search

opencobra / cobrapy

COBRApy is a package for constraint-based modeling of metabolic networks.
http://opencobra.github.io/cobrapy/
GNU General Public License v2.0
467 stars 218 forks source link

minimal media question #1313

Closed amarsh26 closed 1 year ago

amarsh26 commented 1 year ago

Hello,

When I manually enter the media from minimal_medium(model, max_growth), I receive a different biomass (0.8571429) then using tool to obtain minimal medium for FBA (0.876997). The max_growth used to obtain the minimal was the default. Is this expected behavior?

In addition, if I slightly increase the value for mobd in the manually entered minimal media from (0.000006 to 0.000007) and change no other values, the biomass increase to 0.8761609907. I was also wondering if this is expected.

The data was obtained using the iML1515 model of E. coli.

Thanks!

cdiener commented 1 year ago

Sorry for the delayed response. By hand do you mean just typing the first x digits? Than this would be expected because this is not the exact value returned and you would be truncating it...