def __init__(self,name):
super().__init__(name=name,type='Expr')
try:
self.log('Loading Expr table')
self.hdf5 = self._hdf5(name)
self._expr = self.hdf5['expr']
except KeyError as e:
self.log('{} is empty: ({})',name,e)
self._expr = pd.DataFrame()
self.log('Building Expr Index')
self._expr_index = defaultdict(lambda: None,{gene:index for index,gene in enumerate(self._expr.index)})
try:
self.log('Loading RefGen')
self.refgen = RefGen(self.refgen)
except TypeError as e:
self.log.warn('RefGen for {} not set!',self.name)
except NameError as e:
self.log.warn('Refgen for {} not available, must be reset!',self.name)
def _parent_refgen(self):
return RefGen(self._global['parent_refgen'])
def __init__(self,name):
super().__init__(name,type='Ontology')
if self.refgen:
self.refgen = RefGen(self.refgen)