cobra/io/dict.py
def model_to_dict(model, sort=False):
    """Convert model to a dict.

    Parameters
    ----------
    model : cobra.Model
        The model to reformulate as a dict.
    sort : bool, optional
        Whether to sort the metabolites, reactions, and genes or maintain the
        order defined in the model.

    Returns
    -------
    OrderedDict
        A dictionary with elements, 'genes', 'compartments', 'id',
        'metabolites', 'notes' and 'reactions'; where 'metabolites', 'genes'
        and 'metabolites' are in turn lists with dictionaries holding all
        attributes to form the corresponding object.

    See Also
    --------
    cobra.io.model_from_dict
    """
    obj = OrderedDict()
    obj["metabolites"] = list(map(metabolite_to_dict, model.metabolites))
    obj["reactions"] = list(map(reaction_to_dict, model.reactions))
    obj["genes"] = list(map(gene_to_dict, model.genes))
    obj["id"] = model.id
    _update_optional(model, obj, _OPTIONAL_MODEL_ATTRIBUTES,
                     _ORDERED_OPTIONAL_MODEL_KEYS)
    if sort:
        get_id = itemgetter("id")
        obj["metabolites"].sort(key=get_id)
        obj["reactions"].sort(key=get_id)
        obj["genes"].sort(key=get_id)
    return obj
def model_to_dict(model, sort=False):
    """Convert model to a dict.

    Parameters
    ----------
    model : cobra.Model
        The model to reformulate as a dict.
    sort : bool, optional
        Whether to sort the metabolites, reactions, and genes or maintain the
        order defined in the model.

    Returns
    -------
    OrderedDict
        A dictionary with elements, 'genes', 'compartments', 'id',
        'metabolites', 'notes' and 'reactions'; where 'metabolites', 'genes'
        and 'metabolites' are in turn lists with dictionaries holding all
        attributes to form the corresponding object.

    See Also
    --------
    cobra.io.model_from_dict
    """
    obj = OrderedDict()
    obj["metabolites"] = list(map(metabolite_to_dict, model.metabolites))
    obj["reactions"] = list(map(reaction_to_dict, model.reactions))
    obj["genes"] = list(map(gene_to_dict, model.genes))
    obj["id"] = model.id
    _update_optional(model, obj, _OPTIONAL_MODEL_ATTRIBUTES,
                     _ORDERED_OPTIONAL_MODEL_KEYS)
    if sort:
        get_id = itemgetter("id")
        obj["metabolites"].sort(key=get_id)
        obj["reactions"].sort(key=get_id)
        obj["genes"].sort(key=get_id)
    return obj
Convert model to a dict.

    Parameters
    ----------
    model : cobra.Model
        The model to reformulate as a dict.
    sort : bool, optional
        Whether to sort the metabolites, reactions, and genes or maintain the
        order defined in the model.

    Returns
    -------
    OrderedDict
        A dictionary with elements, 'genes', 'compartments', 'id',
        'metabolites', 'notes' and 'reactions'; where 'metabolites', 'genes'
        and 'metabolites' are in turn lists with dictionaries holding all
        attributes to form the corresponding object.

    See Also
    --------
    cobra.io.model_from_dict