[Rcpp-devel] Install failure undefined symbol

[Kevin Ushey]

The most likely cause here is that, even though Rcpp is being compiled
with gcc 9.2.0, an older version of libstdc++ is being found and used
at runtime, and that version of the libstdc++ library doesn't provide
the requested symbol (_ZTVN10__cxxabiv120__si_class_type_infoE).

Best guess: LD_LIBRARY_PATH should normally be set as an environment
variable, not a Make variable, so setting this:

LD_LIBRARY_PATH=/share/apps/gcc/9.2.0/lib:/share/apps/gcc/9.2.0/lib64:/opt/openmpi/lib:/share/apps/update/lib:/opt/python/lib

in your Makeconf won't help to ensure that the correct version of
libstdc++ is loaded at runtime.

(It should also be possible to tell gcc to enforce the usage of an
alternate C++ standard library, but I can't recall exactly how that's
done and have thus far failed to re-divine it from a quick skim of the
gcc documentation.)

Best,
Kevin



On Thu, Jun 11, 2020 at 9:06 AM Dirk Eddelbuettel <edd at debian.org> wrote:
>
>
> With the caveat that I am not expert on RHEL/CentOS and tend to share the
> general view of most developers that these seem to be a systems ... made for
> administrators first, rather than developers.
>
> I did for a while work on such a system but it also had a set of 'red hat
> developer tools' (I may have the name wrong) to get a recent compiler into
> /opt.  You need to make sure you also have the full C++ libraries etc along
> with it.
>
> Rcpp has no special needs besides a sane setup. It has been on CRAN for 12+
> years, and built with every then-current g++ or clang++ version so there is
> no constraint coming from our side.  We think it still builds with versions
> as old as g++ 4.9.*, possibly older.  But the setup needs to be right.
>
> Your best source of help may be a RHEL/CentOS/Fedora expert. Some are here,
> you may find more at r-sig-fedora.
>
> If/when a "teachable moment" comes out of this, please report back. We can
> always add something to the Rcpp FAQ.
>
> Dirk
>
> --
> http://dirk.eddelbuettel.com | @eddelbuettel | edd at debian.org
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