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biosustain / cameo

cameo - computer aided metabolic engineering & optimization
http://cameo.bio
Apache License 2.0
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"TypeError: plot() missing 1 required positional argument: 'plotter'" #283

Closed BeeAnka closed 3 years ago

BeeAnka commented 3 years ago

Hi,

I was following your tutorial (https://cameo.bio/04-analyze-models.html#). However whenever I want to use the plot() functions as described I get this error message: "TypeError: plot() missing 1 required positional argument: 'plotter'"

For example if I want to run these lines - everything works fine expect the plot():

from cameo import phenotypic_phase_plane model.reactions.EX_o2_e.lower_bound = -10 result = phenotypic_phase_plane(model, variables=[model.reactions.BIOMASS_Ecoli_core_w_GAM], objective=model.reactions.EX_succ_e, points=10) result.plot()

What does "plotter" in this context mean? Any ideas how I could get plot() working? It's the actual reason why I'm using cameo, so it would be great to get it working.

BeeAnka commented 3 years ago

I found the solution online in this jupyter notebook
(https://notebooks.gesis.org/binder/jupyter/user/biosustain-cameo-notebooks-gkanfhes/lab/tree/04-analyze-models.ipynb):

plotter = PlotlyPlotter() result.plot(plotter)

Maybe update the other homepage as this notebook was not easy to find.

carrascomj commented 3 years ago

Hello!

Yes, that's correct.

The API changed and the updated documentation is already commited, it will be uploaded with the next release, sorry about that.