Mercurial > repos > bimib > cobraxy

comparison COBRAxy/custom_data_generator_beta.py @ 419:ed2c1f9e20ba draft

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Uploaded
author francesco_lapi
date Tue, 09 Sep 2025 09:08:17 +0000
parents 919b5b71a61c
children 00a78da611ba
comparison
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418:919b5b71a61c 419:ed2c1f9e20ba
172 if value is not None: 172 if value is not None:
173 model.reactions.get_by_id(reaction).lower_bound = -float(value) 173 model.reactions.get_by_id(reaction).lower_bound = -float(value)
174 174
175 if ARGS.name == "ENGRO2" and ARGS.gene_format != "Default": 175 if ARGS.name == "ENGRO2" and ARGS.gene_format != "Default":
176 176
177 model = utils.convert_genes(model, ARGS.gene_format.replace("HGNC_", "HGNC ")) 177 model = modelUtils.convert_genes(model, ARGS.gene_format.replace("HGNC_", "HGNC "))
178 178
179 # generate data 179 # generate data
180 rules = modelUtils.generate_rules(model, asParsed = False) 180 rules = modelUtils.generate_rules(model, asParsed = False)
181 reactions = modelUtils.generate_reactions(model, asParsed = False) 181 reactions = modelUtils.generate_reactions(model, asParsed = False)
182 bounds = modelUtils.generate_bounds(model) 182 bounds = modelUtils.generate_bounds(model)