Mercurial > repos > bimib > cobraxy

comparison COBRAxy/ras_to_bounds.py @ 108:22cebbdb4b6d draft

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author luca_milaz
date Sun, 13 Oct 2024 14:35:39 +0000
parents 58919e82d96e
children ba10ad78fc5f
comparison
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107:58919e82d96e 108:22cebbdb4b6d
173 pd.DataFrame: DataFrame containing the bounds of reactions in the model. 173 pd.DataFrame: DataFrame containing the bounds of reactions in the model.
174 """ 174 """
175 rxns_ids = [rxn.id for rxn in model.reactions] 175 rxns_ids = [rxn.id for rxn in model.reactions]
176 176
177 # Set medium conditions 177 # Set medium conditions
178 '''
179 reactions_medium=model2.medium.keys()
180 for reaction in reactions_medium:
181 if(reaction != "EX_thbpt_e" and reaction != "EX_lac__L_e"):
182 model2.reactions.get_by_id(reaction).lower_bound=-float(ras_meta.loc[cell,"countmatrix_"+reaction])
183 if(reaction == "EX_lac__L_e"):
184 model2.reactions.get_by_id(reaction).lower_bound=float(0.0)
185 '''
186 for reaction, value in medium.items(): 178 for reaction, value in medium.items():
187 if value is not None: 179 if value is not None:
188 if(reaction != "EX_thbpt_e" and reaction != "EX_lac__L_e"): 180 if(reaction != "EX_thbpt_e" and reaction != "EX_lac__L_e"):
189 model.reactions.get_by_id(reaction).lower_bound = -float(value) 181 model.reactions.get_by_id(reaction).lower_bound = -float(value)
190 if(reaction == "EX_lac__L_e"): 182 if(reaction == "EX_lac__L_e"):