def eval_diff():
model.load_state_dict(torch.load('weights/lstm'))
model.eval()
with torch.no_grad():
X = np.zeros([T, 1, input_dim], dtype=np.float32)
X[:, 0 ,0] = np.arange(T)
X[:, 0 ,1] = 2 * np.arange(T)
X[:, 0, 2] = np.sin(2 * np.arange(T)/10)
maxi1 = np.max(X[:, :, 0])
maxi2 = np.max(X[:, :, 1])
maxi3 = np.max(X[:, :, 2])
X[:, :, 0] = X[:, :, 0] / maxi1
X[:, :, 1] = X[:, :, 1] / maxi2
X[:, :, 2] = X[:, :, 2] / maxi3
X = torch.from_numpy(X)
pred_pos = model(X[:-1, : ,:])
#print(X[1:, :, :])
#print(pred_pos)
#print(X[1:, : ,:] - pred_pos)
#scale = torch.tensor([maxi1, maxi2, 1]).view(1,1,input_dim)
X = X #* scale
pred_pos = pred_pos #* scale
#print(X)
#print(pred_pos)
#print(X[1:, : ,:] - pred_pos)
data = torch.stack((pred_pos[:, 0, :], X[1:, 0, :]), 1)
visualize(data, T)
def eval_diff2():
model.load_state_dict(torch.load('weights/lstm'))
model.eval()
with torch.no_grad():
X = np.zeros([T, 1, input_dim], dtype=np.float32)
speedup = 3
times = np.arange(T) * speedup
X[:, 0, 0] = times / (T * speedup) * 5 * np.sin(times / 32)
X[:, 0, 1] = np.cos(times / 68)**2 * 5
X[:, 0, 2] = np.sin(times / 20)**2 * times / (T * speedup) * 3
maxi1 = np.max(X[:, :, 0])
maxi2 = np.max(X[:, :, 1])
maxi3 = np.max(X[:, :, 2])
X[:, :, 0] = X[:, :, 0] / maxi1
X[:, :, 1] = X[:, :, 1] / maxi2
X[:, :, 2] = X[:, :, 2] / maxi3
X = torch.from_numpy(X)
pred_pos = model(X[:-1, :, :])
# print(X[1:, :, :])
# print(pred_pos)
# print(X[1:, : ,:] - pred_pos)
# scale = torch.tensor([maxi1, maxi2, 1]).view(1,1,input_dim)
X = X # * scale
pred_pos = pred_pos # * scale
# print(X)
# print(pred_pos)
# print(X[1:, : ,:] - pred_pos)
data = torch.stack((pred_pos[:, 0, :], X[1:, 0, :]), 1)
visualize(data)
def test1():
a, b = loadbondingpair('c', 'd')
a_site, b_site = reaction.getbondablesites(a, b)
print('Bonding sites: ')
print(a_site)
print(b_site)
c = particle.Atom.compose(Atom1=a, Atom2=b, int_site1=a_site, int_site2=b_site)
print(c.rbn.summarystring())
viz.visualize(c)
def eval():
model.load_state_dict(torch.load('weights/lstm'))
model.eval()
for n in range(N):
with torch.no_grad():
tag_scores = model(test_data[:-1, :, :])
#print(tag_scores.shape)
#print(torch.squeeze(tag_scores[:,n,:]))
data = torch.stack((tag_scores[:,n,:], test_data[1:,n,:]),1)
#print(data.shape)
visualize(data, T)
def eval():
model.load_state_dict(torch.load('weights/lstm'))
model.eval()
with torch.no_grad():
tag_scores = model(test_in[:-1, :, :])
for n in range(10):
center = torch.mean(tag_scores[:, n, :], dim=0)
#print(tag_scores.shape)
#print(torch.squeeze(tag_scores[:,n,:]))
data = torch.stack(
(tag_scores[:, n, :] - center, test_out[1:, n, :] - center), 1)
#print(data.shape)
visualize(data)
def sample():
""" test on all test data and random sample 1 hair to visualize """
dataloader = Dataloader(args.data_dir, 0)
test_x, test_y, angles = dataloader.get_test_data()
n_tests = test_y.shape[0]
# random permutation
# order = np.random.permutation(test_y.shape[0])
# test_x, test_y, angles = test_x[order], test_y[order], angles[order]
config = tf.ConfigProto(device_count={'GPU': 1}, allow_soft_placement=True)
with tf.Session(config=config) as sess:
model = create_model(sess)
# start testing
loss, pos_err = 0, 0
best_loss, best_err = 10, 10
idx = 0
for i in range(n_tests):
enc_in, dec_out = np.expand_dims(test_x[i], 0), np.expand_dims(
test_y[i], 0) # input must be [?, 32, 32, 500]
pos, curv, step_loss = model.step(sess, enc_in, dec_out, False)
step_pos_err = evaluate_pos(pos[0], test_y[i, ..., 100:400],
test_y[i, ..., :100])
loss += step_loss
pos_err += step_pos_err
if step_loss < best_loss:
idx = i
best_loss = step_loss
best_err = step_pos_err
best_pos = pos
# re_pos = reconstruction(pos, curv)
# pos_re_err = evaluate_pos(re_pos, test_y[..., 100:400], test_y[..., :100])
# print('position error after reconstruction: %.4e' % pos_re_err)
print('==================================\n'
'total loss avg: %.4f\n'
'position error avg(m): %.4f\n'
'==================================' %
(loss / n_tests, pos_err / n_tests))
print('best')
print('==================================\n'
'total loss avg: %.4f\n'
'position error avg(m): %.4f\n'
'==================================' % (best_loss, best_err))
# choose the last one
visualize(args.data_dir, test_x[idx], test_y[idx, ..., 100:400],
best_pos[0], angles[idx])
def test2():
