error in generateMexFastFVA()

[Leo Wayne]

Hello.

I'm using fastFVA with ibm_cplex 12.10 with matlab r2016b under window 10. But when I run generateMexFastFVA()

-------------------------------------------------------------------------------------------------------------------------------------------------------------------

 > The solver compatibility is not tested with MATLAB R2016b.

Warning: As the ibm_cplex interface is not compatible, the generated MEX file might not be compatible. 

> In generateMexFastFVA (line 34) 

 > The version of CPLEX is 1210.

Error using generateMexFastFVA (line 94)

The CPLEX library C:\Program Files\ibm\ILOG\CPLEX_Studio1210\cplex\lib\x64_windows_vs2013\stat_mda does not exist. Please install the

CPLEX solver as explained here.

-----------------------------------------------------------------------------------------------------------------------------------------------------------------------

this error pop out, so I changed the green line of the code in generateMexFastFVA  since my file is x64_windows_msvc14:

---------------------------------------------------------------------------------------------------------------------------------------------------------------------

% define a special compiler flag to switch for deprecated functions after CPLEX 12.8.0

if cplexVersionNum >= 128

    versionFlag = '-DHIGHER_THAN_128';  % this flag is defined in the .c file

    versionVS = 'vs2015';

else

    versionFlag = '-DLOWER_THAN_128';

%    versionVS = 'vs2013';

    versionVS='msvc14';

end

-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

then run the generateMexFastFVA(). but still an error.

------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

> The solver compatibility is not tested with MATLAB R2016b.

Warning: As the ibm_cplex interface is not compatible, the generated MEX file might not be compatible. 

> In generateMexFastFVA (line 34) 

 > The version of CPLEX is 1210.

MEX configured to use 'MinGW64 Compiler (C)' for C language compilation.

Warning: The MATLAB C and Fortran API has changed to support MATLAB

variables with more than 2^32-1 elements. In the near future

you will be required to update your code to utilize the

new API. You can find more information about this at:

http://www.mathworks.com/help/matlab/matlab_external/upgrading-mex-files-to-use-64-bit-api.html.

Building with 'MinGW64 Compiler (C)'.

Error using mex

gcc: error: \-fexceptions: No such file or directory

Error in generateMexFastFVA (line 149)

    eval(['mex ' cmd]);

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

According to the compatibility table,  I have also tried install the ibm_cplex 12.8, set it at the top of the environment path, and matlab has recognized it when initCobraToolbox. But when I  changeCobraSolver('ibm_cplex','all'), it said that the ibm_cplex is installed  but not working properly.

I also have read the document of fastFVA, and installed ibm_cplex 12.7.1, but it's also not working.

really grateful if someone can help me with that.

[Ronan M.T. Fleming]

Hi Leo,
probably you are the first person to try that combination of OS, cplex
and matlab. I suggest that you install the latest b version of matlab,
the latest version of cplex and try again to debug it.
Regards,
Ronan

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[Leo Wayne]

hi ronan.

thank you for your reply.

I have tried ibm_cplex 12.10 with matlab r2019b, but it's still the same problem.

and when initCobraToolbox, the configuring solver enviornment variable is like this.

[---*] ILOG_CPLEX_PATH: C:\Program Files\ibm\ILOG\CPLEX_Studio1210\cplex\matlab\x64_win64

[---*] GUROBI_PATH: C:\gurobi801\win64\matlab

but with the matlab r2016b, the stars are at the beginning. 

and also, according to https://github.com/opencobra/cobratoolbox/blob/master/docs/source/installation/compatMatrix.rst ，on win 10, the ibm_cplex 12.8 and 12.10 should be compatible with matlab r2016b.

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[Leo Wayne]

hi Ronan，

Also, would you be so nice to give some recommendations on which combination to use？ 

thank you.

I also tried to look into the code of generateMexFastFVA. I believe the problem is at 

CFLAGS = [versionFlag ' -O3 -lstdc++ -xc++ -Wall -Werror -march=native -save-temps -shared-libgcc -v '];

cmd = ['-output cplexFVA' cplexVersion ' -largeArrayDims ' dynamicLinker ' CFLAGS="\$CFLAGS" -I"' include '" "' filename '" ' library];

I tried changing CFFLAGS to COMPFLAGS (https://github.com/cjlin1/libsvm/issues/55), but not working.

I tried deleting the \ in "\$CFLAGS" (https://www.mathworks.com/matlabcentral/answers/279171-using-mingw-compiler-and-open-mp) and ended up in this error

In file included from C:\Program Files\ibm\ILOG\CPLEX_Studio1210\cplex\include\ilcplex/cplex.h:17:0,

                 from D:\softwares\matlabr2017b\cobratoolbox16\external\analysis\fastFVAmex\cplexFVA.c:54:

C:\Program Files\ibm\ILOG\CPLEX_Studio1210\cplex\include\ilcplex/cpxconst.h:185:13: error: size of array 'CPXSIZE_BITS_TEST' is

negative

 typedef int CPXSIZE_BITS_TEST[sizeof(CPXSIZE) == sizeof(size_t) ? 1 : -1];

             ^

D:\softwares\matlabr2017b\cobratoolbox16\external\analysis\fastFVAmex\cplexFVA.c:71:8: error: unknown type name 'CPXFILEptr'

 static CPXFILEptr LogFile = NULL;

        ^

D:\softwares\matlabr2017b\cobratoolbox16\external\analysis\fastFVAmex\cplexFVA.c:71:29: warning: initialization makes integer from

pointer without a cast [-Wint-conversion]

 static CPXFILEptr LogFile = NULL;

                             ^

D:\softwares\matlabr2017b\cobratoolbox16\external\analysis\fastFVAmex\cplexFVA.c: In function 'freelicence':

D:\softwares\matlabr2017b\cobratoolbox16\external\analysis\fastFVAmex\cplexFVA.c:732:12: error: unknown type name 'CPXFILEptr'

     extern CPXFILEptr LogFile;

            ^

D:\softwares\matlabr2017b\cobratoolbox16\external\analysis\fastFVAmex\cplexFVA.c:737:17: warning: comparison between pointer and

integer

     if (LogFile != NULL){

                 ^

D:\softwares\matlabr2017b\cobratoolbox16\external\analysis\fastFVAmex\cplexFVA.c:753:21: warning: assignment makes integer from

pointer without a cast [-Wint-conversion]

             LogFile = NULL;

Since I'm a beginner at Matlab, this is really as far as I can go now.

On Tuesday, May 5, 2020 at 6:16:45 PM UTC+8, Ronan M.T. Fleming wrote:

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[Ronan M.T. Fleming]

Hi Leo,
cplex is compatible with those matlab versions. The issue is with the
cplexFVA.c code that is calling cplex. It seems that it makes
reference to a pointer that cplex no longer use. The cplexFVA.c code
needs to be updated to use cplex 12.9+ or use an older version of
cplex.
Regards,
Ronan

The following type definition, deprecated in CPLEX V12.8.0, has been
removed: CPXFILEptr.
https://www.ibm.com/support/knowledgecenter/SS9UKU_12.9.0/com.ibm.cplex.zos.help/CPLEX/ReleaseNotes/topics/releasenotes1290/removed.html

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[Leo Wayne]

hi ronan.

i have installed ibm_cplex 12.8, but when i changeCobraSolver(), it's ibm_cplex is installed but  not working properly.