本文整理汇总了Python中cobra.Model.__init__方法的典型用法代码示例。如果您正苦于以下问题：Python Model.__init__方法的具体用法？Python Model.__init__怎么用？Python Model.__init__使用的例子？那么恭喜您, 这里精选的方法代码示例或许可以为您提供帮助。您也可以进一步了解该方法所在类cobra.Model的用法示例。
在下文中一共展示了Model.__init__方法的1个代码示例，这些例子默认根据受欢迎程度排序。您可以为喜欢或者感觉有用的代码点赞，您的评价将有助于系统推荐出更棒的Python代码示例。
示例1: __init__
# 需要导入模块: from cobra import Model [as 别名]
# 或者: from cobra.Model import __init__ [as 别名]
def __init__(self, *args):
Model.__init__(self, *args)
self.global_info = {}
self.stoichiometric_data = DictList()
self.complex_data = DictList()
self.modification_data = DictList()
self.translation_data = DictList()
self.transcription_data = DictList()
self.generic_data = DictList()
self.tRNA_data = DictList()
self.translocation_data = DictList()
self.posttranslation_data = DictList()
self.subreaction_data = DictList()
self.process_data = DictList()
# create the biomass/dilution constraint
self._biomass = Constraint("biomass")
self._biomass_dilution = SummaryVariable("biomass_dilution")
self._biomass_dilution.add_metabolites({self._biomass: -1})
self.add_reaction(self._biomass_dilution)
self._biomass_dilution.upper_bound = mu
self._biomass_dilution.lower_bound = mu
# Unmodeled protein is handled by converting protein_biomass to
# biomass, and requiring production of the appropriate amount of dummy
# protein
self._unmodeled_protein_fraction = None
self._protein_biomass = Constraint("protein_biomass")
self._protein_biomass_dilution = SummaryVariable("protein_biomass_dilution")
self._protein_biomass_dilution.add_metabolites({
self._protein_biomass: -1,
self._biomass: 1,
})
self._mRNA_biomass = Constraint("mRNA_biomass")
self._mRNA_biomass_dilution = SummaryVariable("mRNA_biomass_dilution")
self._mRNA_biomass_dilution.add_metabolites({
self._mRNA_biomass: -1,
self._biomass: 1,
})
self._tRNA_biomass = Constraint("tRNA_biomass")
self._tRNA_biomass_dilution = SummaryVariable("tRNA_biomass_dilution")
self._tRNA_biomass_dilution.add_metabolites({
self._tRNA_biomass: -1,
self._biomass: 1,
})
self._rRNA_biomass = Constraint("rRNA_biomass")
self._rRNA_biomass_dilution = SummaryVariable("rRNA_biomass_dilution")
self._rRNA_biomass_dilution.add_metabolites({
self._rRNA_biomass: -1,
self._biomass: 1,
})
self._ncRNA_biomass = Constraint("ncRNA_biomass")
self._ncRNA_biomass_dilution = SummaryVariable("ncRNA_biomass_dilution")
self._ncRNA_biomass_dilution.add_metabolites({
self._ncRNA_biomass: -1,
self._biomass: 1,
})
self.add_reactions((self._protein_biomass_dilution,
self._mRNA_biomass_dilution,
self._tRNA_biomass_dilution,
self._rRNA_biomass_dilution,
self._ncRNA_biomass_dilution))
self._DNA_biomass = Constraint("DNA_biomass")
self._DNA_biomass_dilution = SummaryVariable("DNA_biomass_dilution")
self._DNA_biomass_dilution.add_metabolites({
self._DNA_biomass: -1e-3,
self._biomass: 1e-3,
})
self._DNA_biomass_dilution.lower_bound = mu
self._DNA_biomass_dilution.upper_bound = mu