mex -setup doesn't find the compiler gfortran

I am having trouble using mex with Matlab. I am following these steps to try to use mex: http://www.mathworks.com/support/tech-notes/1600/1605.html#setup . Things go wrong with the very first step- the command mex -setup. This command is supposed to find all supported compilers (<http://www.mathworks.com/support/compilers/R2012a/glnxa64.html>) and let you select the one that mex should use in the future. When I run this command, Matlab does not find gfortran. I thought that it might be a path issue (see http://www.mathworks.com/matlabcentral/newsreader/view_thread/172171) I checked my gfortran location against the paths that Matlab checks for the compiler (by running the command getenv('PATH')). I also added the paths to my list of paths in startup.m to be extra sure. I also found that I was using a higher version of the gcc compiler than was supported by Matlab so I downgraded the compiler to the specific version of gfortran on the supported compilers list. None of these things solved the problem. Can you suggest anything? I am using the release R2011b.

Answer 1

[Ken Atwell]

Elizabeth,

If gfortran is on your PATH, MATLAB should be able to find it. Run "mex -setup" and just pick the only option available to you (gcc).

Then, "mex -v filename.f". -v is for verbose. If this fails to build because MEX cannot find the gfortran, post the entire verbose output to this question to help us troubleshoot this problem.

[Robert]

 gfortran works from Terminal on MacOS
( which gfortran
/usr/local/bin/gfortran
)

 but doesn't from inside MATLAB

 mex -v timestwo.F

 **************************************************************************
  Warning: Neither -compatibleArrayDims nor -largeArrayDims is selected. 
           Using -compatibleArrayDims. In the future, MATLAB will require
           the use of -largeArrayDims and remove the -compatibleArrayDims
           option. For more information, see:
           http://www.mathworks.com/help/matlab/matlab_external/upgrading-mex-files-to-use-64-bit-api.html
**************************************************************************

 -> mexopts.sh sourced from directory (DIR = $PREF_DIR)
   FILE = /Users/murphy/.matlab/R2013a/mexopts.sh
----------------------------------------------------------------
->    MATLAB                = /Applications/MATLAB_R2013a.app
->    CC                    = xcrun  -sdk macosx10.7  clang
->    CC flags:
         CFLAGS             = -fno-common -arch x86_64 -isysroot  -mmacosx-version-min=10.7  -fexceptions
         CDEBUGFLAGS        = -g
         COPTIMFLAGS        = -O2 -DNDEBUG
         CLIBS              = -L/Applications/MATLAB_R2013a.app/bin/maci64 -lmx -lmex -lmat -lstdc++
         arguments          =  -DMX_COMPAT_32
->    CXX                   = xcrun  -sdk macosx10.7  clang++
->    CXX flags:
         CXXFLAGS           = -fno-common -fexceptions -arch x86_64 -isysroot  -mmacosx-version-min=10.7
         CXXDEBUGFLAGS      = -g
         CXXOPTIMFLAGS      = -O2 -DNDEBUG
         CXXLIBS            = -L/Applications/MATLAB_R2013a.app/bin/maci64 -lmx -lmex -lmat -lstdc++
         arguments          =  -DMX_COMPAT_32
->    FC                    = gfortran
->    FC flags:
         FFLAGS             = -fexceptions -m64 -fbackslash
         FDEBUGFLAGS        = -g
         FOPTIMFLAGS        = -O
         FLIBS              = -L/Applications/MATLAB_R2013a.app/bin/maci64 -lmx -lmex -lmat -L -lgfortran -L -lgfortranbegin
         arguments          =  -DMX_COMPAT_32
->    LD                    = xcrun -sdk macosx10.7 clang
->    Link flags:
         LDFLAGS            = -arch x86_64 -Wl,-syslibroot, -mmacosx-version-min=10.7 -bundle -Wl,-exported_symbols_list,/Applications/MATLAB_R2013a.app/extern/lib/maci64/fexport.map
         LDDEBUGFLAGS       = -g
         LDOPTIMFLAGS       = -O
         LDEXTENSION        = .mexmaci64
         arguments          = 
->    LDCXX                 = 
->    Link flags:
         LDCXXFLAGS         = 
         LDCXXDEBUGFLAGS    = 
         LDCXXOPTIMFLAGS    = 
         LDCXXEXTENSION     = 
         arguments          = 
----------------------------------------------------------------

 -> gfortran -c  -I/Applications/MATLAB_R2013a.app/extern/include -I/Applications/MATLAB_R2013a.app/simulink/include -fexceptions -m64 -fbackslash  -DMX_COMPAT_32 -O  "timestwo.F"

 /Applications/MATLAB_R2013a.app/bin/mex: line 1343: gfortran: command not found

    mex: compile of ' "timestwo.F"' failed.

 Error using mex (line 206)
Unable to complete successfully.

[Ken Atwell]

Robert, you may want to start a new topic to get more exposure -- this thread is nearly two years old.