def main():
# get config vars
config = cli.init()
population_size_nsgaii = config['POPULATION_SIZE_NSGAII']
number_of_runs_nsgaii = config['NUMBER_OF_RUNS_NSGAII']
number_of_runs_ga = config['NUMBER_OF_RUNS_GA']
population_size_ga = config['POPULATION_SIZE_GA']
config_path = config['TEST_DATA_PATH']
ga_weights = config['GA_WEIGHTS']
budget_constraint = config['BUDGET_CONSTRAINT']
# parse and get specific data
data = test_data.parse(config_path)
requirements = data[0]
clients = data[1]
# run NSGA-II multi-objective algorithm
print(datetime.datetime.now())
print('Running NSGA-II...')
NRP_multi = NRP_MOO(requirements, clients, budget_constraint)
algorithm = NSGAII(NRP_multi.generate_problem(),
population_size=population_size_nsgaii)
algorithm.run(number_of_runs_nsgaii)
NSGAII_solutions = unique(nondominated(algorithm.result))
# run GA single-objective algorithm with different weights
GA_solutions = []
for ga_weight in ga_weights:
print(datetime.datetime.now())
print('Running GA for weights ' + str(ga_weight) + ' and ' +
str(1 - ga_weight) + '...')
NRP_single = NRP_SOO(requirements, clients, budget_constraint,
ga_weight, 1 - ga_weight)
algorithm = GeneticAlgorithm(NRP_single.generate_problem(),
population_size=population_size_ga)
algorithm.run(number_of_runs_ga)
GA_solutions.extend(unique(nondominated(algorithm.result)))
# run random algorithm
print(datetime.datetime.now())
print('Generating random solution...')
NRP_random = NRP_Random(requirements, clients, budget_constraint)
random_solutions = NRP_random.generate_solutions()
print('done!')
# draw graphs
results.draw_graphs([
results.get_graph_data_nsga_ii(NSGAII_solutions),
results.get_graph_data_ga(GA_solutions, requirements, clients,
budget_constraint),
results.get_graph_data_ga(random_solutions, requirements, clients,
budget_constraint)
])
def _plot(optimizer, title, experiment=None, filename=None, show=False):
results = nondominated(optimizer.result)
x = [s.objectives[0] for s in results]
y = [s.objectives[1] for s in results]
if experiment is not None:
comet.log_metric("EnvironmentalBenefit", x,
experiment=experiment) # log the resulting values
comet.log_metric("EconomicBenefit", y, experiment=experiment)
log.debug("X: {}".format(x))
log.debug("Y: {}".format(y))
plt.scatter(x, y)
plt.xlabel("Environmental Flow Benefit")
plt.ylabel("Economic Benefit")
plt.title(title)
if experiment is not None:
experiment.log_figure(title)
if filename:
plt.savefig(fname=filename, dpi=300)
if show:
plt.show()
plt.close()
def to_dataframe(optimizer, dvnames, outcome_names):
'''helper function to turn results of optimization into a pandas DataFrame
Parameters
----------
optimizer : platypus algorithm instance
dvnames : list of str
outcome_names : list of str
Returns
-------
pandas DataFrame
'''
solutions = []
for solution in platypus.unique(platypus.nondominated(optimizer.result)):
vars = transform_variables(solution.problem, # @ReservedAssignment
solution.variables)
decision_vars = dict(zip(dvnames, vars))
decision_out = dict(zip(outcome_names, solution.objectives))
result = decision_vars.copy()
result.update(decision_out)
solutions.append(result)
results = pd.DataFrame(solutions, columns=dvnames+outcome_names)
return results
def calibrate(run_counts):
"""调用优化计算模型进行参数优选
Parameters
----------
run_counts: int 运行次数
Returns
---------
optimal_params: list
非劣解集
"""
algorithm = NSGAII(XajCalibrate(), population_size=500, variator=GAOperator(SBX(0.95, 20.0), PM(2, 25.0)))
algorithm.run(run_counts)
# algorithm.run(run_counts)
# We could also get only the non-dominated solutions，这里只展示非劣解集
nondominated_solutions = nondominated(algorithm.result)
# plot the results using matplotlib
# 如果目标超过三个，可视化方面需要进行降维操作，这里先以两个目标为例进行分析
plt.scatter([s.objectives[0] for s in nondominated_solutions],
[s.objectives[1] for s in nondominated_solutions])
plt.xlim([0, 1])
plt.ylim([0, 1])
plt.xlabel("$mare$")
plt.ylabel("$nse$")
plt.show()
# 返回最优参数
optimal_params = []
for nondominated_solution in nondominated_solutions:
optimal_params.append(nondominated_solution.variables)
return optimal_params
def __call__(self, optimizer):
n_solutions = 0
if platypus is None: raise ModuleNotFoundError("platypus")
for _ in platypus.unique(platypus.nondominated(optimizer.result)):
n_solutions += 1
self.results.append(n_solutions)
super().__call__(optimizer)
def to_dataframe(optimizer, dvnames, outcome_names):
'''helper function to turn results of optimization into a pandas DataFrame
Parameters
----------
optimizer : platypus algorithm instance
dvnames : list of str
outcome_names : list of str
Returns
-------
pandas DataFrame
'''
solutions = []
for solution in platypus.unique(platypus.nondominated(optimizer.result)):
decision_vars = dict(zip(dvnames, solution.variables))
decision_out = dict(zip(outcome_names, solution.objectives))
result = decision_vars.copy()
result.update(decision_out)
solutions.append(result)
results = pd.DataFrame(solutions, columns=dvnames+outcome_names)
return results
def solutions_to_df(solutions: List[platypus.Solution], problem, parts='all', flag_optimal=True) -> pd.DataFrame:
"""Converts a list of platypus solutions to a DataFrame, with one row corresponding to each solution
:param solutions: list of solutions to convert
:param problem: the column names for DataFrame
:param parts: which parts of the solutions should be kept
:param flag_optimal: whether to include a boolean column denoting whether each solution is pareto-optimal
:return: a DataFrame
"""
def to_col_vals(solution_list):
return list(zip(*(solution_to_values(solution, parts) for solution in solution_list)))
solutions = platypus.unique(solutions)
non_dominated = platypus.nondominated(solutions)
columns = problem.names(parts)
values, non_dom_vals = to_col_vals(solutions), to_col_vals(non_dominated)
assert len(columns) == len(values), f'{len(values)} values does not match {len(columns)} columns'
# TODO: Intuit the dataframe column types based on the types of the parameters of the problem
# or use the to_df method of the problem object
solution_df = pd.DataFrame({column: data for column, data in zip(columns, values)}) # , dtype=float
if flag_optimal:
non_dom_df = pd.DataFrame({column: data for column, data in zip(columns, non_dom_vals)}) # , dtype=float
df = pd.merge(solution_df, non_dom_df, how='outer', indicator='pareto-optimal')
df['pareto-optimal'] = df['pareto-optimal'] == 'both'
return df
return solution_df
def autoIterate(model,
river,
reach,
rs,
flow,
stage,
nct,
plot,
outf,
metrics,
correctDatum,
evals=None,
si=False):
"""
Automatically iterate with NSGA-II
"""
keys = metrics # ensure same order
evalf = evaluator(stage, useTests=keys, correctDatum=correctDatum)
evals = int(
input("How many evaluations to run? ")) if evals is None else evals
plotpath = ".".join(outf.split(".")[:-1]) + ".png"
count = 1
print("Running automatic calibration")
def manningEval(vars):
n = vars[0]
metrics = minimized(
nstageSingleRun(model, river, reach, rs, stage, n, keys,
correctDatum))
values = [metrics[key] for key in keys]
constraints = [-n, n - 1]
