def _make_one_entity_source(self, compnd, source):
"""Make a single ihm.source.Source object"""
def make_from_source(cls):
return cls(scientific_name=source.get('ORGANISM_SCIENTIFIC'),
common_name=source.get('ORGANISM_COMMON'),
strain=source.get('STRAIN'),
ncbi_taxonomy_id=source.get('ORGANISM_TAXID'))
if compnd.get('ENGINEERED', None) == 'YES':
gene = make_from_source(ihm.source.Details)
host = ihm.source.Details(
scientific_name=source.get('EXPRESSION_SYSTEM'),
common_name=source.get('EXPRESSION_SYSTEM_COMMON'),
strain=source.get('EXPRESSION_SYSTEM_STRAIN'),
ncbi_taxonomy_id=source.get('EXPRESSION_SYSTEM_TAXID'))
return ihm.source.Manipulated(gene=gene, host=host)
else:
if source.get('SYNTHETIC', None) == 'YES':
cls = ihm.source.Synthetic
else:
cls = ihm.source.Natural
return make_from_source(cls)
def make_from_source(cls):
return cls(scientific_name=source.get('ORGANISM_SCIENTIFIC'),
common_name=source.get('ORGANISM_COMMON'),
strain=source.get('STRAIN'),
ncbi_taxonomy_id=source.get('ORGANISM_TAXID'))