def format_test(self):
from neuronunit.optimisation.optimization_management import switch_logic, active_values, passive_values
# pre format the current injection dictionary based on pre computed
# rheobase values of current injection.
# This is much like the hooked method from the old get neab file.
self.protocols = {}
if not hasattr(self,'tests'):
self.tests = copy.copy(self.tests)
if hasattr(self.tests,'keys'):# is type(dict):
tests = [key for key in self.tests.values()]
self.tests = switch_logic(tests)#,self.tests.use_rheobase_score)
else:
self.tests = switch_logic(self.tests)
for v in self.tests:
k = v.name
self.protocols[k] = {}
if hasattr(v,'passive'):#['protocol']:
if v.passive == False and v.active == True:
keyed = self.protocols[k]#.params
self.protocols[k] = active_values(keyed,self.rheobase)
elif v.passive == True and v.active == False:
keyed = self.protocols[k]#.params
self.protocols[k] = passive_values(keyed)
if v.name in str('RestingPotentialTest'):
self.protocols[k]['injected_square_current'] = {}
self.protocols[k]['injected_square_current']['amplitude'] = 0.0*qt.pA
keyed = v.params['injected_square_current']
v.params['t_max'] = keyed['delay']+keyed['duration'] + 200.0*pq.ms
return self.tests
def initialise_test(v,rheobase):
v = switch_logic([v])
v = v[0]
k = v.name
if not hasattr(v,'params'):
v.params = {}
if not 'injected_square_current' in v.params.keys():
v.params['injected_square_current'] = {}
if v.passive == False and v.active == True:
keyed = v.params['injected_square_current']
v.params = active_values(keyed,rheobase)
v.params['injected_square_current']['delay'] = DELAY
v.params['injected_square_current']['duration'] = DURATION
if v.passive == True and v.active == False:
v.params['injected_square_current']['amplitude'] = -10*pq.pA
v.params['injected_square_current']['delay'] = PASSIVE_DELAY
v.params['injected_square_current']['duration'] = PASSIVE_DURATION
if v.name in str('RestingPotentialTest'):
v.params['injected_square_current']['delay'] = PASSIVE_DELAY
v.params['injected_square_current']['duration'] = PASSIVE_DURATION
v.params['injected_square_current']['amplitude'] = 0.0*pq.pA
return v