Xcode 5 : link fails - clang

I've tried to install the nfft package on my MacBook Pro OS X 10.9, using Xcode 5. The config.log relative to the nfft installation is attached. When I test the nfft package, I have to compile a .c file using the following command:

if true
   fftw3Path='/Users/boyer/Documents/MATLAB/fftw-3.3.4/';
   nfft3Path='/Users/boyer/Documents/MATLAB/nfft-3.2.3/';
   Ipath=[' -I' nfft3Path 'include ' ' -I' nfft3Path 'applications/fastsum ' '-I' fftw3Path 'api ' '-I' nfft3Path 'matlab ' ];
   Lpath=['-L' nfft3Path ' ' '-L' nfft3Path 'applications/fastsum' ' ' '-L' fftw3Path 'api' ];
   command=sprintf(['mex -v -Dchar16_t=uint16_t ' Lpath ' ' Ipath ' -lfftw3 -lnfft3 nfftmex.c']);
   eval(command)
end

Here is the answer that I get:

if true
  Building with 'Xcode with Clang'.
/usr/bin/xcrun -sdk macosx10.8 clang -c -Dchar16_t=uint16_t  -DMX_COMPAT_32   -DMATLAB_MEX_FILE -I/Users/boyer/Documents/MATLAB/nfft-3.2.3/include -I/Users/boyer/Documents/MATLAB/nfft-3.2.3/applications/fastsum -I/Users/boyer/Documents/MATLAB/fftw-3.3.4/api -I/Users/boyer/Documents/MATLAB/nfft-3.2.3/matlab  -I"/Applications/MATLAB_R2014a.app/extern/include" -I"/Applications/MATLAB_R2014a.app/simulink/include" -fno-common -arch x86_64 -mmacosx-version-min=10.8 -fexceptions -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.8.sdk -O2 -DNDEBUG /Users/boyer/Documents/MATLAB/nfft-3.2.3/matlab/nfft/nfftmex.c -o /var/folders/_0/63lwd1z17j94w_7wgkrw3x700000gn/T//mex_2747778005296_34460/nfftmex.o
/usr/bin/xcrun -sdk macosx10.8 clang -Wl,-twolevel_namespace -undefined error -arch x86_64 -mmacosx-version-min=10.8 -Wl,-syslibroot,/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.8.sdk -bundle  -Wl,-exported_symbols_list,"/Applications/MATLAB_R2014a.app/extern/lib/maci64/mexFunction.map" /var/folders/_0/63lwd1z17j94w_7wgkrw3x700000gn/T//mex_2747778005296_34460/nfftmex.o  -O -Wl,-exported_symbols_list,"/Applications/MATLAB_R2014a.app/extern/lib/maci64/mexFunction.map"  -lfftw3  -lnfft3   -L/Users/boyer/Documents/MATLAB/nfft-3.2.3/  -L/Users/boyer/Documents/MATLAB/nfft-3.2.3/applications/fastsum  -L/Users/boyer/Documents/MATLAB/fftw-3.3.4/api   -L"/Applications/MATLAB_R2014a.app/bin/maci64" -lmx -lmex -lmat -lstdc++ -o nfftmex.mexmaci64
Error using mex
Undefined symbols for architecture x86_64:
"_nfft_mex_get_int", referenced from:
    _mexFunction in nfftmex.o
"_nfft_mex_install_mem_hooks", referenced from:
    _mexFunction in nfftmex.o
ld: symbol(s) not found for architecture x86_64
clang: error: linker command failed with exit code 1 (use -v to see invocation)
end

Using MatlabR2011b, I have changed the mexopts.sh file replacing the version by 10.9: CC='llvm-gcc' CXX='llvm-g++' SDKROOT='/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.9.sdk/'

I have also tried to change the libraries -lstdc++ by -std=libstdc++. Nothing solves the problem.

Then I used MatlabR2014a, and I have the same error (but in this version, we cannot modify the mexopts.sh, it seems to have been replaced by mex_C_maci64.xml).

I think that maybe I will install another c-compiler which is too bad since at least MatlabR2014a is supposed to be compatible with Xcode5.

If you have any suggestion, thank you in advance.

Answer 1

[Claire]

It seems to work by applying the following command when installing the nfft package (before make and make install):

    ./configure --with-fftw3='/usr/local' --with-fftw3-libdir='/usr/local/lib' --with-fftw3-includedir='/usr/local/include' --with-matlab='/Applications/MATLAB_R2014a.app' --with-matlab-fftw3-libdir='/usr/local/lib'

Another comment: even if the version of OS X is 10.9, matlab selects 10.8sdk. To avoid this, you can edit the file mex_C_maci64.xml, and invert 2 lines of codes:

if true
  <dirExists name="$$/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.7.sdk" />
                      <dirExists name="$$/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.9.sdk" />
                      <dirExists name="$$/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.8.sdk" />
                      <cmdReturns name="find $$ -name MacOSX10.7.sdk" />
                      <cmdReturns name="find $$ -name MacOSX10.9.sdk" />
                      <cmdReturns name="find $$ -name MacOSX10.8.sdk" />

end

instead of

if true
  <dirExists name="$$/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.7.sdk" />
                      <dirExists name="$$/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.8.sdk" />
                      <dirExists name="$$/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.9.sdk" />
                      <cmdReturns name="find $$ -name MacOSX10.7.sdk" />
                      <cmdReturns name="find $$ -name MacOSX10.8.sdk" />
                      <cmdReturns name="find $$ -name MacOSX10.9.sdk" />

end

Hope it can help.