It was not clear from any of the documentation that Xcode 5.0.1 for 10.8
and for 10.9 use (by default) essentially separate C++ toolchains.
Both are based on clang++ "3.3svn" which is Apple parlance for 'some
version less than 3.3 and lacking some 3.2 features'. But they have
different headers and C++ libraries.
- 10.8 is using those from g++ 4.2.1
- 10.9 is using those from libcxx.
This means that they are not completely ABI-compatible, and any package
with C++ linkage (e.g. packages rgdal and rzmq) may need the external
software recompiled. [NB: clang++ vs g++ were ABI compatible in 10.8.
And 'may' not 'will'.]
10.9 contains a back-compatibility libstdc++, and most binary packages
using C++ still work. However, at least for me JAGS (and hence packages
rjags and runjags) and BioC package mzR segfault. I successfully
re-compiled JAGS and rjags from their sources, but mzR will not compile.
There are about 35 C++-based CRAN packages which do not compile using
clang++ plus libcxx. The usual issues: g++ headers include other
headers not required by the standards which other implementations do
not, g++ uses 'tr1' for headers where libcxx does not, and more
comprehensive implementations result in ambiguous matches.
--
Brian D. Ripley, [email protected]
Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
University of Oxford, Tel: +44 1865 272861 (self)
1 South Parks Road, +44 1865 272866 (PA)
Oxford OX1 3TG, UK Fax: +44 1865 272595
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