# Create a bonding pair and bond them.
a, a_site, b, b_site = getbondingpair()
print("Atom a:")
print(a)
print("Atom b:")
print(b)
print('Bonding sites: ')
print(a_site)
print(b_site)
c = particle.Atom.compose(Atom1=a, Atom2=b, int_site1=a_site, int_site2=b_site)
print(a_site)
print(b_site)
print(c.rbn.summarystring())
print(c)
viz.visualize(c)
Cauchy = np.zeros((3, 3), order='F')
enerintern = 0
enerinelas = 0
CompDam_DGD.dgd_mod.dgdevolve(u=U,
f=F,
f_old=F_old,
m=m,
p=p,
sv=sv,
ndir=3,
nshr=3,
dt=0,
density_abq=1,
cauchy=Cauchy,
enerintern=enerintern,
enerinelas=enerinelas,
fatigue_step=False)
# print Cauchy
CompDam_DGD.dgd_mod.log_close()
# Visualize
viz.visualize(lc=svarray[5:8],
alpha=svarray[9],
F=F,
pathToLogFile='pyextmod_run_output.txt',
initMD=1,
initEQk=1)
def visualize_snippet(snip):
visualize(np.expand_dims(snip, axis=1), isNumpy=True)
transition_matrix = np.array([ [biggest_p, bigger_p, big_p, small_p, tiny_p],
[bigger_p, biggest_p, big_p, small_p, tiny_p],
[tiny_p, small_p, biggest_p, bigger_p, big_p],
[small_p, big_p, tiny_p, biggest_p, bigger_p],
[bigger_p, big_p, small_p, tiny_p, biggest_p]])
assert np.array_equal(np.sum(transition_matrix, axis=1), np.ones([np.shape(transition_matrix)[0]]))
snippets = [sitting_behaviour, walking_behaviour, starting_behaviour, flying_behaviour, landing_behaviour]
traj = simulate_trajectory(snippets, transition_matrix, 100)
print(np.shape(traj))
print(traj)
traj = traj / np.max(np.abs(traj), axis=0)
visualize(np.expand_dims(traj,axis=1), isNumpy=True)
# TODO 3: define markov chain to generate new behaviour
# TODO 4: visualize results
# TODO 5: refine markov chain in order to get smooth results, maybe with curves to transit in flying mode
sv = CompDam_DGD.statevar_mod.loadstatevars(len(svarray), svarray, m) # print sv # Other inputs F = np.array([ [0.825492123341086E+00, 0.757572103784855E-03, 0.301104249035103E-03], [-.146788494201401E+00, 0.100523463166065E+01, 0.641873185909126E-03], [-.662872667983369E-03, 0.871848067078203E-04, 0.100738051937547E+01]]) F_old = np.array([ [0.828052171305039E+00, 0.741124652528062E-03, 0.313281227086903E-03], [-.148260374255618E+00, 0.100527363842522E+01, 0.620850904202262E-03], [-.624763825230815E-03, 0.790313763395604E-04, 0.100728719006083E+01]]) U = np.array([ [0.834616447357706E+00, -.799991473742500E-01, -.263339433701766E-03], [-.799991473742500E-01, 0.100204653434751E+01, 0.354440612331553E-03], [-.263339433701766E-03, 0.354440612331553E-03, 0.100738067209290E+01]]) Cauchy = np.zeros((3,3), order='F') CompDam_DGD.dgd_mod.dgdevolve(u=U, f=F, f_old=F_old, m=m, p=p, sv=sv, ndir=3, nshr=3, dt=0, cauchy=Cauchy) # print Cauchy CompDam_DGD.dgd_mod.log_close() # Visualize viz.visualize(lc=svarray[5:8], alpha=svarray[9], F=F, pathToLogFile='pyextmod_run_output.txt', initMD=2, initEQk=1)
