Beginner's Mex Error - MatLab

I am beginning to use the mex setup to call fortran files from matlab. What I am trying to do is call a fortran subroutine inside an m-file. From what I've read, I need to run:

mex filename.f90

However, when I do that, I get lots of error messages of the type:

error #5149: Illegal
character in statement label field  [s]

However, I am using a .f90 file that is supposedly correct (I got it from another source). Here are the first beginning lines of the fortran file:

subroutine mexFunction(nlhs,plhs,nrhs,prhs)
!--------------------------------------------------------------------
! Matlab gateway for sirff

   implicit none

   ! pointers to input/output data
   ! always take INTEGER*8, to let it work on 64-bit machines (SGI e.g.)
   ! 32-bit compilers will correct this to INTEGER*4, so don't worry about the
   ! warning(s) on this during compilation.
   integer(8) :: plhs(*), prhs(*)

I am a beginner to this, so bear with me please. Any help is appreciated.

Thanks.

Answer 1

[James Tursa]

Check the associated mexopts file for the specific compiler/linker setup you are using and look for the COMPFLAGS line. If there is a "/fixed" option on that line, delete it! I have no idea why TMW continues this practice of forcing the compiler into fixed form mode when it should be left to the file extension (.f or .f90) to determine fixed or free format. E.g.,

Look in the following folder (or similar folder e.g. win64)

[matlabroot '\bin\win32\mexopts']

Older version of MATLAB use .bat files, newer versions of MATLAB use .xml files. Find the file name that is associated with your compiler. E.g., on my system there is the following file:

intel_fortran_13_v2012.xml

and when you open that file there is the following entry:

COMPFLAGS="/nologo /fpp /Qprec /fixed /MD /fp:source /assume:bscc $COMPDEFINES $INCLUDE"

The /fixed option shown is the likely problem. Get rid of it! I.e., edit the file and remove the /fixed text so the line reads:

COMPFLAGS="/nologo /fpp /Qprec /MD /fp:source /assume:bscc $COMPDEFINES $INCLUDE"

As another example, on an older version of MATLAB there is a .bat file, e.g.,

intelf12msvs2010opts.bat

And you will see the same "/fixed" problem on the COMPFLAGS line in that file. Get rid of it.

Finally, before you edit any of these files I would advise copying the entire directory to another location so that you can recover to the original files if necessary.

SIDE COMMENT:

I have no idea what the comment in the code "32-bit compilers will correct this to INTEGER*4" means ... I am unaware of any such "automatic" compiler behavior.

[Marcelo Sena]

Hi, thanks for the very clear comment. I did what you suggested (I actually took off the /fixed from all the fortran related xml file I had there: intel_fortran_12_vs2008, intel_fortran_12_vs2010, intel_fortran_13_vs2010, intel_fortran_13_vs2012). I then tried:

mex sirff.f90

but obtained the same type of error (loads of error messages like the one in my original post). I know information may be scarce, but I am completely new to this and would just like to run this one external file which I received.

Thanks once again.

[James Tursa]

My guess is that you need to force MATLAB into re-reading the files you just edited. On older versions of MATLAB you would just run "mex -setup" again at the command line. On newer versions of MATLAB I think you need to run "mex -setup FORTRAN". I don't have Fortran installed myself so I cannot test this.

[Marcelo Sena]

Tried it, but no luck... Can you think of anything else?

[Marcelo Sena]

Anybody?

[James Tursa]

Can you run "mex filename.f90 -v" to verify what settings are actually being used?

[Marcelo Sena]

It was using a compiler not located at the mexopts folder. I openedthe xml file, removed the /fixed and it now works! Thank you very much. Here is the output of mex filename.f90 -v, just in case you spot something weird...

