Mercurial > repos > bimib > cobraxy

comparison COBRAxy/ras_to_bounds.py @ 223:c2ce7d75fceb draft

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Uploaded
author luca_milaz
date Sat, 14 Dec 2024 19:11:31 +0000
parents 4c0bb0186d38
children 1e7a8da6c47a
comparison
equal deleted inserted replaced
222:4c0bb0186d38 223:c2ce7d75fceb
157 Returns: 157 Returns:
158 None 158 None
159 """ 159 """
160 bounds = pd.DataFrame([(rxn.lower_bound, rxn.upper_bound) for rxn in model.reactions], index=rxns_ids, columns=["lower_bound", "upper_bound"]) 160 bounds = pd.DataFrame([(rxn.lower_bound, rxn.upper_bound) for rxn in model.reactions], index=rxns_ids, columns=["lower_bound", "upper_bound"])
161 new_bounds = apply_ras_bounds(bounds, ras_row) 161 new_bounds = apply_ras_bounds(bounds, ras_row)
162 if new_bounds.isnull().values.any():
163 warning(f"RAS values for {cellName} contain NaN values. Skipping this cell.")
164 return
165 new_bounds.to_csv(output_folder + cellName + ".csv", sep='\t', index=True) 162 new_bounds.to_csv(output_folder + cellName + ".csv", sep='\t', index=True)
166 pass 163 pass
167 164
168 def generate_bounds(model: cobra.Model, medium: dict, ras=None, output_folder='output/') -> pd.DataFrame: 165 def generate_bounds(model: cobra.Model, medium: dict, ras=None, output_folder='output/') -> pd.DataFrame:
169 """ 166 """