Mercurial > repos > bimib > cobraxy

comparison COBRAxy/custom_data_generator.py @ 396:dab29c3a5281 draft

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Uploaded
author francesco_lapi
date Fri, 05 Sep 2025 13:28:09 +0000
parents 64563ca68ace
children de4a373e338b
comparison
equal deleted inserted replaced
395:64563ca68ace 396:dab29c3a5281
247 for reaction, value in medium.items(): 247 for reaction, value in medium.items():
248 if value is not None: 248 if value is not None:
249 model.reactions.get_by_id(reaction).lower_bound = -float(value) 249 model.reactions.get_by_id(reaction).lower_bound = -float(value)
250 250
251 if ARGS.name == "ENGRO2" and ARGS.gene_format != "Default": 251 if ARGS.name == "ENGRO2" and ARGS.gene_format != "Default":
252 model = utils.convert_genes(model, ARGS.gene_format) 252
253 model = utils.convert_genes(model, ARGS.gene_format.replace(" ", "_"))
253 254
254 # generate data 255 # generate data
255 rules = generate_rules(model, asParsed = False) 256 rules = generate_rules(model, asParsed = False)
256 reactions = generate_reactions(model, asParsed = False) 257 reactions = generate_reactions(model, asParsed = False)
257 bounds = generate_bounds(model) 258 bounds = generate_bounds(model)