 1 root root 805 May 1 07:09 libexpat.la lrwxrwxrwx 1 root root 17 May 1 07:09 libexpat.so -> libexpat.so.0.5.0 lrwxrwxrwx 1 root root 17 May 1 07:09 libexpat.so.0 -> libexpat.so.0.5.0 -rwxr-xr-x 1 root root 143144 Jul 6 16:29 libexpat.so.0.5.0 -rwxr-xr-x 1 root root 398422 Jul 6 16:27 libexpat.soxxx.0.5.0 [marchywka@351915-www1 lib]$ grep XML_StopParser libexpat* Binary file libexpat.so matches Binary file libexpat.so.0 matches Binary file libexpat.so.0.5.0 matches [marchywka@351915-www1 lib]$ libexpat.so.0.5.0: linux-vdso.so.1 => (0x00002b4a1fdd2000) libc.so.6 => /lib64/libc.so.6 (0x00000035aca00000) /lib64/ld-linux-x86-64.so.2 (0x00000035ac600000) libexpat.soxxx.0.5.0: linux-vdso.so.1 => (0x00007fff8bdfc000) libc.so.6 => /lib64/libc.so.6 (0x00002b143b19e000) /lib64/ld-linux-x86-64.so.2 (0x00000035ac600000) > To: r-help@r-project.org > Subject: Re: [R] problem loading rgdal with Rapache, problem solved due to > libexpat with apache. > > You should provide at least the output of sessionInfo() and the messages > issued by rgdal on load. rgdal has recently been updated to try to address > issues of interference between applications, and it would help very much to > know your intentions, platform, and the versions of the software you are > using. > > Roger > > > Mike Marchywka wrote: > > > > Has anyone had problems with Rapache that don't show up on command line > > execution of R? I just ran into this loading rgdal in Rapache page and > > having > > a problem with loading shared object. The final complaint was that > > Stop_XMLParser > > was undefined- this was surprising since grep -l showed it in expat lib > > and it worked > > fine from command line. Finally, I noted the search path had apache/lib > > ahead > > of the other places where expat exists. The libexpat there although > > apparently having > > same versio, so.0.5.0 did not grep for this symbol. Anyway, copying one > > into > > the other fixed the problem and the page works fine but curious is anyone > > has thoughts on what could have caused this. Sorry I don't have > > specific output but i thought you may remember if you ran into > > it and it is not worth trying to replicate. Thanks. > > > > > > > > > > ______________________________________________ > > R-help@r-project.org mailing list > > https://stat.ethz.ch/mailman/listinfo/r-help > > PLEASE do read the posting guide > > http://www.R-project.org/posting-guide.html > > and provide commented, minimal, self-contained, reproducible code. > > > > > ----- > Roger Bivand > Department of Economics > NHH Norwegian School of Economics > Helleveien 30 > N-5045 Bergen, Norway > > -- > View this message in context: > http://r.789695.n4.nabble.com/problem-loading-rgdal-with-Rapache-problem-solved-due-to-libexpat-with-apache-tp3650119p3652639.html > Sent from the R help mailing list archive at Nabble.com. > > ______________________________________________ > R-help@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