Verbose mode is on.
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:
   http://www.mathworks.com/help/matlab/matlab_external/upgrading-mex-files-to-use-64-bit-api.html.
... Looking for compiler 'Intel Visual Fortran Composer XE 2013 with Microsoft Visual Studio 2008' ...
... Looking for environment variable 'IFORT_COMPILER14' ...No.
... Looking for environment variable 'IFORT_COMPILER13' ...Yes ('C:\Program Files (x86)\Intel\Composer XE 2013\').
... Looking for file 'C:\Program Files (x86)\Intel\Composer XE 2013\Bin\intel64\ifort.exe' ...Yes.
... Looking for folder 'C:\Program Files (x86)\Intel\Composer XE 2013' ...Yes.
... Looking for registry setting 'HKLM\SOFTWARE\Microsoft\Microsoft SDKs\Windows\v7.1' InstallationFolder ...Yes ('C:\Program Files\Microsoft SDKs\Windows\v7.1\').
... Looking for registry setting 'HKLM\SOFTWARE\Wow6432Node\Microsoft\VisualStudio\SxS\VC7' 10.0 ...Yes ('C:\Program Files (x86)\Microsoft Visual Studio 10.0\VC\').
... Looking for file 'C:\Program Files (x86)\Microsoft Visual Studio 10.0\VC\bin\amd64\cl.exe' ...Yes.
... Looking for folder 'C:\Program Files (x86)\Microsoft Visual Studio 10.0' ...Yes.
Found installed compiler 'Intel Visual Fortran Composer XE 2013 with Microsoft Visual Studio 2008'.
Set PATH = C:\Program Files (x86)\Intel\Composer XE 2013\bin\intel64;C:\Program Files (x86)\Microsoft Visual Studio 10.0\Common7\IDE;C:\Program Files (x86)\Microsoft Visual Studio 10.0\Common7\Tools;C:\Program Files (x86)\Microsoft Visual Studio 10.0\VC\Bin\amd64;C:\Program Files (x86)\Microsoft Visual Studio 10.0\VC\Bin\VCPackages;C:\Program Files\Microsoft SDKs\Windows\v7.1\\Bin\x64;C:\Program Files\Microsoft SDKs\Windows\v7.1\\Bin;;C:\Program Files (x86)\Intel\Trace Analyzer and Collector\9.0.1.035\bin;C:\Program Files (x86)\Intel\MPI\5.0.1.037\intel64\bin;C:\Program Files (x86)\Intel\Trace Analyzer and Collector\9.0.2.045\bin;C:\Program Files (x86)\Intel\MPI\5.0.2.044\intel64\bin;C:\Program Files (x86)\Common Files\Intel\Shared Libraries\redist\intel64\mpirt;C:\Program Files (x86)\Common Files\Intel\Shared Libraries\redist\ia32\mpirt;C:\Program Files (x86)\Common Files\Intel\Shared Libraries\redist\intel64\compiler;C:\Program Files (x86)\Common Files\Intel\Shared Libraries\redist\ia32\compiler;C:\Program Files (x86)\NVIDIA Corporation\PhysX\Common;C:\Program Files\NVIDIA GPU Computing Toolkit\CUDA\v6.5\bin;C:\Program Files\NVIDIA GPU Computing Toolkit\CUDA\v6.5\libnvvp;C:\ProgramData\Oracle\Java\javapath;C:\Program Files (x86)\Intel\iCLS Client\;C:\Program Files\Intel\iCLS Client\;C:\Windows\system32;C:\Windows;C:\Windows\System32\Wbem;C:\Windows\System32\WindowsPowerShell\v1.0\;C:\Program Files (x86)\Windows Live\Shared;C:\Program Files\Intel\Intel(R) Management Engine Components\DAL;C:\Program Files\Intel\Intel(R) Management Engine Components\IPT;C:\Program Files (x86)\Intel\Intel(R) Management Engine Components\DAL;C:\Program Files (x86)\Intel\Intel(R) Management Engine Components\IPT;C:\Program Files (x86)\Intel\OpenCL SDK\2.0\bin\x86;C:\Program Files (x86)\Intel\OpenCL SDK\2.0\bin\x64;C:\Program Files (x86)\MiKTeX 2.9\miktex\bin\;C:\Program Files\MATLAB\R2014b\runtime\win64;C:\Program Files\MATLAB\R2014b\bin;C:\WINDOWS\system32;C:\WINDOWS;C:\WINDOWS\System32\Wbem;C:\WINDOWS\System32\WindowsPowerShell\v1.0\;C:\Program Files\Microsoft SQL Server\110\Tools\Binn\;C:\Program Files (x86)\Microsoft SDKs\TypeScript\1.0\;C:\Program Files\Microsoft SQL Server\120\Tools\Binn\;C:\Program Files (x86)\Windows Kits\8.1\Windows Performance Toolkit\;C:\Program Files\Microsoft Windows Performance Toolkit\;C:\Program Files (x86)\Intel\Trace Analyzer and Collector\9.0.1.035\dll;C:\Program Files (x86)\Intel\Trace Analyzer and Collector\9.0.2.045\dll
