def create_optimizer(args):
'''returns configured bluepyopt.optimisations.DEAPOptimisation'''
if args.ipyparallel or os.getenv('L5PCBENCHMARK_USEIPYP'):
from ipyparallel import Client
rc = Client(profile=os.getenv('IPYTHON_PROFILE'))
logger.debug('Using ipyparallel with %d engines', len(rc))
lview = rc.load_balanced_view()
def mapper(func, it):
start_time = datetime.now()
ret = lview.map_sync(func, it)
logger.debug('Generation took %s', datetime.now() - start_time)
return ret
map_function = mapper
else:
map_function = None
evaluator = l5pc_evaluator.create()
seed = os.getenv('BLUEPYOPT_SEED', args.seed)
opt = bluepyopt.optimisations.DEAPOptimisation(evaluator=evaluator,
map_function=map_function,
seed=seed)
return opt
def create_optimizer(args):
'''returns configured bluepyopt.optimisations.DEAPOptimisation'''
if args.ipyparallel or os.getenv('L5PCBENCHMARK_USEIPYP'):
from ipyparallel import Client
rc = Client(profile=os.getenv('IPYTHON_PROFILE'))
logger.debug('Using ipyparallel with %d engines', len(rc))
lview = rc.load_balanced_view()
def mapper(func, it):
start_time = datetime.now()
ret = lview.map_sync(func, it)
logger.debug('Generation took %s', datetime.now() - start_time)
return ret
map_function = mapper
else:
map_function = None
evaluator = l5pc_evaluator.create()
seed = os.getenv('BLUEPYOPT_SEED', args.seed)
opt = bluepyopt.optimisations.DEAPOptimisation(
evaluator=evaluator,
map_function=map_function,
seed=seed)
return opt
def setup(self):
"""Set up class"""
import l5pc_evaluator # NOQA
self.l5pc_evaluator = l5pc_evaluator.create()
nt.assert_is_instance(self.l5pc_evaluator,
bluepyopt.ephys.evaluators.CellEvaluator)
def setup(self):
"""Set up class"""
import l5pc_evaluator # NOQA
self.l5pc_evaluator = l5pc_evaluator.create()
nt.assert_is_instance(
self.l5pc_evaluator,
bluepyopt.ephys.evaluators.CellEvaluator)
def __init__(self):
self.evaluator = l5pc_evaluator.create()
self.evaluator.fitness_protocols.pop('bAP', None)
self.evaluator.fitness_protocols.pop('Step3', None)
self.evaluator.fitness_protocols.pop('Step2', None)
self.evaluator.NU = None
self.evaluator.NU = True
self.run_params = {}
self.default_params = pickle.load(open('test_params.p', 'rb'))
self.test_params = self.default_params
import argparse
# pylint: disable=R0914
import logging
logging.basicConfig(stream=sys.stdout)
logger = logging.getLogger()
logger.setLevel(logging.DEBUG)
import bluepyopt
# TODO store definition dicts in json
# TODO add functionality to read settings of every object from config format
import l5pc_evaluator
evaluator = l5pc_evaluator.create()
def evaluate(parameter_array):
"""Global evaluate function"""
return evaluator.evaluate(parameter_array)
if os.getenv('L5PCBENCHMARK_USEIPYP') == '1':
from ipyparallel import Client
rc = Client(profile=os.getenv('IPYTHON_PROFILE'))
lview = rc.load_balanced_view()
map_function = lview.map_sync
else:
map_function = None
