def __init__(self, **kwargs):
if not self.DB:
raise TypeError("Cannot make an instance of abstract base "
"class %r." % type(self).__name__)
self.api = api.CachedKeggApi()
self._info = None
# TODO invalidate cache by KEGG release
# self.api.set_default_release(self.info.release)
self._keys = []
def __init__(self, org):
self.org_code = self.organism_name_search(org)
self.api = api.CachedKeggApi()
def _get_kgml(self):
"""
Return an open kgml file for the pathway.
"""
kegg = api.CachedKeggApi()
return io.BytesIO(kegg.get(self.pathway_id + "/kgml"))
def list(cls, organism):
"""
List all pathways for KEGG organism code `organism`.
"""
kegg = api.CachedKeggApi()
return kegg.list_pathways(organism)