Set INCLUDE = C:\Program Files (x86)\Intel\Composer XE 2013\include;C:\Program Files (x86)\Intel\Composer XE 2013\compiler\include;C:\Program Files (x86)\Microsoft Visual Studio 10.0\VC\INCLUDE;C:\Program Files\Microsoft SDKs\Windows\v7.1\\INCLUDE;C:\Program Files\Microsoft SDKs\Windows\v7.1\\INCLUDE\gl;C:\Program Files\MATLAB\R2014b\extern\include;;C:\Program Files (x86)\Intel\Trace Analyzer and Collector\9.0.1.035\include;C:\Program Files (x86)\Intel\Trace Analyzer and Collector\9.0.2.045\include
Set LIB = C:\Program Files (x86)\Intel\Composer XE 2013\lib\intel64;C:\Program Files (x86)\Intel\Composer XE 2013\compiler\lib\intel64;C:\Program Files (x86)\Microsoft Visual Studio 10.0\VC\Lib\amd64;C:\Program Files\Microsoft SDKs\Windows\v7.1\\Lib\X64;C:\Program Files (x86)\Microsoft Visual Studio 10.0\VC\ATLMFC\LIB\AMD64;C:\Program Files\MATLAB\R2014b\lib\win64;C:\Program Files\MATLAB\R2014b\extern\lib\win64;
Set LIBPATH = C:\Program Files (x86)\Intel\Composer XE 2013\compiler\Lib\Intel64;C:\Program Files (x86)\Microsoft Visual Studio 10.0\VC\Lib\amd64;C:\Program Files\Microsoft SDKs\Windows\v7.1\\LIB\X64;C:\Program Files (x86)\Microsoft Visual Studio 10.0\VC\ATLMFC\LIB\AMD64;C:\Program Files\MATLAB\R2014b\extern\lib\win64;
Options file details
-------------------------------------------------------------------
  Compiler location: C:\Program Files (x86)\Intel\Composer XE 2013
  Options file: C:\Users\Marcelo\AppData\Roaming\MathWorks\MATLAB\R2014b\mex_FORTRAN_win64.xml
  CMDLINE100 : ifort /c /nologo /fpp /Qprec /fixed /MD /fp:source /assume:bscc -I"C:\Program Files\MATLAB\R2014b\extern\include"  /DMX_COMPAT_32   /DMATLAB_MEX_FILE /O2 /DNDEBUG "C:\Users\..." /FoC:\Users\Marcelo\AppData\Local\Temp\mex_247517124086464_10164\sirff.obj
  CMDLINE200 : link /nologo /manifest  kernel32.lib user32.lib gdi32.lib winspool.lib comdlg32.lib advapi32.lib shell32.lib ole32.lib oleaut32.lib uuid.lib odbc32.lib odbccp32.lib /incremental:NO /DLL  /EXPORT:MEXFUNCTION C:\Users\Marcelo\AppData\Local\Temp\mex_247517124086464_10164\sirff.obj  /LIBPATH:"C:\Program Files\MATLAB\R2014b\extern\lib\win64\microsoft" libmx.lib libmex.lib libmat.lib /out:sirff.mexw64 /MAP:"sirff.map"
  CMDLINE250 : mt -outputresource:sirff.mexw64;2 -manifest sirff.mexw64.manifest
  CMDLINE300 : del sirff.exp sirff.lib "sirff.map" sirff.mexw64.manifest sirff.ilk
  COMPILER : ifort
  COMPFLAGS : /nologo /fpp /Qprec /fixed /MD /fp:source /assume:bscc -I"C:\Program Files\MATLAB\R2014b\extern\include"  /DMX_COMPAT_32   /DMATLAB_MEX_FILE
  COMPDEFINES : /DMX_COMPAT_32   /DMATLAB_MEX_FILE
  MATLABMEX : /DMATLAB_MEX_FILE
  OPTIMFLAGS : /O2 /DNDEBUG
  INCLUDE : -I"C:\Program Files\MATLAB\R2014b\extern\include"
  DEBUGFLAGS : /Z7
  LINKER : link
  LINKFLAGS : /nologo /manifest  kernel32.lib user32.lib gdi32.lib winspool.lib comdlg32.lib advapi32.lib shell32.lib ole32.lib oleaut32.lib uuid.lib odbc32.lib odbccp32.lib /incremental:NO
  LINKTYPE : /DLL
  LINKEXPORT : /EXPORT:MEXFUNCTION
  LINKLIBS : /LIBPATH:"C:\Program Files\MATLAB\R2014b\extern\lib\win64\microsoft" libmx.lib libmex.lib libmat.lib