nonlocal count
print("Completed %d evaluations" % count)
count += 1
return values, constraints
c_type = "<0"
problem = Problem(
1, len(keys),
2) # 1 decision variable, len(keys) objectives, and 2 constraints
problem.types[:] = Real(0.001, 1) # range of decision variable
problem.constraints[:] = c_type
problem.function = manningEval
algorithm = NSGAII(problem, population_size=nct)
algorithm.run(evals)
nondom = nondominated(
algorithm.result
) # nondom: list of Solutions - wanted value is variables[0]
nondomNs = [sol.variables[0] for sol in nondom]
results = runSims(model, nondomNs, river, reach, len(stage), range=[rs])
resultPts = [(nondomNs[ix],
[results[ix][rs][jx] for jx in range(1,
len(stage) + 1)])
for ix in range(len(nondomNs))]
metrics = [(res[0], evalf(res[1]), res[1]) for res in resultPts]
nDisplay(metrics, flow, stage, plotpath, outf, plot, correctDatum, si)
return metrics
def optimize(model,
algorithm="NSGAII",
NFE=10000,
module="platypus",
progress_bar=None,
**kwargs):
module = __import__(module, fromlist=[''])
class_ref = getattr(module, algorithm)
args = kwargs.copy()
args["problem"], levers = _to_problem(model)
instance = class_ref(**args)
if progress_bar is not None:
pbar = progress_bar(total=NFE)
callback = lambda x: pbar.update(x.nfe - pbar.n)
else:
callback = None
instance.run(NFE, callback=callback)
result = DataSet()
print("here")
for solution in unique(nondominated(instance.result)):
if not solution.feasible:
continue
env = OrderedDict()
offset = 0
# decode from Platypus' internal representation (this should be fixed in Platypus instead)
vars = [
solution.problem.types[i].decode(solution.variables[i])
for i in range(solution.problem.nvars)
]
for lever, length in levers:
env[lever.name] = lever.from_variables(vars[offset:(offset +
length)])
offset += length
if any([
r.dir not in [Response.MINIMIZE, Response.MAXIMIZE]
for r in model.responses
]):
# if there are any responses not included in the optimization, we must
# re-evaluate the model to get all responses
print("reeval")
env = evaluate(model, env)
else:
for i, response in enumerate(model.responses):
env[response.name] = solution.objectives[i]
result.append(env)
return result
def write_variables_as_shelf(model_run, output_folder):
log.info("Writing out variables and objectives to shelf")
results = nondominated(model_run.result)
variables = [s.variables for s in results]
objectives = [s.objectives for s in results]
with shelve.open(os.path.join(output_folder, "variables.shelf")) as shelf:
shelf["variables"] = variables
shelf["objectives"] = objectives
shelf["result"] = model_run.result
shelf.sync()
def plot_all_solutions(solution, problem, simplified, segment_name,
output_folder, show_plots):
for i, solution in enumerate(nondominated(solution.result)):
problem.stream_network.set_segment_allocations(solution.variables,
simplified=simplified)
for segment in problem.stream_network.stream_segments.values():
output_segment_name = "{}_sol_{}".format(segment_name, i)
segment.plot_results_with_components(
screen=show_plots,
output_folder=output_folder,
name_prefix=output_segment_name)
def _prune(self):
problem = Problem(len(self.ensemble_), 2)
problem.types[:] = Integer(0, 1)
problem.directions[0] = Problem.MAXIMIZE
problem.directions[1] = Problem.MAXIMIZE
problem.function = functools.partial(MCE._evaluate_imbalance,
y_predicts=self._y_predict,
y_true=self._y_valid)
algorithm = NSGAII(problem)
algorithm.run(10000)
solutions = unique(nondominated(algorithm.result))
objectives = [sol.objectives for sol in solutions]
def extract_variables(variables):
extracted = [v[0] for v in variables]
return extracted
self._ensemble_quality = self.get_group(
extract_variables(solutions[objectives.index(
max(objectives, key=itemgetter(0)))].variables),
self.ensemble_)
self._ensemble_diversity = self.get_group(
extract_variables(solutions[objectives.index(
max(objectives, key=itemgetter(1)))].variables),
self.ensemble_)
self._ensemble_balanced = self.get_group(
extract_variables(solutions[objectives.index(
min(objectives, key=lambda i: abs(i[0] - i[1])))].variables),
self.ensemble_)
pareto_set, fitnesses = self._genetic_optimalisation(
optimalisation_type='quality_single')
self._ensemble_quality_single = self.get_group(
pareto_set[fitnesses.index(max(fitnesses, key=itemgetter(0)))],
self.ensemble_)
# pareto_set, fitnesses = self._genetic_optimalisation(optimalisation_type='diversity_single')
# self._ensemble_diversity_single = self.get_group(pareto_set[fitnesses.index(min(fitnesses, key=itemgetter(0)))],
# self.ensemble_)
pareto_set, fitnesses = self._genetic_optimalisation(
optimalisation_type='precision_single')
self._ensemble_precision_single = self.get_group(
pareto_set[fitnesses.index(max(fitnesses, key=itemgetter(0)))],
self.ensemble_)
pareto_set, fitnesses = self._genetic_optimalisation(
optimalisation_type='recall_single')
self._ensemble_recall_single = self.get_group(
pareto_set[fitnesses.index(max(fitnesses, key=itemgetter(0)))],
self.ensemble_)
def determine(self, runs=10000):
# Open clarification -
# caused PicklingError: Can't pickle <type 'instancemethod'>: attribute lookup
# with ProcessPoolEvaluator() as evaluator:
# algorithm = GeneticAlgorithm(self, evaluator=evaluator)
# algorithm.run(runs)
algorithm = GeneticAlgorithm(self)
logger.debug('trigger GEA optimization run')
algorithm.run(runs)
logger.debug('GEA done')
return unique(nondominated(algorithm.result))
def robust_optimize(model, SOWs, algorithm="NSGAII", NFE=10000, obj_aggregate=None, constr_aggregate=None, **kwargs):
module = __import__("platypus", fromlist=[""])
class_ref = getattr(module, algorithm)
if obj_aggregate is None:
from .robustness import mean
obj_aggregate = mean
if constr_aggregate is None:
constr_aggregate = max
args = kwargs.copy()
args["problem"] = _to_robust_problem(model, SOWs, obj_aggregate, constr_aggregate)
instance = class_ref(**args)
instance.run(NFE)
result = DataSet()
for solution in unique(nondominated(instance.result)):
if not solution.feasible:
continue
env = OrderedDict()
offset = 0
# decode from Platypus' internal representation (this should be fixed in Platypus instead)
vars = [solution.problem.types[i].decode(solution.variables[i]) for i in range(solution.problem.nvars)]
for lever in model.levers:
env[lever.name] = lever.from_variables(vars[offset : (offset + lever.length)])
offset += lever.length
if any([r.type not in [Response.MINIMIZE, Response.MAXIMIZE] for r in model.responses]):
# if there are any responses not included in the optimization, we must
# re-evaluate the model to get all responses
env = evaluate(model, env)
# here we copy over the objectives from the evaluated solution, which has been aggregated over all SOWs
for i, response in enumerate([r for r in model.responses if r.type in [Response.MINIMIZE, Response.MAXIMIZE]]):
env[response.name] = solution.objectives[i]
result.append(env)
return result
def fit(self, X, y):
X, y, = copy.deepcopy(X), copy.deepcopy(y)
self.y = y
y_bin = y
self.X, self.y_bin = X, y
