def run(save_loc="ER_100spin/s2v"):
print("\n----- Running {} -----\n".format(os.path.basename(__file__)))
####################################################
# SET UP ENVIRONMENTAL AND VARIABLES
####################################################
gamma = 1
step_fact = 1
env_args = {
'observables': [Observable.SPIN_STATE],
'reward_signal': RewardSignal.DENSE,
'extra_action': ExtraAction.NONE,
'optimisation_target': OptimisationTarget.CUT,
'spin_basis': SpinBasis.BINARY,
'norm_rewards': True,
'memory_length': None,
'horizon_length': None,
'stag_punishment': None,
'basin_reward': None,
'reversible_spins': False
}
####################################################
# SET UP TRAINING AND TEST GRAPHS
####################################################
n_spins_train = 100
train_graph_generator = RandomErdosRenyiGraphGenerator(
n_spins=n_spins_train, p_connection=0.15, edge_type=EdgeType.DISCRETE)
####
# Pre-generated test graphs
####
graph_save_loc = "_graphs/testing/ER_100spin_p15_50graphs.pkl"
graphs_test = load_graph_set(graph_save_loc)
n_tests = len(graphs_test)
test_graph_generator = SetGraphGenerator(graphs_test, ordered=True)
####################################################
# SET UP TRAINING AND TEST ENVIRONMENTS
####################################################
train_envs = [
ising_env.make("SpinSystem", train_graph_generator,
int(n_spins_train * step_fact), **env_args)
]
n_spins_test = train_graph_generator.get().shape[0]
test_envs = [
ising_env.make("SpinSystem", test_graph_generator,
int(n_spins_test * step_fact), **env_args)
]
####################################################
# SET UP FOLDERS FOR SAVING DATA
####################################################
data_folder = os.path.join(save_loc, 'data')
network_folder = os.path.join(save_loc, 'network')
mk_dir(data_folder)
mk_dir(network_folder)
# print(data_folder)
network_save_path = os.path.join(network_folder, 'network.pth')
test_save_path = os.path.join(network_folder, 'test_scores.pkl')
loss_save_path = os.path.join(network_folder, 'losses.pkl')
####################################################
# SET UP AGENT
####################################################
nb_steps = 8000000
network_fn = lambda: MPNN(n_obs_in=train_envs[0].observation_space.shape[1
],
n_layers=3,
n_features=64,
n_hid_readout=[],
tied_weights=False)
agent = DQN(
train_envs,
network_fn,
init_network_params=None,
init_weight_std=0.01,
double_dqn=True,
clip_Q_targets=True,
replay_start_size=1500,
replay_buffer_size=10000, # 20000
gamma=gamma, # 1
update_target_frequency=2500, # 500
update_learning_rate=False,
initial_learning_rate=1e-4,
peak_learning_rate=1e-4,
peak_learning_rate_step=20000,
final_learning_rate=1e-4,
final_learning_rate_step=200000,
update_frequency=32, # 1
minibatch_size=64, # 128
max_grad_norm=None,
weight_decay=0,
update_exploration=True,
initial_exploration_rate=1,
final_exploration_rate=0.05, # 0.05
final_exploration_step=800000, # 40000
adam_epsilon=1e-8,
logging=False,
loss="mse",
save_network_frequency=400000,
network_save_path=network_save_path,
evaluate=True,
test_envs=test_envs,
test_episodes=n_tests,
test_frequency=50000, # 10000
test_save_path=test_save_path,
test_metric=TestMetric.MAX_CUT,
seed=None)
print("\n Created DQN agent with network:\n\n", agent.network)
#############
# TRAIN AGENT
#############
start = time.time()
agent.learn(timesteps=nb_steps, verbose=True)
print(time.time() - start)
agent.save()
############
# PLOT - learning curve
############
data = pickle.load(open(test_save_path, 'rb'))
data = np.array(data)
fig_fname = os.path.join(network_folder, "training_curve")
plt.plot(data[:, 0], data[:, 1])
plt.xlabel("Training run")
plt.ylabel("Mean reward")
if agent.test_metric == TestMetric.ENERGY_ERROR:
plt.ylabel("Energy Error")
elif agent.test_metric == TestMetric.BEST_ENERGY:
plt.ylabel("Best Energy")
elif agent.test_metric == TestMetric.CUMULATIVE_REWARD:
plt.ylabel("Cumulative Reward")
elif agent.test_metric == TestMetric.MAX_CUT:
plt.ylabel("Max Cut")
elif agent.test_metric == TestMetric.FINAL_CUT:
plt.ylabel("Final Cut")
plt.savefig(fig_fname + ".png", bbox_inches='tight')
plt.savefig(fig_fname + ".pdf", bbox_inches='tight')
plt.clf()
############
# PLOT - losses
############
data = pickle.load(open(loss_save_path, 'rb'))
data = np.array(data)
fig_fname = os.path.join(network_folder, "loss")
N = 50
data_x = np.convolve(data[:, 0], np.ones((N, )) / N, mode='valid')
data_y = np.convolve(data[:, 1], np.ones((N, )) / N, mode='valid')
plt.plot(data_x, data_y)
plt.xlabel("Timestep")
plt.ylabel("Loss")
