comparison COBRAxy/custom_data_generator.py @ 396:dab29c3a5281 draft

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395:64563ca68ace

        for reaction, value in medium.items():
            if value is not None:
                model.reactions.get_by_id(reaction).lower_bound = -float(value)

    if ARGS.name == "ENGRO2" and ARGS.gene_format != "Default":
        model = utils.convert_genes(model, ARGS.gene_format)

    # generate data
    rules = generate_rules(model, asParsed = False)
    reactions = generate_reactions(model, asParsed = False)
    bounds = generate_bounds(model)

396:dab29c3a5281

        for reaction, value in medium.items():
            if value is not None:
                model.reactions.get_by_id(reaction).lower_bound = -float(value)

    if ARGS.name == "ENGRO2" and ARGS.gene_format != "Default":

        model = utils.convert_genes(model, ARGS.gene_format.replace(" ", "_"))

    # generate data
    rules = generate_rules(model, asParsed = False)
    reactions = generate_reactions(model, asParsed = False)
    bounds = generate_bounds(model)