  LINKDEBUGFLAGS : /debug /PDB:"sirff.mexw64.pdb"
  LINKOPTIMFLAGS : 
  OBJEXT : .obj
  LDEXT : .mexw64
  SETENV : set COMPILER=ifort 
        set COMPFLAGS=/c /nologo /fpp /Qprec /fixed /MD /fp:source /assume:bscc -I"C:\Program Files\MATLAB\R2014b\extern\include"  /DMX_COMPAT_32   /DMATLAB_MEX_FILE /DMX_COMPAT_32   /DMATLAB_MEX_FILE /DMATLAB_MEX_FILE 
        set OPTIMFLAGS=/O2 /DNDEBUG 
        set DEBUGFLAGS=/Z7 
        set LINKER=link 
        set LINKFLAGS=/nologo /manifest  kernel32.lib user32.lib gdi32.lib winspool.lib comdlg32.lib advapi32.lib shell32.lib ole32.lib oleaut32.lib uuid.lib odbc32.lib odbccp32.lib /incremental:NO /export:%ENTRYPOINT% /DLL /LIBPATH:"C:\Program Files\MATLAB\R2014b\extern\lib\win64\microsoft" libmx.lib libmex.lib libmat.lib /EXPORT:MEXFUNCTION 
        set LINKDEBUGFLAGS=/debug /PDB:"%OUTDIR%%MEX_NAME%.mexw64.pdb" 
        set NAME_OUTPUT=/out:"%OUTDIR%%MEX_NAME%%MEX_EXT%"
  FORTRANROOT : C:\Program Files (x86)\Intel\Composer XE 2013
  SDKROOT : C:\Program Files\Microsoft SDKs\Windows\v7.1\
  VSROOT : C:\Program Files (x86)\Microsoft Visual Studio 10.0
  MATLABROOT : C:\Program Files\MATLAB\R2014b
  ARCH : win64
  SRC : "C:\Users..."
  OBJ : C:\Users\Marcelo\AppData\Local\Temp\mex_247517124086464_10164\sirff.obj
  OBJS : C:\Users\Marcelo\AppData\Local\Temp\mex_247517124086464_10164\sirff.obj 
  SRCROOT : C:\Users\Marcelo\Desktop\Marcelo\PUC\Mestrado\Paper de Verão\Rotinas\Eu\Neoclassical without Labor a la Econo Reviews\likelihood cut\sirff
  DEF : C:\Users\Marcelo\AppData\Local\Temp\mex_247517124086464_10164\sirff.def
  EXP : sirff.exp
  LIB : sirff.lib
  EXE : sirff.mexw64
  ILK : sirff.ilk
  MANIFEST : sirff.mexw64.manifest
  TEMPNAME : sirff
  EXEDIR : 
  EXENAME : sirff
  OPTIM : /O2 /DNDEBUG
  LINKOPTIM : 
-------------------------------------------------------------------
Building with 'Intel Visual Fortran Composer XE 2013 with Microsoft Visual Studio 2008'.
ifort /c /nologo /fpp /Qprec /fixed /MD /fp:source /assume:bscc -I"C:\Program Files\MATLAB\R2014b\extern\include"  /DMX_COMPAT_32   /DMATLAB_MEX_FILE /O2 /DNDEBUG "C:\Users\Marcelo\..." /FoC:\Users\Marcelo\AppData\Local\Temp\mex_247517124086464_10164\sirff.obj

Answer 2

[Quanshangze DU]

As a complement from the year 2019 ==>

I use MATLAB R2019a on Win10 and the 'mex' function, by the command 'mex -setup', is configured as "MEX configured to use 'Intel Parallel Studio XE 2015 for Fortran with Microsoft Visual Studio 2015' for FORTRAN language compilation."

I met the same problem as presented above because of the 'fixed format' by default. I tried to remove '/fixed' from the file in MATLABroot bin\win64\mexopts. As you may see, there are multiple files of configuration for Fortran, c and cpp, like intel_fortran_xx_vsxxxx.xml, where xx stands for 15/16/17.. and xxxx stand for 2015/17.... These files correspond to, I suppose, the configuration your matlab's mex function takes. I tried to modify the file of my case, namely 'intel_fortran_15_vs2015.xml'. But nothing has changed. Still the problem coming from fixed format. So I modifed all the xml files because of uncertainty.. It turned out meaingless.

So the file to modify is not in the folder '\bin\win64\mexopts', but in '\user\AppData\Roaming\MathWorks\Matlab\R2019a'. Just remove the term '\fixed' in the file 'mex_FORTRAN_win64.xml' and then it will work.

Good luck !

qdu