Undefined variable in solveCobraQP

[jacobmartin2022]

Using gurobi as the QP (and LP) solvers, I get an error on line 766:

resultgurobi = gurobi(gurobiQP,param);

since the variable param is not defined in the case where gurobi is the solver.

[tpfau]

Looking at the code, this variable is defined. What version of the toolbox are you using and what is the exact error message?

[jacobmartin2022]

I believe I have the most current version -

$ git log -n 1

commit 800dcfe40dcd298fce347bb9dc72a74f4bff09a3 (HEAD -> master, origin/master, origin/HEAD) Merge: 6c49aaf f7ab727 Author: Ronan M.T. Fleming ronan.mt.fleming@gmail.com Date: Wed Nov 25 21:32:26 2020 +0000 Merge pull request #1687 from opencobra/develop Develop

And the error message is just

Unrecognized function or variable 'param'.

At line 766 of solveCobraQP.m - it looks like 'param' is only defined in the case of 'mosek' for solver, and I'm using gurobi.

Let me know if you need more information.

Thanks for the help, Jake

On Sat, Dec 5, 2020 at 1:39 PM Thomas Pfau notifications@github.com wrote:

Looking at the code, this variable is defined. What version of the toolbox are you using and what is the exact error message?

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/opencobra/cobratoolbox/issues/1690#issuecomment-739360774, or unsubscribe https://github.com/notifications/unsubscribe-auth/AIRQZPJ6ZSFF3DDTEL4YSYLSTKEAVANCNFSM4UN55ZIQ .

[tpfau]

You are right. Seems like an 's' was omitted here. I created a pull request. Until that PR goes in, just modify the line by changing param to params

[rmtfleming]

Hi Thomas, thanks, PR merged with develop, Regards, Ronan

On Mon, 7 Dec 2020 at 18:05, Thomas Pfau notifications@github.com wrote:

You are right. Seems like an 's' was omitted here. I created a pull request. Until that PR goes in, just modify the line by changing param to params

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Mr. Ronan MT Fleming B.V.M.S. Dip. Math. Ph.D.

Assistant Professor, Division of Systems Biomedicine and Pharmacology, Leiden Academic Centre for Drug Research, Faculty of Science, Leiden University. https://www.universiteitleiden.nl/en/staffmembers/ronan-fleming & H2020 Project Coordinator, Systems Medicine of Mitochondrial Parkinson’s Disease, http://sysmedpd.eu & Adjunct Lecturer, School of Medicine, National University of Ireland, Galway.

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[jacobmartin2022]

Thank you!

Unfortunately, now that that's fixed, I'm having an issue that seems to be unique to using the gurobi solver for QP problems - when I start with changeCobraSolver('pdco','QP'), I don't have any problems.

The example I'm using is here (taken from Paul Jensen's gapsplit code):

sol = solveCobraQP(model,param.Results.solverParams{:});

which gives

Error using gurobi

Gurobi error 10003: Element 0 of a double array is Nan or Inf. Error in solveCobraQP (line 713) resultgurobi = gurobi(gurobiQP,params);

Again, this seems to work using pdco as the QP, so I'm unsure if this is an issue with gurobi or with the solveCobraQP script.

I've attached the workspace when I call solveCobraQP as a .mat file.

Thanks again, Jake

On Mon, Dec 7, 2020 at 12:05 PM Thomas Pfau notifications@github.com wrote:

You are right. Seems like an 's' was omitted here. I created a pull request. Until that PR goes in, just modify the line by changing param to params

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/opencobra/cobratoolbox/issues/1690#issuecomment-740084801, or unsubscribe https://github.com/notifications/unsubscribe-auth/AIRQZPM34W7NG7REFDU7JY3STUKQHANCNFSM4UN55ZIQ .