def main(n_passes, n_labeled, n_z, n_hidden, dataset, seed, alpha, n_minibatches, comment):
'''
Learn a variational auto-encoder with generative model p(x,y,z)=p(y)p(z)p(x|y,z)
And where 'x' is always observed and 'y' is _sometimes_ observed (hence semi-supervised).
We're going to use q(y|x) as a classification model.
'''
import time
logdir = 'results/learn_yz_x_ss_'+dataset+'_'+str(n_z)+'-'+str(n_hidden)+'_nlabeled'+str(n_labeled)+'_alpha'+str(alpha)+'_seed'+str(seed)+'_'+comment+'-'+str(int(time.time()))+'/'
if not os.path.exists(logdir): os.makedirs(logdir)
print 'logdir:', logdir
print sys.argv[0], n_labeled, n_z, n_hidden, dataset, seed, comment
np.random.seed(seed)
# Init data
if dataset == 'mnist_2layer':
size = 28
dim_input = (size,size)
# Load model for feature extraction
path = 'models/mnist_z_x_50-500-500_longrun/' #'models/mnist_z_x_50-600-600/'
l1_v = ndict.loadz(path+'v.ndict.tar.gz')
l1_w = ndict.loadz(path+'w.ndict.tar.gz')
n_h = (500,500)
from anglepy.models.VAE_Z_X import VAE_Z_X
l1_model = VAE_Z_X(n_x=28*28, n_hidden_q=n_h, n_z=50, n_hidden_p=n_h, nonlinear_q='softplus', nonlinear_p='softplus', type_px='bernoulli', type_qz='gaussianmarg', type_pz='gaussianmarg', prior_sd=1)
# Load dataset
import anglepy.data.mnist as mnist
# load train and test sets
train_x, train_y, valid_x, valid_y, test_x, test_y = mnist.load_numpy_split(size, binarize_y=True)
# create labeled/unlabeled split in training set
x_l, y_l, x_u, y_u = mnist.create_semisupervised(train_x, train_y, n_labeled)
# Extract features
# 1. Determine which dimensions to keep
def transform(v, _x):
return l1_model.dist_qz['z'](*([_x] + v.values() + [np.ones((1, _x.shape[1]))]))
q_mean, _ = transform(l1_v, x_u[0:1000])
idx_keep = np.std(q_mean, axis=1) > 0.1
# 2. Select dimensions
for key in ['mean_b','mean_w','logvar_b','logvar_w']:
l1_v[key] = l1_v[key][idx_keep,:]
l1_w['w0'] = l1_w['w0'][:,idx_keep]
# 3. Extract features
x_mean_u, x_logvar_u = transform(l1_v, x_u)
x_mean_l, x_logvar_l = transform(l1_v, x_l)
x_unlabeled = {'mean':x_mean_u, 'logvar':x_logvar_u, 'y':y_u}
x_labeled = {'mean':x_mean_l, 'logvar':x_logvar_l, 'y':y_l}
valid_x, _ = transform(l1_v, valid_x)
test_x, _ = transform(l1_v, test_x)
n_x = np.sum(idx_keep)
n_y = 10
type_pz = 'gaussianmarg'
type_px = 'gaussian'
nonlinear = 'softplus'
colorImg = False
if dataset == 'svhn_2layer':
size = 32
dim_input = (size,size)
# Load model for feature extraction
path = 'models/tmp/svhn_z_x_300-500-500/'
l1_v = ndict.loadz(path+'v.ndict.tar.gz')
l1_w = ndict.loadz(path+'w.ndict.tar.gz')
f_enc, f_dec = pp.PCA_fromfile(path+'pca_params.ndict.tar.gz', True)
from anglepy.models.VAE_Z_X import VAE_Z_X
n_x = l1_v['w0'].shape[1] #=600
l1_model = VAE_Z_X(n_x=n_x, n_hidden_q=(600,600), n_z=300, n_hidden_p=(600,600), nonlinear_q='softplus', nonlinear_p='softplus', type_px='gaussian', type_qz='gaussianmarg', type_pz='gaussianmarg', prior_sd=1)
# SVHN dataset
import anglepy.data.svhn as svhn
size = 32
train_x, train_y, valid_x, valid_y, test_x, test_y = svhn.load_numpy_split(False, binarize_y=True, extra=False) #norb.load_resized(size, binarize_y=True)
#train_x = np.hstack((_train_x, extra_x))
#train_y = np.hstack((_train_y, extra_y))[:,:604000]
# create labeled/unlabeled split in training set
import anglepy.data.mnist as mnist
x_l, y_l, x_u, y_u = mnist.create_semisupervised(train_x, train_y, n_labeled)
# Extract features
# 1. Determine which dimensions to keep
def transform(v, _x):
return l1_model.dist_qz['z'](*([f_enc(_x)] + v.values() + [np.ones((1, _x.shape[1]))]))
# 2. We're keeping all latent dimensions
# 3. Extract features
x_mean_u, x_logvar_u = transform(l1_v, x_u)
