[Rcpp-devel] undefined symbol: clock_gettime in Rcpp 0.10.2

Martin Morgan mtmorgan at fhcrc.org
Mon Dec 24 03:31:35 CET 2012

When trying to install Rcpp 0.10.2 with

$ R --version
R Under development (unstable) (2012-12-18 r61372) -- "Unsuffered Consequences"
$ clang++ --version
Ubuntu clang version 3.0-6ubuntu3 (tags/RELEASE_30/final) (based on LLVM 3.0)
Target: x86_64-pc-linux-gnu
Thread model: posix

I get

$ R CMD INSTALL Rcpp_0.10.2.tar.gz
clang++ -I/home/mtmorgan/bin/R-devel/include -DNDEBUG -I../inst/include/ 
-I/usr/local/include    -fpic  -g -O2  -c Timer.cpp -o Timer.o
** testing if installed package can be loaded
Error in dyn.load(file, DLLpath = DLLpath, ...) :
   unable to load shared object 
undefined symbol: clock_gettime
Error: loading failed

 From man clock_gettime I have

        Link with -lrt.

and adding PKG_LIBS += -lrt to src/Makevars addresses the problem for me, but 
I'm not sure that is a universal solution? Also, I had an identical problem with 
another package (Matrix, since corrected) so there is perhaps something 
a-typical about my configuration.

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