# # start evolving in MOEA
num_variables = (self.X.shape[1] + 1) * self.n_hidden
algorithm = NSGAII(Objectives(num_variables,
2,
self.X,
y_bin,
self.n_hidden,
sparse_degree=self.sparse_degree),
population_size=self.n_pop)
# MOEAD(Objectives(num_variables, 2, self.X, y_bin, self.n_hidden, sparse_degree=self.sparse_degree),
# population_size=self.n_pop, neighborhood_size=int(self.n_pop/10)) # delta=0.5, eta=0.8
algorithm.run(self.max_iter)
self.evo_result = algorithm.result
print('total solution:', algorithm.result.__len__())
nondom_result = nondominated(algorithm.result)
print('nondominated solution:', nondom_result.__len__())
self.nondom_solution = nondom_result
self.W = []
self.B = []
for i in range(nondom_result.__len__()):
s = nondom_result[i]
W = np.asarray(s.variables).reshape(self.X.shape[1] + 1,
self.n_hidden)
X_ = np.append(self.X, np.ones((self.X.shape[0], 1)), axis=1)
H = expit(np.dot(X_, W))
B = np.dot(linalg.pinv(H), y_bin)
self.W.append(W)
self.B.append(B)
real_degree = H.mean(axis=0) # n_hidden dim
avg_activation = real_degree.mean()
print('NO.', i, ' obj:', s.objectives, 'AVG activation:',
avg_activation)
self.W = np.asarray(self.W)
self.B = np.asarray(self.B)
# # best W/B
best_index = self.get_best_index()
self.best_W = self.W[best_index]
self.best_B = self.B[best_index]
return self
def robust_optimize(model, SOWs, algorithm="NSGAII", NFE=10000, obj_aggregate=None, constr_aggregate=None, **kwargs):
module = __import__("platypus", fromlist=[''])
class_ref = getattr(module, algorithm)
if obj_aggregate is None:
from .robustness import mean
obj_aggregate = mean
if constr_aggregate is None:
constr_aggregate = max
args = kwargs.copy()
args["problem"], levers = _to_robust_problem(model, SOWs, obj_aggregate, constr_aggregate)
instance = class_ref(**args)
instance.run(NFE)
result = DataSet()
for solution in unique(nondominated(instance.result)):
if not solution.feasible:
continue
env = OrderedDict()
offset = 0
# decode from Platypus' internal representation (this should be fixed in Platypus instead)
vars = [solution.problem.types[i].decode(solution.variables[i]) for i in range(solution.problem.nvars)]
for lever, length in levers:
env[lever.name] = lever.from_variables(vars[offset:(offset+length)])
offset += length
if any([r.dir not in [Response.MINIMIZE, Response.MAXIMIZE] for r in model.responses]):
# if there are any responses not included in the optimization, we must
# re-evaluate the model to get all responses
env = evaluate(model, env)
# here we copy over the objectives from the evaluated solution, which has been aggregated over all SOWs
for i, response in enumerate([r for r in model.responses if r.dir in [Response.MINIMIZE, Response.MAXIMIZE]]):
env[response.name] = solution.objectives[i]
result.append(env)
return result
def run(self, algorithm: AbstractGeneticAlgorithm,
nruns: int) -> List[NRPSolution]:
algorithm.run(nruns)
print(len(algorithm.result))
# Only unique non-dominated solutions
solutions: List[Solution] = unique(nondominated(algorithm.result))
solutions = [sol for sol in solutions if sol.feasible]
print(len(solutions))
result: List[NRPSolution] = make_solutions(self.nrp_instance,
solutions)
# Sorting for 2 objectives First maximize score and then minimize cost
result = sorted(result, key=lambda x: x.total_score, reverse=True)
if self.is_last_single:
result = sorted(result, key=lambda x: x.total_cost)
# Taking only solution with minimal cost
result = [result[0]]
return result
def fit(self, X, y):
X, y, = copy.deepcopy(X), copy.deepcopy(y)
self.y = y
y_bin = self.one2array(y, np.unique(y).shape[0])
self.classes_ = np.arange(y_bin.shape[1])
self.n_classes_ = self.classes_.__len__()
self.X, self.y_bin = X, y_bin
# # start evolving in MOEA
num_variables = (self.X.shape[1] + 1) * self.n_hidden
algorithm = MOEAD(Objectives(num_variables,
2,
self.X,
y_bin,
self.n_hidden,
sparse_degree=self.sparse_degree),
population_size=self.n_pop,
neighborhood_size=5)
algorithm.run(self.max_iter)
self.evo_result = algorithm.result
print('total solution:', algorithm.result.__len__())
result = nondominated(algorithm.result)
print('nondominated solution:', result.__len__())
self.solution = result
self.W = []
self.B = []
self.voting_weight = []
for s in result:
W = np.asarray(s.variables).reshape(self.X.shape[1] + 1,
self.n_hidden)
X_ = np.append(self.X, np.ones((self.X.shape[0], 1)), axis=1)
H = expit(np.dot(X_, W))
B = np.dot(linalg.pinv(H), y_bin)
voting_w_ = 1. / (s.objectives[0] + 10e-5) * self.mu + 1. / (
s.objectives[1] + 10e-5) * (1 - self.mu)
self.voting_weight.append(voting_w_)
self.W.append(W)
self.B.append(B)
self.voting_weight = np.asarray(self.voting_weight)
self.W = np.asarray(self.W)
self.B = np.asarray(self.B)
return self
ax.set_yticks(y_pos)
ax.set_yticklabels(var_list)
ax.invert_yaxis()
ax.set_xlabel('Relevancy')
if objective_idx == 0:
ax.set_title('Best Variables - Sensitivity')
else:
ax.set_title('Best Variables - Specificity')
plt.show()
if __name__ == "__main__":
algorithm = NSGAII(SVM(), population_size=30)
algorithm.run(100)
nondominated_results = nondominated(algorithm.result)
# prints results
fig1 = plt.figure(figsize=[11, 11])
plt.scatter([s.objectives[0] for s in nondominated_results],
[s.objectives[1] for s in nondominated_results])
plt.xlim([0, 1.1])
plt.ylim([0, 1.1])
plt.xlabel("Sensitivity")
plt.ylabel("Specificity")
plt.show()
calculate_relevancy(nondominated_results, 0, 0.81, 15)
calculate_relevancy(nondominated_results, 1, 0.83, 15)
def run(parent, generation, save_interval, save_dir="GA/result"):
def objective(vars):
# TODO condition edges_indicesの中身は左の方が右よりも小さいということをassertする
gene_nodes_pos, gene_edges_thickness, gene_adj_element = convert_var_to_arg(vars)
return [calculate_efficiency(gene_nodes_pos, gene_edges_thickness, gene_adj_element)]
def make_adj_triu_matrix(adj_element, node_num, condition_edges_indices):
"""隣接情報を示す遺伝子から，edge_indicesを作成する関数
"""
adj_matrix = np.zeros((node_num, node_num))
adj_matrix[np.triu_indices(node_num, 1)] = adj_element
adj_matrix[(condition_edges_indices[:, 0], condition_edges_indices[:, 1])] = 1
edge_indices = np.stack(np.where(adj_matrix), axis=1)
return edge_indices
def make_edge_thick_triu_matrix(gene_edges_thickness, node_num, condition_edges_indices, condition_edges_thickness, edges_indices):
"""edge_thicknessを示す遺伝子から，condition_edge_thicknessを基にedges_thicknessを作成する関数
"""
tri = np.zeros((node_num, node_num))
tri[np.triu_indices(node_num, 1)] = gene_edges_thickness
tri[(condition_edges_indices[:, 0], condition_edges_indices[:, 1])] = condition_edges_thickness
edges_thickness = tri[(edges_indices[:, 0], edges_indices[:, 1])]
return edges_thickness
def convert_var_to_arg(vars):
nodes_pos = np.array(vars[0:gene_node_pos_num])
nodes_pos = nodes_pos.reshape([int(gene_node_pos_num / 2), 2])
edges_thickness = vars[gene_node_pos_num:gene_node_pos_num + gene_edge_thickness_num]
adj_element = vars[gene_node_pos_num + gene_edge_thickness_num: gene_node_pos_num + gene_edge_thickness_num + gene_edge_indices_num]
return nodes_pos, edges_thickness, adj_element
