This is probably beyond my understanding at this point, but the solution I offered worked for me with R 4.0 and it looks like this example is R 3.6
I vaguely remember some issues with interaction between older R version and newer Xcode 11.4.1 so moving to R 4 might help On Sun, May 3, 2020 at 9:25 AM Paul Fishwick <metaph...@gmail.com> wrote: > Carl > > First, thank you for this quick tip! I had no ~/.R directory and Makevars > didn’t exist when I searched > > for it in Finder. So, I made the directdory ~/.R and then added a new file > “Makevars” to that directory. > > I edited this file to add your PKG_CPPFLAGS: > > > > (base) <hostname>-5:.R paul$ more Makevars > > > PKG_CPPFLAGS=-I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include > > > > Now I get another sequence of compiler errors. I’ll include only the first > several lines: > > > > ………. > > > > In file included from fileb6e52d3a23c3.cpp:1: > > In file included from > /Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp.h:27: > > In file included from > /Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/RcppCommon.h:29: > > In file included from > /Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/r/headers.h:67: > > In file included from > /Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/platform/compiler.h:100: > > /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/cmath:317:9: > error: no member named 'signbit' in the global namespace > > using ::signbit; > > ~~^ > > /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/cmath:318:9: > error: no member named 'fpclassify' in the global namespace > > using ::fpclassify; > > ~~^ > > /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/cmath:319:9: > error: no member named 'isfinite' in the global namespace; did you mean > 'finite'? > > using ::isfinite; > > ~~^ > > /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/math.h:749:12: > note: 'finite' declared here > > extern int finite(double) > > ^ > > > > *From: *Carl Ganz <carlg...@gmail.com> > *Date: *Sunday, May 3, 2020 at 11:02 AM > *To: *Paul Fishwick <metaph...@gmail.com> > *Cc: *<rcpp-devel@lists.r-forge.r-project.org> > *Subject: *Re: [Rcpp-devel] Cannot run rcpp due to missing include file(s) > > > > I experienced similar issues on Mac and was able to fix by adding > PKG_CPPFLAGS=-I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include > to my .R/Makevars > > > > My understanding is that Mac no longer uses the /usr/local/include so you > need to point it to the usr/include in the Developer SDK folder > > > > On Sun, May 3, 2020 at 8:59 AM Paul Fishwick <metaph...@gmail.com> wrote: > > > > > System: Mac OSX 11 (Catalina), Rstudio with R version 3.6.3 (but have also > tried 4.0 and 3.3), > > Xcode version 11.4.1 > > > > Went to: http://adv-r.had.co.nz/Rcpp.html#rcpp-intro > > > > and tried library(rcpp) which worked fine because I previously had > installed the rcpp package. > > > > The following yields an error in finding config.h. I did a "find" on > config.h and sure enough it is not > > in the clang++ -I directory references. Here is what I have tried: > > > > Installing Xcode's command line tools (which were installed using > xcode-select --install) > > Also, downloaded and installed the version of clang8 and gfortran6.1 from: > > > > https://cran.r-project.org/bin/macosx/tools/ > > > > The following error occurs when I try this rcpp example from Hadley but it > also happens whenever > > I try to install an R package from source. The compile fails due to not > finding some include file. > > > > I would have thought that installing clang8 would have also included the > proper include (.h) file directories > > with their contents needed by R. > > > > Is there something I am missing below? Thank you. > > > > > library(Rcpp) > > cppFunction('int add(int x, int y, int z) { > + int sum = x + y + z; > + return sum; > + }') > In file included from fileb6e52d3a23c3.cpp:1: > In file included from > /Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp.h:27: > In file included from > /Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/RcppCommon.h:29: > In file included from > /Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/r/headers.h:67: > In file included from > /Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/platform/compiler.h:100: > In file included from > /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/cmath:304: > In file included from /usr/local/include/math.h:8: > In file included from /usr/local/include/features.h:10: > /usr/local/include/forwards.h:10:10: fatal error: 'config.h' file not found > #include "config.h" > ^~~~~~~~~~ > 1 error generated. > make: *** [fileb6e52d3a23c3.o] Error 1 > clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" > -DNDEBUG > -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" > -I"/private/var/folders/bt/1gd00p5s6n19m_bgh9b04gxc0000gp/T/RtmpRRyaky/sourceCpp-x86_64-apple-darwin15.6.0-1.0.4" > -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk > -I/usr/local/include -fPIC -Wall -g -O2 -c fileb6e52d3a23c3.cpp -o > fileb6e52d3a23c3.o > Error in sourceCpp(code = code, env = env, rebuild = rebuild, cacheDir = > cacheDir, : > Error 1 occurred building shared library. > > > > _______________________________________________ > 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 > >
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