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Fix argument error in community model notebook #379

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Jul 10, 2021
Merged

Fix argument error in community model notebook #379

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4 changes: 2 additions & 2 deletions docs/src/notebooks/7_community_model.jl
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Original file line number Diff line number Diff line change
Expand Up @@ -67,7 +67,7 @@ for (env_ex, m2_ex, m1_ex) in zip(env_ex_rxn_idxs, cytbd_ex_rxn_idxs, atps4r_ex_
m2ub = isnothing(m2_ex) ? 0.0 : atps4r_knockout_model.xu[m2_ex]
m1lb = isnothing(m1_ex) ? 0.0 : cytbd_knockout_model.xl[m1_ex]
m1ub = isnothing(m1_ex) ? 0.0 : cytbd_knockout_model.xu[m1_ex]
change_bounds!(community_model, [env_ex]; xl = [m1lb + m2lb], xu = [m1ub + m2ub])
change_bounds!(community_model, [env_ex]; lower = [m1lb + m2lb], upper = [m1ub + m2ub])
end

# ## Add objective function to community model`
Expand Down Expand Up @@ -127,7 +127,7 @@ println("Community μ = ", d["community_biomass"])
# ## Allow the mutants to rescue each other by sharing pyruvate

pyr_exs = model_names .* "_EX_pyr_e"
change_bounds!(community_model, pyr_exs; xl = fill(-1000.0, 3), xu = fill(1000.0, 3))
change_bounds!(community_model, pyr_exs; lower = fill(-1000.0, 3), upper = fill(1000.0, 3))

d = flux_balance_analysis_dict(
community_model,
Expand Down