fastFVA error- Cplex version can't be determined

[nb1]

Hi,

I am using Cobra on MATLAB 2017b & Windows 10 64 bit machine. 

I ran this command

[a,b] = fastFVA(model)

I got the following error:

>> [a,b] = fastFVA(model)

 > The exact version of CPLEX could not be determined

Error using fastFVA>checkFastFVAbin (line 723)

Official binaries are only available for CPLEX version Git-2. You have installed version . Please run: >>

generateMexFastFVA() in order to generate a new binary file.

Error in fastFVA (line 130)

checkFastFVAbin(cplexVersion);

Attaching the system configuration report herewith. What might be the reason? I have added the path of Cplex in environment variables as well as Matlab. Still it shows error. 

What might be the reason? thanks.

[Thomas Pfau]

Hello,

Have you tried to follow the suggestion reported by the error message?
i.e. have you run generateMexFastFVA() ?

Best
Thomas

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[Laurent Heirendt]

Hi,

From your system configuration report, it can be seen that you do not have CPLEX installed. May you follow the installation instructions here: https://opencobra.github.io/cobratoolbox/stable/installation.html#ibm-ilog-cplex ?

Best,

Laurent

[Nikhil Bellarykar]

Dear Laurent,

I have installed cplex... Downloaded the exe, appended it in path variable..Still no success. What might be the reason?

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[Laurent Heirendt]

Hi,

Did you install CPLEX by running the .exe file? It is not enough to only add the .exe file to the MATLAB path (actually, this is not even necessary).

May you let me know what the CPLEX installation directory is?

Best,

Laurent

[Nikhil Bellarykar]

Dear Laurent, the installation directory of CPLEX is as follows.

C:\Program Files\IBM\ILOG\CPLEX_Studio_Community128\cplex\matlab\x64_win64

Pl let me know if any further info is required too. 

Thanks,

Nikhil.

Yours Sincerely,

Nikhil Bellarykar.

[Thomas Pfau]

Hi Nikhil,

One issue is that you are using the community edition of cplex, which has slightly different installation folders to the full version and is thus not automatically detected by the toolbox.

Could you create an environment variable 'ILOG_CPLEX_PATH' which points to your CPLEX installation?
The simplest way to do this is to define it only for matlab in a startup.m file.
To do so, navigate to a folder that is on your matlabpath, create a startup.m script file with the following content:

setenv('ILOG_CPLEX_PATH','C:\Program Files\IBM\ILOG\CPLEX_Studio_Community128\cplex\matlab\x64_win64')

--------------
restart matlab (the startup should be executed) and run initCobraToolbox again before trying fastFVA.

However, as you have the Community version installed, be aware, that you will be unable to run FVA on any model with more than 1000 reactions or metabolites.

Best,

Thomas

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[Nikhil Bellarykar]

Will do so, thanks Thomas. But is there any way to run FVA for a model with more than 1000 reactions then?

Yours Sincerely,

Nikhil Bellarykar.

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[Thomas Pfau]

Hello Nikhil,

Well the simplest option is probably just using the fluxVariability function instead of fastFVA. fastFVA is nothing different except that it is designed particularily for CPLEX and comes with precompiled binaries using warm starts which speeds up the process.

Best

Thomas

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[Ines Thiele]

You can get the free academic license from IBM for Ilog Clepx. Then you use fastFVA which is much faster.

Ines

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[Nikhil Bellarykar]

Thanks Thomas and Ines for the clarification, much appreciated.

Yours Sincerely,

Nikhil Bellarykar.

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[Ronan M.T. Fleming]

https://github.com/opencobra/COBRA.tutorials/tree/master/analysis/FVA

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