Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

optgene.run() not working with growth_coupled=True #291

Open
jafemm opened this issue Nov 30, 2021 · 0 comments
Open

optgene.run() not working with growth_coupled=True #291

jafemm opened this issue Nov 30, 2021 · 0 comments

Comments

@jafemm
Copy link

jafemm commented Nov 30, 2021

Hi!

I'm trying to run the following code:

from cameo.strain_design.heuristic.evolutionary_based import OptGene

result4 = optgene.run(target="EX_btd_RR_e", 
                     biomass="BIOMASS_Ecoli_core_w_GAM",
                     substrate="glc__D_e",
                     max_evaluations=20000, population_size=200, max_knockouts=10,
                     plot=False, growth_coupled = True)

But when I run this, it starts loading some points on the graph but then I receive the following error:

image
image
image

When I do it without the growth_coupled option it works fine. I'm not sure what the problem could be.

Im working with the E. coli core model and I added the reacctions and metabolites that let the model produce EX_btd_RR_e.
The lower bound for the E. coli core biomass is set to 0 as well as the lower boud for EX_btd_RR_e.

Thanks in advanced,

Javiera

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant