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"""Classes for describing the source of an entity.
"""
class Source:
"""Base class to describe the source of an :class:`ihm.Entity`.
See :class:`Manipulated`, :class:`Natural` and :class:`Synthetic`.
"""
src_method = None
class Details:
"""Identifying information for an entity source.
See :class:`Manipulated`, :class:`Natural` or :class:`Synthetic`.
:param ncbi_taxonomy_id: NCBI taxonomy identifier, e.g. "469008"
:param scientific_name: Scientific name, e.g. "Escherichia coli"
:param common_name: Common name
:param strain: Strain, e.g. "BL21(DE3)PLYSS"
"""
def __init__(self, ncbi_taxonomy_id=None, scientific_name=None,
common_name=None, strain=None):
self.ncbi_taxonomy_id = ncbi_taxonomy_id
self.scientific_name = scientific_name
self.common_name = common_name
self.strain = strain
class Manipulated(Source):
"""An entity isolated from a genetically manipulated source.
See :class:`ihm.Entity`.
:param gene: Details about the gene source.
:type gene: :class:`Details`
:param host: Details about the host organism.
:type host: :class:`Details`
"""
src_method = 'man'
def __init__(self, gene=None, host=None):
self.gene, self.host = gene, host
class Natural(Source, Details):
"""An entity isolated from a natural source. See :class:`ihm.Entity`.
See :class:`Details` for a description of the parameters."""
src_method = 'nat'
class Synthetic(Source, Details):
"""An entity obtained synthetically. See :class:`ihm.Entity`.
See :class:`Details` for a description of the parameters."""
src_method = 'syn'
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