x_mean_l, x_logvar_l = transform(l1_v, x_l)
x_unlabeled = {'mean':x_mean_u, 'logvar':x_logvar_u, 'y':y_u}
x_labeled = {'mean':x_mean_l, 'logvar':x_logvar_l, 'y':y_l}
valid_x, _ = transform(l1_v, valid_x)
test_x, _ = transform(l1_v, test_x)
n_x = l1_w['w0'].shape[1]
n_y = 10
type_pz = 'gaussianmarg'
type_px = 'gaussian'
nonlinear = 'softplus'
# Init VAE model p(x,y,z)
from anglepy.models.VAE_YZ_X import VAE_YZ_X
uniform_y = True
model = VAE_YZ_X(n_x, n_y, n_hidden, n_z, n_hidden, nonlinear, nonlinear, type_px, type_qz="gaussianmarg", type_pz=type_pz, prior_sd=1, uniform_y=uniform_y)
v, w = model.init_w(1e-3)
# Init q(y|x) model
from anglepy.models.MLP_Categorical import MLP_Categorical
n_units = [n_x]+list(n_hidden)+[n_y]
model_qy = MLP_Categorical(n_units=n_units, prior_sd=1, nonlinearity=nonlinear)
u = model_qy.init_w(1e-3)
# Just test
if False:
u = ndict.loadz('u.ndict.tar.gz')
v = ndict.loadz('v.ndict.tar.gz')
w = ndict.loadz('w.ndict.tar.gz')
pass
# Progress hook
t0 = time.time()
def hook(t, u, v, w, ll):
# Get classification error of validation and test sets
def error(dataset_x, dataset_y):
_, _, _z = model_qy.gen_xz(u, {'x':dataset_x}, {})
return np.sum( np.argmax(_z['py'], axis=0) != np.argmax(dataset_y, axis=0)) / (0.0 + dataset_y.shape[1])
valid_error = error(valid_x, valid_y)
test_error = error(test_x, test_y)
# Log
ndict.savez(u, logdir+'u')
ndict.savez(v, logdir+'v')
ndict.savez(w, logdir+'w')
dt = time.time() - t0
print dt, t, ll, valid_error, test_error
with open(logdir+'hook.txt', 'a') as f:
print >>f, dt, t, ll, valid_error, test_error
return valid_error
# Optimize
result = optim_vae_ss_adam(alpha, model_qy, model, x_labeled, x_unlabeled, n_y, u, v, w, n_minibatches=n_minibatches, n_passes=n_passes, hook=hook)
return result
def main(n_passes, n_labeled, n_z, n_hidden, dataset, seed, alpha,
n_minibatches, comment):
'''
Learn a variational auto-encoder with generative model p(x,y,z)=p(y)p(z)p(x|y,z)
And where 'x' is always observed and 'y' is _sometimes_ observed (hence semi-supervised).
We're going to use q(y|x) as a classification model.
'''
import time
logdir = 'results/learn_yz_x_ss_' + dataset + '_' + str(n_z) + '-' + str(
n_hidden) + '_nlabeled' + str(n_labeled) + '_alpha' + str(
alpha) + '_seed' + str(seed) + '_' + comment + '-' + str(
int(time.time())) + '/'
if not os.path.exists(logdir): os.makedirs(logdir)
print('logdir:', logdir)
print(sys.argv[0], n_labeled, n_z, n_hidden, dataset, seed, comment)
np.random.seed(seed)
# Init data
if dataset == 'mnist_2layer':
size = 28
dim_input = (size, size)
# Load model for feature extraction
path = 'models/mnist_z_x_50-500-500_longrun/' #'models/mnist_z_x_50-600-600/'
l1_v = ndict.loadz(path + 'v.ndict.tar.gz')
l1_w = ndict.loadz(path + 'w.ndict.tar.gz')
n_h = (500, 500)
from anglepy.models.VAE_Z_X import VAE_Z_X
l1_model = VAE_Z_X(n_x=28 * 28,
n_hidden_q=n_h,
n_z=50,
n_hidden_p=n_h,
nonlinear_q='softplus',
nonlinear_p='softplus',
type_px='bernoulli',
type_qz='gaussianmarg',
type_pz='gaussianmarg',
prior_sd=1)
# Load dataset
import anglepy.data.mnist as mnist
# load train and test sets
train_x, train_y, valid_x, valid_y, test_x, test_y = mnist.load_numpy_split(
size, binarize_y=True)
# create labeled/unlabeled split in training set
x_l, y_l, x_u, y_u = mnist.create_semisupervised(
train_x, train_y, n_labeled)
# Extract features
# 1. Determine which dimensions to keep
def transform(v, _x):
return l1_model.dist_qz['z'](*([_x] + list(v.values()) +
[np.ones((1, _x.shape[1]))]))
q_mean, _ = transform(l1_v, x_u[0:1000])
idx_keep = np.std(q_mean, axis=1) > 0.1
# 2. Select dimensions
for key in ['mean_b', 'mean_w', 'logvar_b', 'logvar_w']:
l1_v[key] = l1_v[key][idx_keep, :]
l1_w['w0'] = l1_w['w0'][:, idx_keep]
# 3. Extract features
x_mean_u, x_logvar_u = transform(l1_v, x_u)
x_mean_l, x_logvar_l = transform(l1_v, x_l)
x_unlabeled = {'mean': x_mean_u, 'logvar': x_logvar_u, 'y': y_u}
x_labeled = {'mean': x_mean_l, 'logvar': x_logvar_l, 'y': y_l}
valid_x, _ = transform(l1_v, valid_x)
test_x, _ = transform(l1_v, test_x)
n_x = np.sum(idx_keep)
n_y = 10
type_pz = 'gaussianmarg'
type_px = 'gaussian'
nonlinear = 'softplus'
colorImg = False
if dataset == 'svhn_2layer':
size = 32
dim_input = (size, size)
# Load model for feature extraction
path = 'models/tmp/svhn_z_x_300-500-500/'
l1_v = ndict.loadz(path + 'v.ndict.tar.gz')
l1_w = ndict.loadz(path + 'w.ndict.tar.gz')
f_enc, f_dec = pp.PCA_fromfile(path + 'pca_params.ndict.tar.gz', True)
from anglepy.models.VAE_Z_X import VAE_Z_X
n_x = l1_v['w0'].shape[1] #=600
l1_model = VAE_Z_X(n_x=n_x,
n_hidden_q=(600, 600),
n_z=300,
n_hidden_p=(600, 600),
nonlinear_q='softplus',
nonlinear_p='softplus',
type_px='gaussian',
type_qz='gaussianmarg',
type_pz='gaussianmarg',
prior_sd=1)
# SVHN dataset
import anglepy.data.svhn as svhn
size = 32
train_x, train_y, valid_x, valid_y, test_x, test_y = svhn.load_numpy_split(
False, binarize_y=True,
extra=False) #norb.load_resized(size, binarize_y=True)
#train_x = np.hstack((_train_x, extra_x))
#train_y = np.hstack((_train_y, extra_y))[:,:604000]
# create labeled/unlabeled split in training set
import anglepy.data.mnist as mnist
x_l, y_l, x_u, y_u = mnist.create_semisupervised(
train_x, train_y, n_labeled)
# Extract features
# 1. Determine which dimensions to keep
def transform(v, _x):
return l1_model.dist_qz['z'](*([f_enc(_x)] + list(v.values()) +
[np.ones((1, _x.shape[1]))]))
# 2. We're keeping all latent dimensions
# 3. Extract features
x_mean_u, x_logvar_u = transform(l1_v, x_u)
x_mean_l, x_logvar_l = transform(l1_v, x_l)
x_unlabeled = {'mean': x_mean_u, 'logvar': x_logvar_u, 'y': y_u}
x_labeled = {'mean': x_mean_l, 'logvar': x_logvar_l, 'y': y_l}
valid_x, _ = transform(l1_v, valid_x)
test_x, _ = transform(l1_v, test_x)
n_x = l1_w['w0'].shape[1]
n_y = 10
type_pz = 'gaussianmarg'
type_px = 'gaussian'
nonlinear = 'softplus'
# Init VAE model p(x,y,z)
from anglepy.models.VAE_YZ_X import VAE_YZ_X
uniform_y = True
model = VAE_YZ_X(n_x,
n_y,
n_hidden,
n_z,
n_hidden,
nonlinear,
nonlinear,
type_px,
type_qz="gaussianmarg",
type_pz=type_pz,
prior_sd=1,
uniform_y=uniform_y)
v, w = model.init_w(1e-3)
# Init q(y|x) model
from anglepy.models.MLP_Categorical import MLP_Categorical
n_units = [n_x] + list(n_hidden) + [n_y]
model_qy = MLP_Categorical(n_units=n_units,
prior_sd=1,
nonlinearity=nonlinear)
u = model_qy.init_w(1e-3)
# Just test
if False:
u = ndict.loadz('u.ndict.tar.gz')
v = ndict.loadz('v.ndict.tar.gz')
w = ndict.loadz('w.ndict.tar.gz')
pass
# Progress hook
t0 = time.time()
def hook(t, u, v, w, ll):
# Get classification error of validation and test sets
def error(dataset_x, dataset_y):
_, _, _z = model_qy.gen_xz(u, {'x': dataset_x}, {})
return np.sum(
np.argmax(_z['py'], axis=0) != np.argmax(dataset_y, axis=0)
) / (0.0 + dataset_y.shape[1])
valid_error = error(valid_x, valid_y)
test_error = error(test_x, test_y)
# Log
ndict.savez(u, logdir + 'u')
ndict.savez(v, logdir + 'v')
ndict.savez(w, logdir + 'w')
dt = time.time() - t0
print(dt, t, ll, valid_error, test_error)
with open(logdir + 'hook.txt', 'a') as f:
print(dt, t, ll, valid_error, test_error, file=f)
return valid_error
# Optimize
result = optim_vae_ss_adam(alpha,
model_qy,
model,
x_labeled,
x_unlabeled,
n_y,
u,
v,
w,
n_minibatches=n_minibatches,
n_passes=n_passes,
hook=hook)
return result