search

cdanielmachado / carveme

CarveMe: genome-scale metabolic model reconstruction
Other
149 stars 51 forks source link

Choose Gurobi instead of Cplex #25

Closed pbaCamille closed 6 years ago

pbaCamille commented 6 years ago

Hi, I'm trying to run CarveMe with Gurobi, i cannot find information about it the documentation. I think i have to specify the solver in the config.cfg file, but are there other parameters to specify/change ? Do you have feedback about Gurobi use ? Thanks

cdanielmachado commented 6 years ago

Hi,

Yes, you can change to "gurobi" in the config file. Although it is supported, I would not recommend it. It takes much longer than cplex to solve the MILP problem and we did not use it in our benchmarks so I am not sure about the quality of the models it would produce.

Probably it can be fine-tuned to behave similarly to cplex, but this would require some time to play around with its internal parameters.

Anyway, feel free to give it a try and let me know how it goes.