def calculate_efficiency(gene_nodes_pos, gene_edges_thickness, gene_adj_element, np_save_path=False):
condition_nodes_pos, input_nodes, input_vectors, output_nodes, \
output_vectors, frozen_nodes, condition_edges_indices, condition_edges_thickness\
= make_main_node_edge_info(*condition(), condition_edge_thickness=0.2)
# make edge_indices
edges_indices = make_adj_triu_matrix(gene_adj_element, node_num, condition_edges_indices)
# make nodes_pos
nodes_pos = np.concatenate([condition_nodes_pos, gene_nodes_pos])
# 条件ノードが含まれている部分グラフを抽出
G = nx.Graph()
G.add_nodes_from(np.arange(len(nodes_pos)))
G.add_edges_from(edges_indices)
condition_node_list = input_nodes + output_nodes + frozen_nodes
trigger = 0 # 条件ノードが全て接続するグラフが存在するとき，トリガーを発動する
for c in nx.connected_components(G):
sg = G.subgraph(c) # 部分グラフ
if set(condition_node_list) <= set(sg.nodes): # 条件ノードが全て含まれているか
edges_indices = np.array(sg.edges)
trigger = 1
break
if trigger == 0: # ペナルティを発動する
return -10.0
# make edges_thickness
edges_thickness = make_edge_thick_triu_matrix(gene_edges_thickness, node_num, condition_edges_indices, condition_edges_thickness, edges_indices)
env = BarFemGym(nodes_pos, input_nodes, input_vectors,
output_nodes, output_vectors, frozen_nodes,
edges_indices, edges_thickness, frozen_nodes)
env.reset()
efficiency = env.calculate_simulation()
if np_save_path:
env.render(save_path=os.path.join(np_save_path, "image.png"))
np.save(os.path.join(np_save_path, "nodes_pos.npy"), nodes_pos)
np.save(os.path.join(np_save_path, "edges_indices.npy"), edges_indices)
np.save(os.path.join(np_save_path, "edges_thickness.npy"), edges_thickness)
return float(efficiency)
node_num = 85
parent = (node_num * 2 + int(node_num * (node_num - 1) / 2) * 2) # 本来ならこれの10倍
PATH = os.path.join(save_dir, "parent_{}_gen_{}".format(parent, generation))
os.makedirs(PATH, exist_ok=True)
condition_node_num = 10
gene_node_pos_num = (node_num - condition_node_num) * 2
gene_edge_thickness_num = int(node_num * (node_num - 1) / 2)
gene_edge_indices_num = gene_edge_thickness_num
# 2変数2目的の問題
problem = Problem(gene_node_pos_num + gene_edge_thickness_num + gene_edge_indices_num, 1)
# 最小化or最大化を設定
problem.directions[:] = Problem.MAXIMIZE
# 決定変数の範囲を設定
coord_const = Real(0, 1)
edge_const = Real(0.1, 1) # バグが無いように0.1にする
adj_constraint = Integer(0, 1)
problem.types[0:gene_node_pos_num] = coord_const
problem.types[gene_node_pos_num:gene_node_pos_num + gene_edge_thickness_num] = edge_const
problem.types[gene_node_pos_num + gene_edge_thickness_num: gene_node_pos_num + gene_edge_thickness_num + gene_edge_indices_num] = adj_constraint
problem.function = objective
algorithm = NSGAII(problem, population_size=parent,
variator=CompoundOperator(SBX(), HUX(), PM(), BitFlip()))
history = []
for i in tqdm(range(generation)):
algorithm.step()
nondominated_solutions = nondominated(algorithm.result)
efficiency_results = [s.objectives[0] for s in nondominated_solutions]
max_efficiency = max(efficiency_results)
history.append(max_efficiency)
epochs = np.arange(i + 1) + 1
result_efficiency = np.array(history)
fig = plt.figure()
ax = fig.add_subplot(1, 1, 1)
ax.plot(epochs, result_efficiency, label='efficiency')
ax.set_xlim(1, max(epochs))
ax.set_xlabel('epoch')
ax.legend()
ax.set_title("efficiency curve")
plt.savefig(os.path.join(PATH, "history.png"))
plt.close()
if i % save_interval == 0:
save_dir = os.path.join(PATH, str(i))
max_index = efficiency_results.index(max_efficiency)
max_solution = nondominated_solutions[max_index]
vars = []
vars.extend([coord_const.decode(i) for i in max_solution.variables[0:gene_node_pos_num]])
vars.extend([edge_const.decode(i) for i in max_solution.variables[gene_node_pos_num:gene_node_pos_num + gene_edge_thickness_num]])
vars.extend([adj_constraint.decode(i) for i in max_solution.variables[gene_node_pos_num + gene_edge_thickness_num: gene_node_pos_num + gene_edge_thickness_num + gene_edge_indices_num]])
gene_nodes_pos, gene_edges_thickness, gene_adj_element = convert_var_to_arg(vars)
calculate_efficiency(gene_nodes_pos, gene_edges_thickness, gene_adj_element, np_save_path=save_dir)
np.save(os.path.join(save_dir, "history.npy"), history)
def grid_multi_GA(nx=20,
ny=20,
volume_frac=0.5,
parent=400,
generation=100,
path="data"):
PATH = os.path.join(path, "grid_nx_{}_ny_{}".format(nx, ny),
"gen_{}_pa_{}".format(generation, parent))
os.makedirs(PATH, exist_ok=True)
start = time.time()
def objective(vars):
rho = np.array(vars)
rho = rho.reshape(ny, nx - 1)
rho = np.concatenate([rho, np.ones((ny, 1))], 1)
volume = np.sum(rho) / (nx * ny)
return [calc_E(rho), calc_G(rho)], [volume]
# 2変数2目的の問題
problem = Problem(ny * (nx - 1), 2, 1)
# 最小化or最大化を設定
problem.directions[:] = Problem.MAXIMIZE
# 決定変数の範囲を設定
int1 = Integer(0, 1)
problem.types[:] = int1
problem.constraints[:] = "<=" + str(volume_frac)
problem.function = objective
problem.directions[:] = Problem.MAXIMIZE
algorithm = NSGAII(problem, population_size=parent)
algorithm.run(generation)
# グラフを描画
fig = plt.figure()
plt.scatter([s.objectives[0] for s in algorithm.result],
[s.objectives[1] for s in algorithm.result],
c="blue",
label="infeasible solution")
plt.scatter([s.objectives[0] for s in algorithm.result if s.feasible],
[s.objectives[1] for s in algorithm.result if s.feasible],
c="red",
label='feasible solution')
# 非劣解をとりだす
nondominated_solutions = nondominated(algorithm.result)
plt.scatter(
[s.objectives[0] for s in nondominated_solutions if s.feasible],
[s.objectives[1] for s in nondominated_solutions if s.feasible],
c="green",
label="pareto solution")
plt.legend(loc='lower left')
plt.xlabel("$E$")
plt.ylabel("$G$")
fig.savefig(os.path.join(PATH, "graph.png"))
plt.close()
for solution in [s for s in nondominated_solutions if s.feasible]:
image_list = []
for j in solution.variables:
image_list.append(j)
image = np.array(image_list).reshape(ny, nx - 1)
image = np.concatenate([image, np.ones((ny, 1))], 1)
np.save(
os.path.join(
PATH, 'E_{}_G_{}.npy'.format(solution.objectives[0],
solution.objectives[1])), image)
convert_folder_npy_to_image(PATH)
elapsed_time = time.time() - start
with open("time.txt", mode='a') as f:
f.writelines("grid_nx_{}_ny_{}_gen_{}_pa_{}:{}sec\n".format(
nx, ny, generation, parent, elapsed_time))
def NSGAII_Experiment():
NSGAII_results = {}
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(7,2,11)
problem.types[:] = [Real(2.6,3.6),Real(0.7,0.8),Real(17,28),Real(7.3,8.3),Real(7.3,8.3),Real(2.9,3.9),Real(5,5.5)]
problem.constraints[:] = "<=0"
problem.function = SRD
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'SRD'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([7000,1700])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(3,2,3)
problem.types[:] = [Real(1,3),Real(0.0005,0.05),Real(0.0005,0.05)]
problem.constraints[:] = "<=0"
problem.function = TBTD
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'TBTD'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([0.1,50000])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(4,2,5)
problem.types[:] = [Real(0.125,5),Real(0.1,10),Real(0.1,10),Real(0.125,5)]
problem.constraints[:] = "<=0"
problem.function = WB
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'WB'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([350,0.1])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(4,2,5)
problem.types[:] = [Real(55,80),Real(75,110),Real(1000,3000),Real(2,20)]
problem.constraints[:] = "<=0"
problem.function = DBD
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'DBD'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([5,50])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(2,2,5)
problem.types[:] = [Real(20,250),Real(10,50)]
problem.constraints[:] = "<=0"
problem.function = NBP
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'NBP'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([11150, 12500])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(6,3,9)
problem.types[:] = [Real(150,274.32),Real(25,32.31),Real(12,22),Real(8,11.71),Real(14,18),Real(0.63,0.75)]
problem.constraints[:] = "<=0"
problem.function = SPD
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'SPD'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([16,19000,-260000])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(7,3,10)
problem.types[:] = [Real(0.5,1.5),Real(0.45,1.35),Real(0.5,1.5),Real(0.5,1.5),Real(0.875,2.625),Real(0.4,1.2),Real(0.4,1.2)]
problem.constraints[:] = "<=0"
problem.function = CSI
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'CSI'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([42,4.5,13])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(3,5,7)
problem.types[:] = [Real(0.01,0.45),Real(0.01,0.1),Real(0.01,0.1)]
problem.constraints[:] = "<=0"
problem.function = WP
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'WP'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([83000, 1350, 2.85, 15989825, 25000])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(2,2,2)
problem.types[:] = [Real(0,5),Real(0,3)]
problem.constraints[:] = "<=0"
problem.function = BNH
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'BNH'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([140,50])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(2,2,2)
problem.types[:] = [Real(0.1,1),Real(0,5)]
problem.constraints[:] = "<=0"
problem.function = CEXP
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'CEXP'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([1,9])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(6,2,2)
problem.types[:] = [Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1)]
problem.constraints[:] = "<=0"
problem.function = C3DTLZ4
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'C3DTLZ4'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([3,3])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(2,2,2)
problem.types[:] = [Real(-20,20),Real(-20,20)]
problem.constraints[:] = "<=0"
problem.function = SRN
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'SRN'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([301,72])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(2,2,2)
problem.types[:] = [Real(1e-5,np.pi),Real(1e-5,np.pi)]
problem.constraints[:] = "<=0"
problem.function = TNK
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run( 40*problem.nvars)
funcname = 'TNK'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([3,3])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(6,2,6)
problem.types[:] = [Real(0,10),Real(0,10),Real(1,5),Real(0,6),Real(1,5),Real(0,10)]
problem.constraints[:] = "<=0"
problem.function = OSY
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run( 40*problem.nvars)
funcname = 'OSY'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([0,386])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(2,2,2)
problem.types[:] = [Real(0,1),Real(0,1)]
problem.constraints[:] = "<=0"
problem.function = CTP1
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run( 40*problem.nvars)
funcname = 'CTP1'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([1,2])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(10,2,1)
problem.types[:] = [Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1)]
problem.constraints[:] = "<=0"
problem.function = BICOP1
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'BICOP1'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([9,9])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(10,2,2)
problem.types[:] = [Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1),Real(0,1)]
problem.constraints[:] = "<=0"
problem.function = BICOP2
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'BICOP2'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([70,70])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
hypNS2 = [0]
random.seed(0)
for p in [5,8,10,20]:
hyp = []
for i in range(100):
problem = Problem(2,3,3)
problem.types[:] = [Real(-4,4),Real(-4,4)]
problem.constraints[:] = "<=0"
problem.function = TRICOP
algorithm = NSGAII(problem, p*problem.nvars)
algorithm.run(40*problem.nvars)
funcname = 'TRICOP'
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([34,-4,90])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
hyp.append(hypervolume(obj,ref))
if np.mean(hyp) > np.mean(hypNS2):
hypNS2 = hyp
print(funcname, np.mean(hypNS2), '(', np.std(hypNS2), ')')
NSGAII_results[funcname] = hypNS2
return NSGAII_results
def optimize(problem, algorithm, iterations=100, write_forcefields=None):
"""
The optimize function provides a uniform wrapper to solve the EZFF problem using the algorithm(s) provided.
:param problem: EZFF Problem to be optimized
:type problem: Problem
:param algorithm: EZFF Algorithm(s) to use for optimization. Allowed options are ``NSGAII``, ``NSGAIII`` and ``IBEA``, or a list containing any sequence of these options. The algorithms will be used in the sequence provided
:type algorithm: str or list (of strings)
:param iterations: Number of epochs to perform the optimization for. If multiple algorithms are specified, one iteration value should be provided for each algorithm
:type iterations: int or list (of ints)
:param write_forcefields: All non-dominated forcefields are written out every ``write_forcefields`` epochs. If this is ``None``, the forcefields are written out for the first and last epoch
:type write_forcefields: int or None
"""
# Convert algorithm and iterations into lists
if not isinstance(algorithm, list):
algorithm = [algorithm]
if not isinstance(iterations, list):
iterations = [iterations]
if not len(algorithm) == len(iterations):
raise ValueError(
"Please provide a maximum number of epochs for each algorithm")
total_epochs = 0
current_solutions = None
for stage in range(0, len(algorithm)):
# Construct an algorithm
algorithm_for_this_stage = _generate_algorithm(
algorithm[stage]["myproblem"],
algorithm[stage]["algorithm_string"],
algorithm[stage]["population"],
algorithm[stage]["mutation_probability"], current_solutions,
algorithm[stage]["pool"])
if not isinstance(write_forcefields, int):
write_forcefields = np.sum(
[iterations[stage_no] for stage_no in range(stage + 1)])
for i in range(0, iterations[stage]):
total_epochs += 1
print('Epoch: ' + str(total_epochs))
algorithm_for_this_stage.step()
# Make output files/directories
outdir = 'results/' + str(total_epochs)
if not os.path.isdir(outdir):
os.makedirs(outdir)
varfilename = outdir + '/variables'
objfilename = outdir + '/errors'
varfile = open(varfilename, 'w')
objfile = open(objfilename, 'w')
for solution in unique(
nondominated(algorithm_for_this_stage.result)):
varfile.write(' '.join(
[str(variables) for variables in solution.variables]))
varfile.write('\n')
objfile.write(' '.join(
[str(objective) for objective in solution.objectives]))
objfile.write('\n')
varfile.close()
objfile.close()
if total_epochs % write_forcefields == 0:
if not os.path.isdir(outdir + '/forcefields'):
os.makedirs(outdir + '/forcefields')
for sol_index, solution in enumerate(
unique(nondominated(algorithm_for_this_stage.result))):
ff_name = outdir + '/forcefields/FF_' + str(sol_index + 1)
parameters_dict = dict(
zip(problem.variables, solution.variables))
generate_forcefield(problem.template,
parameters_dict,
outfile=ff_name)
current_solutions = algorithm_for_this_stage.population
def bar_multi_GA(nx=20,
ny=20,
volume_frac=0.5,
parent=400,
generation=100,
path="data"):
PATH = os.path.join(path, "bar_nx_{}_ny_{}".format(nx, ny),
"gen_{}_pa_{}".format(generation, parent))
os.makedirs(PATH, exist_ok=True)
start = time.time()
def objective(vars):
y_1, y_2, y_3, x_4, nodes, widths = convert_var_to_arg(vars)
edges = make_6_bar_edges(nx, ny, y_1, y_2, y_3, x_4, nodes, widths)
rho = make_bar_structure(nx, ny, edges)
volume = np.sum(rho) / (nx * ny)
return [calc_E(rho), calc_G(rho)], [volume]
def convert_var_to_arg(vars):
y_1 = vars[0]
y_2 = vars[1]
y_3 = vars[2]
x_4 = vars[3]
node_y_indexes = vars[4:4 + 6 * 3]
node_x_indexes = vars[4 + 6 * 3:4 + 6 * 3 * 2]
nodes = np.stack([node_x_indexes, node_y_indexes], axis=1)
widths = vars[4 + 6 * 3 * 2:]
return y_1, y_2, y_3, x_4, nodes, widths
# 2変数2目的の問題
problem = Problem(4 + 6 * 3 * 2 + 6 * 4, 2, 1)
# 最小化or最大化を設定
problem.directions[:] = Problem.MAXIMIZE
# 決定変数の範囲を設定
x_index_const = Integer(1, nx) # x座標に関する制約
y_index_const = Integer(1, ny) # y座標に関する制約
bar_constraint = Real(0, ny / 2) # バーの幅に関する制約
problem.types[0:3] = y_index_const
problem.types[3] = x_index_const
problem.types[4:4 + 6 * 3] = y_index_const
problem.types[4 + 6 * 3:4 + 6 * 3 * 2] = x_index_const
problem.types[4 + 6 * 3 * 2:] = bar_constraint
problem.constraints[:] = "<=" + str(volume_frac)
problem.function = objective
problem.directions[:] = Problem.MAXIMIZE
algorithm = NSGAII(problem,
population_size=parent,
variator=CompoundOperator(SBX(), HUX(), PM(),
BitFlip()))
algorithm.run(generation)
# グラフを描画
fig = plt.figure()
plt.scatter([s.objectives[0] for s in algorithm.result],
[s.objectives[1] for s in algorithm.result],
c="blue",
label="infeasible solution")
plt.scatter([s.objectives[0] for s in algorithm.result if s.feasible],
[s.objectives[1] for s in algorithm.result if s.feasible],
c="red",
label='feasible solution')
# 非劣解をとりだす
nondominated_solutions = nondominated(algorithm.result)
plt.scatter(
[s.objectives[0] for s in nondominated_solutions if s.feasible],
[s.objectives[1] for s in nondominated_solutions if s.feasible],
c="green",
label="pareto solution")
plt.legend(loc='lower left')
plt.xlabel("$E$")
plt.ylabel("$G$")
fig.savefig(os.path.join(PATH, "graph.png"))
plt.close()
for solution in [s for s in nondominated_solutions if s.feasible]:
vars_list = []
for j in solution.variables[:3]:
vars_list.append(y_index_const.decode(j))
vars_list.append(x_index_const.decode(solution.variables[3]))
for j in solution.variables[4:4 + 6 * 3]:
vars_list.append(y_index_const.decode(j))
for j in solution.variables[4 + 6 * 3:4 + 6 * 3 * 2]:
vars_list.append(x_index_const.decode(j))
for j in solution.variables[4 + 6 * 3 * 2:]:
vars_list.append(bar_constraint.decode(j))
y_1, y_2, y_3, x_4, nodes, widths = convert_var_to_arg(vars_list)
edges = make_6_bar_edges(nx, ny, y_1, y_2, y_3, x_4, nodes, widths)
image = make_bar_structure(nx, ny, edges)
np.save(
os.path.join(
PATH, 'E_{}_G_{}.npy'.format(solution.objectives[0],
solution.objectives[1])), image)
convert_folder_npy_to_image(PATH)
elapsed_time = time.time() - start
with open("time.txt", mode='a') as f:
f.writelines("bar_nx_{}_ny_{}_gen_{}_pa_{}:{}sec\n".format(
nx, ny, generation, parent, elapsed_time))
def optimize(problem, algorithm, iterations=100, write_forcefields=None):
"""
Uniform wrapper function that steps through the optimization process. Also provides uniform handling of output files.
:param problem: EZFF Problem to be optimized
:type problem: Problem
:param algorithm: EZFF Algorithm to use for optimization. Allowed options are ``NSGAII``, ``NSGAIII`` and ``IBEA``
:type algorithm: str
:param iterations: Number of epochs to perform the optimization for
:type iterations: int
:param write_forcefields: All non-dominated forcefields are written out every ``write_forcefields`` epochs. If this is ``None``, the forcefields are written out for the first and last epoch
:type write_forcefields: int or None
"""
# Convert algorithm and iterations into lists
if not isinstance(algorithm, list):
algorithm = [algorithm]
if not isinstance(iterations, list):
iterations = [iterations]
if not len(algorithm) == len(iterations):
raise ValueError(
"Please provide a maximum number of epochs for each algorithm")
total_epochs = 0
current_solutions = None
for stage in range(0, len(algorithm)):
# Construct an algorithm
algorithm_for_this_stage = generate_algorithm(
algorithm[stage]["myproblem"],
algorithm[stage]["algorithm_string"],
algorithm[stage]["population"], current_solutions,
algorithm[stage]["pool"])
if not isinstance(write_forcefields, int):
write_forcefields = iterations[stage]
for i in range(0, iterations[stage]):
total_epochs += 1
print('Epoch: ' + str(total_epochs))
algorithm_for_this_stage.step()
# Make output files/directories
outdir = 'results/' + str(total_epochs)
if not os.path.isdir(outdir):
os.makedirs(outdir)
varfilename = outdir + '/variables'
objfilename = outdir + '/errors'
varfile = open(varfilename, 'w')
objfile = open(objfilename, 'w')
for solution in unique(
nondominated(algorithm_for_this_stage.result)):
varfile.write(' '.join(
[str(variables) for variables in solution.variables]))
varfile.write('\n')
objfile.write(' '.join(
[str(objective) for objective in solution.objectives]))
objfile.write('\n')
varfile.close()
objfile.close()
if total_epochs % (write_forcefields - 1) == 0:
if not os.path.isdir(outdir + '/forcefields'):
os.makedirs(outdir + '/forcefields')
for sol_index, solution in enumerate(
unique(nondominated(algorithm_for_this_stage.result))):
ff_name = outdir + '/forcefields/FF_' + str(sol_index)
parameters_dict = dict(
zip(problem.variables, solution.variables))
write_forcefield_file(ff_name,
problem.template,
parameters_dict,
verbose=False)
current_solutions = algorithm_for_this_stage.population
from platypus import GeneticAlgorithm, Problem, Constraint, Binary, nondominated, unique
# This simple example has an optimal value of 15 when picking items 1 and 4.
items = 7
capacity = 9
weights = [2, 3, 6, 7, 5, 9, 4]
profits = [6, 5, 8, 9, 6, 7, 3]
def knapsack(x):
selection = x[0]
total_weight = sum([weights[i] if selection[i] else 0 for i in range(items)])
total_profit = sum([profits[i] if selection[i] else 0 for i in range(items)])
return total_profit, total_weight
problem = Problem(1, 1, 1)
problem.types[0] = Binary(items)
problem.directions[0] = Problem.MAXIMIZE
problem.constraints[0] = Constraint("<=", capacity)
problem.function = knapsack
algorithm = GeneticAlgorithm(problem)
algorithm.run(10000)
for solution in unique(nondominated(algorithm.result)):
print(solution.variables, solution.objectives)
for g in range(1, 10):
hyp = []
nfes = []
for i in range(10):
problem = Problem(2, 2, 2)
problem.types[:] = [Real(0, 5), Real(0, 3)]
problem.constraints[:] = "<=0"
problem.function = BNH
algorithm = NSGAIII(problem, d * problem.nvars)
algorithm.run(d * g * problem.nvars)
funcname = 'BNH'
# if not os.path.exists(funcname):
# os.makedirs(funcname)
nondominated_solutions = nondominated(algorithm.result)
ref = np.array([140, 50])
obj = []
for s in nondominated_solutions:
lijst = str(s.objectives)
obj.append(ast.literal_eval(lijst))
obj = np.array(obj)
# np.savetxt(str(funcname)+'/'+str(funcname)+'_pf_run_'+str(i)+'.csv', obj, delimiter=',')
hyp.append(hypervolume(obj, ref))
nfes.append(algorithm.nfe)
print(np.mean(hyp))
if np.mean(hyp) > 5005:
print('BNH', np.mean(hyp), '(', np.std(hyp), ')', g, d,
np.mean(nfes))
print('BNH', np.mean(hyp), '(', np.std(hyp), ')')
def ga(variables, outpu): #genetic algorithm function
if gv.vector == 0:
gv.algo = int(input("Enter the no: of iterations\nuser input: "))
print(" \n***** Optimization procedures have started. *****\n")
if gv.constraint == "n":
problem = Problem(variables, outpu)
if gv.constraint == "y":
problem = Problem(variables, outpu, len(
gv.bigconst)) # specify the no of objectives and inputs
for i in range(0, len(gv.bigres)):
problem.types[i:i + 1] = [Real(gv.bigres[i][3], gv.bigres[i][2])
] # loop to intialise the limkits
for i in range(0, len(gv.bigconst)):
for j in range(len(gv.bigconst[i])):
if gv.bigconst[i][j] == 1:
problem.constraints[i:i + 1] = "<=0" #constraint assigning
elif gv.bigconst[i][j] == 2:
problem.constraints[i:i + 1] = ">=0"
problem.function = evaluator # call the simulator
v_population_size = 10
init_pop = [Solution(problem) for i in range(v_population_size)]
pop_indiv = [[x.rand() for x in problem.types]
for i in range(v_population_size)]
for i in range(v_population_size):
init_pop[i].variables = pop_indiv[i]
if gv.algoindex == 1:
algorithm = NSGAII(problem,
population_size=v_population_size,
generator=InjectedPopulation(init_pop))
elif gv.algoindex == 2:
algorithm = NSGAIII(problem,
12,
population_size=v_population_size,
generator=InjectedPopulation(init_pop))
elif gv.algoindex == 3:
algorithm = CMAES(problem,
epsilons=0.05,
population_size=v_population_size,
generator=InjectedPopulation(init_pop))
elif gv.algoindex == 4:
algorithm = GDE3(problem,
population_size=v_population_size,
generator=InjectedPopulation(init_pop))
elif gv.algoindex == 5:
algorithm = IBEA(problem,
population_size=v_population_size,
generator=InjectedPopulation(init_pop))
elif gv.algoindex == 6:
algorithm = MOEAD(problem,
divisions_outer=12,
population_size=v_population_size,
generator=InjectedPopulation(init_pop))
elif gv.algoindex == 7:
algorithm = OMOPSO(problem,
epsilons=0.05,
population_size=v_population_size,
generator=InjectedPopulation(init_pop))
elif gv.algoindex == 8:
algorithm = SMPSO(problem,
population_size=v_population_size,
generator=InjectedPopulation(init_pop))
elif gv.algoindex == 9:
algorithm = SPEA2(problem,
population_size=v_population_size,
generator=InjectedPopulation(init_pop))
elif gv.algoindex == 10:
algorithm = EpsMOEA(problem,
epsilons=0.05,
population_size=v_population_size,
generator=InjectedPopulation(init_pop))
algorithm.run(gv.algo)
feasible_solutions = [s for s in algorithm.result if s.feasible]
nondominanted_solutions = nondominated(algorithm.result)
f = open("feasible.txt", "a")
f.write("\nThis is a set of feasible_solutions values\n")
f.close()
for ki in range(len(feasible_solutions)):
f = open("feasible.txt", "a")
f.write("\n This is solution " + str(ki + 1) + "\n")
f.close()
for i in range(len(feasible_solutions[ki].variables)):
f = open("feasible.txt", "a")
f.write(" The value of element " + str(i + 1) + " is " +
str(feasible_solutions[ki].variables[i]) + "\n")
f.close()
for i in range(len(feasible_solutions[ki].objectives)):
f = open("feasible.txt", "a")
#f.write( "The error of target " +str(i+1) + " is " + str(feasible_solutions[ki].objectives[i]) + "\n")
if gv.bigout[i][3] >= 0:
tru = gv.bigout[i][3] - feasible_solutions[ki].objectives[
i]**0.5
f.write(" The value of target " + str(i + 1) + " is " +
str(tru) + " and the corresponding error value is " +
str(feasible_solutions[ki].objectives[i]) + "\n")
else:
tru = gv.bigout[i][3] + feasible_solutions[ki].objectives[
i]**0.5
f.write(" The value of target " + str(i + 1) + " is " +
str(tru) + " and the corresponding error value is " +
str(feasible_solutions[ki].objectives[i]) + "\n")
f.close()
f = open("nondominanted_solutions.txt", "a")
f.write("\nThis is a set of nondominanted_solutions values\n")
f.close()
for ki in range(len(nondominanted_solutions)):
f = open("nondominanted_solutions.txt", "a")
f.write("\n This is solution " + str(ki + 1) + "\n")
f.close()
for i in range(len(nondominanted_solutions[ki].variables)):
f = open("nondominanted_solutions.txt", "a")
f.write(" The value of element " + str(i + 1) + " is " +
str(nondominanted_solutions[ki].variables[i]) + "\n")
f.close()
for i in range(len(nondominanted_solutions[ki].objectives)):
f = open("nondominanted_solutions.txt", "a")
#f.write(str(i+1) + " th objective error " + " value is " + str(nondominanted_solutions[ki].objectives[i]) + "\n")
if gv.bigout[i][3] >= 0:
tru = gv.bigout[i][3] - nondominanted_solutions[ki].objectives[
i]**0.5
f.write(" The value of target " + str(i + 1) + " is " +
str(tru) + " and the corresponding error value is " +
str(nondominanted_solutions[ki].objectives[i]) + "\n")
else:
tru = gv.bigout[i][3] + nondominanted_solutions[ki].objectives[
i]**0.5
f.write(" The value of target " + str(i + 1) + " is " +
str(tru) + " and the corresponding error value is " +
str(nondominanted_solutions[ki].objectives[i]) + "\n")
f.close()
return
from platypus import GeneticAlgorithm, Problem, Constraint, Binary, nondominated, unique
# This simple example has an optimal value of 15 when picking items 1 and 4.
items = 7
capacity = 9
weights = [2, 3, 6, 7, 5, 9, 4]
profits = [6, 5, 8, 9, 6, 7, 3]
def knapsack(x):
selection = x[0]
total_weight = sum(
[weights[i] if selection[i] else 0 for i in range(items)])
total_profit = sum(
[profits[i] if selection[i] else 0 for i in range(items)])
return total_profit, total_weight
problem = Problem(1, 1, 1)
problem.types[0] = Binary(items)
problem.directions[0] = Problem.MAXIMIZE
problem.constraints[0] = Constraint("<=", capacity)
problem.function = knapsack
algorithm = GeneticAlgorithm(problem)
algorithm.run(10000)
for solution in unique(nondominated(algorithm.result)):
print(solution.variables, solution.objectives)
(4493, 7102), (3600, 6950), (3100, 7250), (4700, 8450), (5400, 8450),
(5610, 10053), (4492, 10052), (3600, 10800), (3100, 10950), (4700, 11650),
(5400, 11650), (6650, 10800), (7300, 10950), (7300, 7250), (6650, 6950),
(7300, 3300), (6650, 2300), (5400, 1600), (8350, 2300), (7850, 3300),
(9450, 5750), (10150, 5750), (10358, 7103), (9243, 7102), (8350, 6950),
(7850, 7250), (9450, 8450), (10150, 8450), (10360, 10053), (9242, 10052),
(8350, 10800), (7850, 10950), (9450, 11650), (10150, 11650), (11400, 10800),
(12050, 10950), (12050, 7250), (11400, 6950), (12050, 3300), (11400, 2300),
(10150, 1600), (13100, 2300), (12600, 3300), (14200, 5750), (14900, 5750),
(15108, 7103), (13993, 7102), (13100, 6950), (12600, 7250), (14200, 8450),
(14900, 8450), (15110, 10053), (13992, 10052), (13100, 10800), (12600, 10950),
(14200, 11650), (14900, 11650), (16150, 10800), (16800, 10950), (16800, 7250),
(16150, 6950), (16800, 3300), (16150, 2300), (14900, 1600), (19800, 800),
(19800, 10000), (19800, 11900), (19800, 12200), (200, 12200), (200, 1100),
(200, 800)]
def dist(x, y):
return round(math.sqrt((x[0] - y[0])**2 + (x[1] - y[1])**2))
def tsp(x):
tour = x[0]
return sum([dist(cities[tour[i]], cities[tour[(i + 1) % len(cities)]]) for i in range(len(tour))])
problem = Problem(1, 1)
problem.types[0] = Permutation(range(len(cities)))
problem.directions[0] = Problem.MINIMIZE
problem.function = tsp
algorithm = GeneticAlgorithm(problem)
algorithm.run(100000, callback = lambda a : print(a.nfe, unique(nondominated(algorithm.result))[0].objectives[0]))
def optimize(model,
scenario,
nfe,
epsilons,
sc_name,
algorithm=EpsNSGAII,
searchover='levers'):
'''optimize the model
Parameters
----------
model : a Model instance
algorith : a valid Platypus optimization algorithm
nfe : int
searchover : {'uncertainties', 'levers'}
Returns
-------
pandas DataFrame
Raises
------
EMAError if searchover is not one of 'uncertainties' or 'levers'
TODO:: constrains are not yet supported
'''
if searchover not in ('levers', 'uncertainties'):
raise EMAError(("searchover should be one of 'levers' or"
"'uncertainties' not {}".format(searchover)))
# extract the levers and the outcomes
decision_variables = [dv for dv in getattr(model, searchover)]
outcomes = [
outcome for outcome in model.outcomes
if outcome.kind != AbstractOutcome.INFO
]
evalfunc = functools.partial(evaluate_function,
model=model,
scenario=scenario,
decision_vars=decision_variables,
searchover=searchover)
# setup the optimization problem
# TODO:: add constraints
problem = Problem(len(decision_variables), len(outcomes))
problem.types[:] = [
Real(dv.lower_bound, dv.upper_bound) for dv in decision_variables
]
problem.function = evalfunc
problem.directions = [outcome.kind for outcome in outcomes]
# solve the optimization problem
optimizer = algorithm(problem, epsilons=epsilons)
optimizer.run(nfe)
# extract the names for levers and the outcomes
lever_names = [dv.name for dv in decision_variables]
outcome_names = [outcome.name for outcome in outcomes]
solutions = []
for solution in unique(nondominated(optimizer.result)):
decision_vars = dict(zip(lever_names, solution.variables))
decision_out = dict(zip(outcome_names, solution.objectives))
result = {**decision_vars, **decision_out}
solutions.append(result)
#print("fe_result: ", optimizer.algorithm.fe_results)
#plot_convergence(optimizer.algorithm.hv_results, sc_name)
results = pd.DataFrame(solutions, columns=lever_names + outcome_names)
#save the hypervolume output in a csv file
hv = np.swapaxes(
np.array(optimizer.algorithm.hv_results), 0, 1
) #hv is a 2d list, where hv[0] is the record of nfe's, hv[1] is the record of hypervolume
df = pd.DataFrame(hv).transpose()
#df.to_csv("Hypervolume_scenario_{}_v6.csv".format(sc_name))
return results, df
def fit(self, X, y):
opt_start_time = time.time()
kfold = None
if isinstance(self.cv, int) and self.cv == 1:
X_train, X_val, y_train, y_val = train_test_split(
X, y, test_size=0.2, random_state=self.random_seed, stratify=y)
logger.info("Not using Cross-Validation. "
"Performing single train/test split")
else:
is_clf = self.model.is_classifier()
kfold = check_cv(self.cv, y=y, classifier=is_clf)
# kfold = StratifiedKFold(
# n_splits=self.cv, random_state=self.random_seed, shuffle=True
# )
logger.info(f"Using Cross-Validation - {kfold}")
self.ind = 0
def train_test_model(parameter):
# First check if we exceeded allocated time budget
current_time = time.time()
elapsed_time = current_time - opt_start_time
if (self.max_opt_time
is not None) and (elapsed_time > self.max_opt_time):
msg = (
f"Max optimization time exceeded. "
f"Max Opt time = {self.max_opt_time}, Elapsed Time = {elapsed_time}, "
f"NFE Completed - {self.ind}")
raise MaxBudgetExceededException(msg)
self.ind = self.ind + 1
logger.info(f"Training population {self.ind}")
parameter = self.param_to_dict(
parameter,
self.model_helper.param_choices,
self.model_helper.param_categories,
self.model_helper.param_type,
)
scorers = [get_scorer(scorer) for scorer in self.scoring]
nscorers = len(scorers)
try:
if kfold is None:
clf = self.model_helper.create_instance(parameter)
clf_trained = clf.fit(X_train, y_train)
obj_val = [
scorer(clf_trained, X_val, y_val) for scorer in scorers
]
else:
obj_scores = [[] for _ in range(nscorers)]
# Perform k-fold cross-validation
for train_index, test_index in kfold.split(X, y):
if isinstance(X, pd.DataFrame):
X_train_split, X_val_split = (
X.iloc[train_index],
X.iloc[test_index],
)
y_train_split, y_val_split = (
y.iloc[train_index],
y.iloc[test_index],
)
else:
X_train_split, X_val_split = X[train_index], X[
test_index]
y_train_split, y_val_split = y[train_index], y[
test_index]
clf = self.model_helper.create_instance(parameter)
clf_trained = clf.fit(X_train_split, y_train_split)
obj_score = [
scorer(clf_trained, X_val_split, y_val_split)
for scorer in scorers
]
for i in range(nscorers):
obj_scores[i].append(obj_score[i])
# Aggregate CV score
obj_val = [np.mean(obj_scores[i]) for i in range(nscorers)]
logger.debug(f"Obj k-fold scores - {obj_scores}")
# By default we are solving a minimization MOO problem
fitnessValue = [
self.best_score[i] - obj_val[i] for i in range(nscorers)
]
logger.info(f"Train fitnessValue - {fitnessValue}")
except jsonschema.ValidationError as e:
logger.error(f"Caught JSON schema validation error.\n{e}")
logger.error("Setting fitness (loss) values to infinity")
fitnessValue = [np.inf for i in range(nscorers)]
logger.info(f"Train fitnessValue - {fitnessValue}")
return fitnessValue
def time_check_callback(alg):
current_time = time.time()
elapsed_time = current_time - opt_start_time
logger.info(
f"NFE Complete - {alg.nfe}, Elapsed Time - {elapsed_time}")
parameter_num = len(self.model_helper.param_choices)
target_num = len(self.scoring)
# Adjust max_evals if not a multiple of population size. This is
# required as Platypus performs evaluations in multiples of
# population_size.
adjusted_max_evals = (self.max_evals //
self.population_size) * self.population_size
if adjusted_max_evals != self.max_evals:
logger.info(
f"Adjusting max_evals to {adjusted_max_evals} from specified {self.max_evals}"
)
problem = Problem(parameter_num, target_num)
problem.types[:] = self.model_helper.types
problem.function = train_test_model
# Set the variator based on types of decision variables
varg = {}
first_type = problem.types[0].__class__
all_type_same = all([isinstance(t, first_type) for t in problem.types])
# use compound operator for mixed types
if not all_type_same:
varg["variator"] = CompoundOperator(SBX(), HUX(), PM(), BitFlip())
algorithm = NSGAII(
problem,
population_size=self.population_size,
**varg,
)
try:
algorithm.run(adjusted_max_evals, callback=time_check_callback)
except MaxBudgetExceededException as e:
logger.warning(
f"Max optimization time budget exceeded. Optimization exited prematurely.\n{e}"
)
solutions = nondominated(algorithm.result)
# solutions = [s for s in algorithm.result if s.feasible]`
# solutions = algorithm.result
moo_solutions = []
for solution in solutions:
vars = []
for pnum in range(parameter_num):
vars.append(problem.types[pnum].decode(
solution.variables[pnum]))
vars_dict = self.param_to_dict(
vars,
self.model_helper.param_choices,
self.model_helper.param_categories,
self.model_helper.param_type,
)
moo_solutions.append(self.Soln(vars_dict, solution.objectives))
logger.info(f"{vars}, {solution.objectives}")
self.moo_solutions = moo_solutions
pareto_models = []
for solution in self.moo_solutions:
est = self.model_helper.create_instance(solution.variables)
est_trained = est.fit(X, y)
pareto_models.append((solution.variables, est_trained))
self.pareto_models = pareto_models
return self
def __call__(self, optimizer):
n_solutions = 0
for _ in platypus.unique(platypus.nondominated(optimizer.result)):
n_solutions += 1
self.results.append(n_solutions)
super().__call__(optimizer)