After updating to Mavericks, I am unable to use the inline package (calling the
cxxfunction using C++ code examples), or compile package such as Rcpp.
Originally, I thought this was a problem specific to Rcpp only, it I think it
is more general.
I have followed steps such as changing the Makeconf file in Resources/etc by
using (as discussed in the October threads here and on SO)
CC = clang and CXX = clang++
but this has not been enough to solve the problem.
If I try and install Rcpp from source, I get this:
* installing to library
/Library/Frameworks/R.framework/Versions/3.0/Resources/library
* installing *source* package Rcpp ...
** package Rcpp successfully unpacked and MD5 sums checked
** libs
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG
-I../inst/include/ -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c
Date.cpp -o Date.o
In file included from Date.cpp:29:
In file included from ../inst/include/Rcpp/Datetime.h:25:
In file included from ../inst/include/RcppCommon.h:28:
../inst/include/Rcpp/platform/compiler.h:93:10: fatal error: 'cmath' file not
found
#include <cmath>
^
1 error generated.
make: *** [Date.o] Error 1
ERROR: compilation failed for package Rcpp
* removing /Library/Frameworks/R.framework/Versions/3.0/Resources/library/Rcpp
* restoring previous
/Library/Frameworks/R.framework/Versions/3.0/Resources/library/Rcpp
Similarly, if I try to install RInline (which I realise depends on Rcpp; and
Rcpp is in my R library in binary form), I get errors:
* installing *source* package RInside ...** package RInside successfully
unpacked and MD5 sums checked**
libs/Library/Frameworks/R.framework/Resources/bin/Rscript
tools/RInsideAutoloads.r >
RInsideAutoloads.h/Library/Frameworks/R.framework/Resources/bin/Rscript
tools/RInsideEnvVars.r > RInsideEnvVars.hclang++
-I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I.
-I../inst/include/ -I/usr/local/include
-I"/Library/Frameworks/R.framework/Versions/3.0/Resources/library/Rcpp/include"
-fPIC -mtune=core2 -g -O2 -c MemBuf.cpp -o MemBuf.oMemBuf.cpp:23:10: fatal
error: 'iostream' file not found#include <iostream> ^1 error
generated.make: *** [MemBuf.o] Error 1ERROR: compilation failed for package
RInside
* removing
/Library/Frameworks/R.framework/Versions/3.0/Resources/library/RInside
I am using R 3.0.2 and have Xcode 5.0.1 installed.
If my understanding is on the right track, how do I get the clang compiler to
see the libraries like cmath, iostream?
Any help on how to resolve this problem would be much appreciated.
Thanks in advance
Clay
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