plt.yscale("log")
plt.grid(True)
plt.savefig(fig_fname + ".png", bbox_inches='tight')
plt.savefig(fig_fname + ".pdf", bbox_inches='tight')
def run(save_loc="GBMLGG_100/s2v"):
print("\n----- Running {} -----\n".format(os.path.basename(__file__)))
####################################################
# SET UP ENVIRONMENTAL AND VARIABLES
####################################################
gamma = 1
step_fact = 1
env_args = {
'observables': [Observable.SPIN_STATE],
'reward_signal': RewardSignal.DENSE,
'extra_action': ExtraAction.NONE,
'optimisation_target': OptimisationTarget.PVALUE,
'spin_basis': SpinBasis.BINARY,
'norm_rewards': False,
'memory_length': None,
'horizon_length': None,
'stag_punishment': None,
'basin_reward': None,
'reversible_spins': False
}
####################################################
# SET UP TRAINING AND TEST GRAPHS
####################################################
k = 4
n_spins_train = k
# train_graph_generator = RandomErdosRenyiGraphGenerator(n_spins=n_spins_train,p_connection=0.15,edge_type=EdgeType.DISCRETE)
####
# Pre-generated test graphs
####
# graph_save_loc = "/home2/wsdm/gyy/eco-dqn_v1/_graphs/testing/ER_200spin_p15_50graphs.pkl"
# graphs_test = load_graph_set(graph_save_loc)
# n_tests = len(graphs_test)
n_tests = 2
# test_graph_generator = SetGraphGenerator(graphs_test, ordered=True)
####################################################
# SET UP TRAINING AND TEST ENVIRONMENTS
####################################################
train_list = [('COADREAD', 100, 15), ('GBMLGG', 100, 6), ('STAD', 100, 15)]
test_list = [
'HNSC', 'ACC', 'LGG', 'KIPAN', 'UVM', 'CESC', 'BRCA', 'UCEC', 'OV',
'DLBC', 'STAD', 'UCS', 'PRAD', 'CHOL', 'PAAD', 'TGCT', 'LUAD', 'STES',
'GBMLGG', 'LIHC', 'BLCA', 'KIRC', 'KIRP', 'COAD', 'GBM', 'THCA',
'READ', 'PCPG', 'COADREAD', 'LUSC', 'KICH', 'SARC'
]
# test_list = [('GBMLGG', 400, 5), ('GBMLGG', 500, 5), ('GBMLGG', 600, 5), ('GBMLGG', 700, 5)]
# test_list = ['STAD', 'GBMLGG', 'COADREAD']
# mut_file_path = '/home2/wsdm/gyy/comet_v1/example_datasets/temp/{}_our_pnum={}.m2'
mut_file_path = '/home2/wsdm/gyy/comet_v1/example_datasets/our/{}_our.m2'
test_envs = [
ising_env.make("SpinSystem",
mut_file_path.format(cancer_name),
int(n_spins_train * step_fact),
minFreq=5,
**env_args) for cancer_name in test_list
]
'''
test_envs = [ising_env.make("SpinSystem",
mut_file_path.format(cancer_name, str(pnum)),
int(n_spins_train*step_fact),
minFreq=minfreq,
**env_args) for cancer_name, pnum, minfreq in test_list]
'''
'''
n_spins_test = train_graph_generator.get().shape[0]
test_envs = [ising_env.make("SpinSystem",
mut_file_path,
int(n_spins_test*step_fact),
**env_args)]
'''
####################################################
# SET UP FOLDERS FOR SAVING DATA
####################################################
data_folder = os.path.join(save_loc, 'data')
network_folder = os.path.join(save_loc, 'network')
mk_dir(data_folder)
mk_dir(network_folder)
# print(data_folder)
network_save_path = os.path.join(network_folder, 'network.pth')
test_save_path = os.path.join(network_folder, 'test_scores.pkl')
loss_save_path = os.path.join(network_folder, 'losses.pkl')
####################################################
# SET UP AGENT
####################################################
nb_steps = 10000000
network_fn = lambda: MPNN(n_obs_in_g=test_envs[0].observation_space.shape[
1] + 1,
n_layers=2,
n_features=32,
n_hid_readout=[],
tied_weights=False)
agent = DQN(
test_envs,
network_fn,
init_network_params=None,
init_weight_std=0.5,
double_dqn=False,
clip_Q_targets=True,
replay_start_size=200,
replay_buffer_size=3200, # 20000
gamma=gamma, # 1
update_target_frequency=10, # 500
update_learning_rate=True,
initial_learning_rate=1e-2,
peak_learning_rate=1e-2,
peak_learning_rate_step=2000,
final_learning_rate=1e-3,
final_learning_rate_step=4000,
update_frequency=4, # 1
minibatch_size=64, # 128
max_grad_norm=None,
weight_decay=0,
update_exploration=True,
initial_exploration_rate=1,
final_exploration_rate=0.1, # 0.05
final_exploration_step=10000, # 40000
adam_epsilon=1e-8,
logging=False,
loss="mse",
save_network_frequency=4000,
network_save_path=network_save_path,
evaluate=True,
test_envs=test_envs,
test_episodes=n_tests,
test_frequency=500, # 10000
test_save_path=test_save_path,
test_metric=TestMetric.CUMULATIVE_REWARD,
seed=None)
print("\n Created DQN agent with network:\n\n", agent.network)
#############
# EVAL AGENT
#############
agent.load(
'/home2/wsdm/gyy/eco-dqn_v2/experiments/GBMLGG_100/train/GBMLGG_100/s2v/network/network32000.pth'
)
agent.evaluate_agent()