Yepp, had a similar problem when using my gcc-4.8.1 (clang does not yet provide the openmp library by default - coming soon with Intel’s openmp implementation). It could not find the headers cdefs.h, types.h, etc. The $CFLAGS variable of my GCC-4.8.1 was defined but was not considered by R CMD INSTALL. I had to give the include path manually via MAKEFLAGS=“CFLAGS=/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.9.sdk/usr/include”.
I wonder though, why it uses in Clays case the llvm-g++-4.2 even if it is not there anymore? On 27 Oct 2013, at 10:18, JJ Allaire <jj.alla...@gmail.com> wrote: > I believe that the problem is that gcc has been removed from command line > tools on OS X Mavericks: > > http://stackoverflow.com/questions/19533220/cannot-install-r-package-from-source-in-mac-osx-maverick > > > > > On Sun, Oct 27, 2013 at 2:46 AM, <rom...@r-enthusiasts.com> wrote: > Hi, > > What does this give you: > > $ R CMD config CXX > $ R CMD config CXXFLAGS > > What happens in an R console when you type: > > require(devtools) > has_devel() > > Romain > > Le 2013-10-27 06:02, Claymore M a écrit : > I am trying to get RInside to run on my mac (Mavericks). (I was able > to get RInline running no problem using Ubuntu at work; "it just > worked" with none of the hassle outlined below). > > I downloaded the package and tried to run: > > "make rinside_sample0" from within the standard folder of RInline. > > This produced Error1. > > _Among the first few lines of the many errors, I got:_ > > > _/Library/Frameworks/R.framework/Versions/3.0/Resources/library/RInside/include/RInsideCommon.h:34:18: > error: string: No such file or directory_ > > > _/Library/Frameworks/R.framework/Versions/3.0/Resources/library/RInside/include/RInsideCommon.h:35:18: > error: vector: No such file or directory_ > > > _/Library/Frameworks/R.framework/Versions/3.0/Resources/library/RInside/include/RInsideCommon.h:36:20: > error: iostream: No such file or directory_ > > > Why does the make file not find the "base" headers for iostream, > string, vector from C++? I am guessing I need to tell the compiler > where to find these files? How would I do this, presumably from > editing the make file? Are there any guides for how to do this etc? > Unfortunately, with no background in working with compilers when > errors pop up, I wouldn't know where to start at this point. > > I found this post suggesting I need to compile RInside from source on > the mac. > > http://stackoverflow.com/questions/12684408/rinside-linking-on-mac-osx > [1] > > > I then tried compiling RInside from source, but got these errors: > > _* installing to library > ‘/Library/Frameworks/R.framework/Versions/3.0/Resources/library’_ > > _* 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.h_ > > _llvm-g++-4.2 -arch x86_64 > > -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.o_ > > _MemBuf.cpp:23:20: error: iostream: No such file or directory_ > > _MemBuf.cpp:24:19: error: cstdlib: No such file or directory_ > > _MemBuf.cpp:25:18: error: string: No such file or directory_ > > _In file included from MemBuf.cpp:27:_ > > _../inst/include/MemBuf.h:25: error: ‘string’ in namespace > ‘std’ does not name a type_ > > _../inst/include/MemBuf.h:32: error: expected unqualified-id before > ‘&’ token_ > > _../inst/include/MemBuf.h:32: error: expected ‘,’ or ‘...’ > before ‘&’ token_ > > _../inst/include/MemBuf.h: In member function ‘const char* > MemBuf::getBufPtr()’:_ > > _../inst/include/MemBuf.h:33: error: ‘buffer’ was not declared in > this scope_ > > _MemBuf.cpp: In constructor ‘MemBuf::MemBuf(int)’:_ > > _MemBuf.cpp:34: error: class ‘MemBuf’ does not have any field > named ‘buffer’_ > > _MemBuf.cpp:35: error: ‘buffer’ was not declared in this scope_ > > _MemBuf.cpp: In member function ‘void MemBuf::resize()’:_ > > _MemBuf.cpp:39: error: ‘buffer’ was not declared in this scope_ > > _MemBuf.cpp: In member function ‘void MemBuf::rewind()’:_ > > _MemBuf.cpp:43: error: ‘buffer’ was not declared in this scope_ > > _MemBuf.cpp: At global scope:_ > > _MemBuf.cpp:46: error: expected unqualified-id before ‘&’ token_ > > _MemBuf.cpp:46: error: expected ‘,’ or ‘...’ before ‘&’ > token_ > > _MemBuf.cpp: In member function ‘void MemBuf::add()’:_ > > _MemBuf.cpp:47: error: ‘buf’ was not declared in this scope_ > > _MemBuf.cpp:48: error: ‘buffer’ was not declared in this scope_ > > _MemBuf.cpp:51: error: ‘buffer’ was not declared in this scope_ > > _make: *** [MemBuf.o] Error 1_ > > _ERROR: compilation failed for package ‘RInside’_ > > > Again, something about iostream missing etc. > > Any advice on the steps for what I need to do to fix this problem > would be much appreciated. > > Thanks in advance > Clay > > Links: > ------ > [1] http://stackoverflow.com/questions/12684408/rinside-linking-on-mac-osx > _______________________________________________ > Rcpp-devel mailing list > Rcpp-devel@lists.r-forge.r-project.org > https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel > > _______________________________________________ > Rcpp-devel mailing list > Rcpp-devel@lists.r-forge.r-project.org > https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel _______________________________________________ Rcpp-devel mailing list Rcpp-devel@lists.r-forge.r-project.org https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel
