Exporting the stoichiometric matrix

[Tiago Roseiro]

Hello!

I was wondering if anyone knows how to easily export the stoichiometric matrix (model.S) to a txt file? I thought I could use the command 'writeCbModel(model.S, 'txt') ' but it doesn't work... 

Thank you very much,

Tiago 

[Laurent Heirendt]

Hi Tiago,

If you only want to print the stoichiometric matrix S to a text file, try:

printMatrix(full(model.S), '%6.4f\t', 'matrixS.txt')

Please let me know if this helps.

Best,

Laurent

[Tiago Roseiro]

Hi Laurent,

Thank you for your reply! The command does work and I'm able to print the stoichiometric matrix into a text file but I'm not sure it will work as input to the solver I'm using. Do you know what do I have to change in the command you wrote in order to get a similar result as the file I'm sending you attached?

Thank you!,

Tiago 

[Ronan M.T. Fleming]

Hi Tiago,

what solver are you using? e.g. we already export to .mps format.

Regards,

Ronan

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[Tiago Roseiro]

Hi Ronan,

I'm using SCIP (PolySCIP) solver to perform a bi objetive optimization problem.

Best,

Tiago

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[Ronan M.T. Fleming]

Hi Tiago,

SCIP is accessible via the opti interface, e.g, via

https://github.com/opencobra/cobratoolbox/blob/master/src/base/solvers/solveCobraLP.m

Regards,

Ronan

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[Tiago Roseiro]

Hi Ronan,

I wasn't aware of that. I was able to export the matrix as I intended anyway. Nevertheless, thank you for the information!

Best,

Tiago

[Tiago Roseiro]

Hi Laurent,

I was able to export the matrix as I intend using the following command:

dlmwrite('matrixxx.txt',full(model.S),'delimiter',' ','newline', 'pc');

Nevertheless thank you very much for your help!

Best,

Tiago

quinta-feira, 1 de Junho de 2017 às 18:46:35 UTC+1, Laurent Heirendt escreveu:

[Ronan M.T. Fleming]

Hi Tiago,

I'd go via opti, because the code will also read the SCIP results back in when it is done.
Regards,

Ronan

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