def __init__(
self,
feature_scale=4, # to reduce dimensionality
in_resolution=256,
output_channels=3,
is_deconv=True,
upper_billinear=False,
lower_billinear=False,
in_channels=3,
is_batchnorm=True,
skip_background=True,
num_joints=17,
nb_dims=3, # ecoding transformation
encoderType='UNet',
num_encoding_layers=5,
dimension_bg=256,
dimension_fg=256,
dimension_3d=3 * 64, # needs to be devidable by 3
latent_dropout=0.3,
shuffle_fg=True,
shuffle_3d=True,
from_latent_hidden_layers=0,
n_hidden_to3Dpose=2,
subbatch_size=4,
implicit_rotation=False,
nb_stage=1, # number of U-net stacks
output_types=[
'3D', 'img_crop', 'shuffled_pose', 'shuffled_appearance'
],
num_cameras=4,
):
super(unet, self).__init__()
self.in_resolution = in_resolution
self.is_deconv = is_deconv
self.in_channels = in_channels
self.is_batchnorm = is_batchnorm
self.feature_scale = feature_scale
self.nb_stage = nb_stage
self.dimension_bg = dimension_bg
self.dimension_fg = dimension_fg
self.dimension_3d = dimension_3d
self.shuffle_fg = shuffle_fg
self.shuffle_3d = shuffle_3d
self.num_encoding_layers = num_encoding_layers
self.output_types = output_types
self.encoderType = encoderType
assert dimension_3d % 3 == 0
self.implicit_rotation = implicit_rotation
self.num_cameras = num_cameras
self.skip_connections = False
self.skip_background = skip_background
self.subbatch_size = subbatch_size
self.latent_dropout = latent_dropout
#filters = [64, 128, 256, 512, 1024]
self.filters = [64, 128, 256, 512, 512, 512] # HACK
self.filters = [int(x / self.feature_scale) for x in self.filters]
self.bottleneck_resolution = in_resolution // (2**(
num_encoding_layers - 1))
num_output_features = self.bottleneck_resolution**2 * self.filters[
num_encoding_layers - 1]
print('bottleneck_resolution', self.bottleneck_resolution,
'num_output_features', num_output_features)
####################################
############ encoder ###############
if self.encoderType == "ResNet":
self.encoder = resnet_VNECT_3Donly.resnet50(
pretrained=True,
input_key='img_crop',
output_keys=['latent_3d', '2D_heat'],
input_width=in_resolution,
num_classes=self.dimension_fg + self.dimension_3d)
ns = 0
setattr(
self, 'conv_1_stage' + str(ns),
unetConv2(self.in_channels,
self.filters[0],
self.is_batchnorm,
padding=1))
setattr(self, 'pool_1_stage' + str(ns), nn.MaxPool2d(kernel_size=2))
for li in range(
2, num_encoding_layers
): # note, first layer(li==1) is already created, last layer(li==num_encoding_layers) is created externally
setattr(
self, 'conv_' + str(li) + '_stage' + str(ns),
unetConv2(self.filters[li - 2],
self.filters[li - 1],
self.is_batchnorm,
padding=1))
setattr(self, 'pool_' + str(li) + '_stage' + str(ns),
nn.MaxPool2d(kernel_size=2))
if from_latent_hidden_layers:
setattr(
self, 'conv_' + str(num_encoding_layers) + '_stage' + str(ns),
nn.Sequential(
unetConv2(self.filters[num_encoding_layers - 2],
self.filters[num_encoding_layers - 1],
self.is_batchnorm,
padding=1), nn.MaxPool2d(kernel_size=2)))
else:
setattr(
self, 'conv_' + str(num_encoding_layers) + '_stage' + str(ns),
unetConv2(self.filters[num_encoding_layers - 2],
self.filters[num_encoding_layers - 1],
self.is_batchnorm,
padding=1))
####################################
############ background ###############
if skip_background:
setattr(
self, 'conv_1_stage_bg' + str(ns),
unetConv2(self.in_channels,
self.filters[0],
self.is_batchnorm,
padding=1))
###########################################################
############ latent transformation and pose ###############
assert self.dimension_fg < self.filters[num_encoding_layers - 1]
num_output_features_3d = self.bottleneck_resolution**2 * (
self.filters[num_encoding_layers - 1] - self.dimension_fg)
#setattr(self, 'fc_1_stage' + str(ns), Linear(num_output_features, 1024))
setattr(self, 'fc_1_stage' + str(ns), Linear(self.dimension_3d, 128))
setattr(self, 'fc_2_stage' + str(ns), Linear(128,
num_joints * nb_dims))
self.to_pose = MLP.MLP_fromLatent(d_in=self.dimension_3d,
d_hidden=2048,
d_out=51,
n_hidden=n_hidden_to3Dpose,
dropout=0.5)
self.to_3d = nn.Sequential(
Linear(num_output_features, self.dimension_3d),
Dropout(inplace=True,
p=self.latent_dropout) # removing dropout degrades results
)
if self.implicit_rotation:
print("WARNING: doing implicit rotation!")
rotation_encoding_dimension = 128
self.encode_angle = nn.Sequential(
Linear(3 * 3, rotation_encoding_dimension // 2),
Dropout(inplace=True, p=self.latent_dropout),
ReLU(inplace=False),
Linear(rotation_encoding_dimension // 2,
rotation_encoding_dimension),
Dropout(inplace=True, p=self.latent_dropout),
ReLU(inplace=False),
Linear(rotation_encoding_dimension,
rotation_encoding_dimension),
)
self.rotate_implicitely = nn.Sequential(
Linear(self.dimension_3d + rotation_encoding_dimension,
self.dimension_3d),
Dropout(inplace=True, p=self.latent_dropout),
ReLU(inplace=False))
if from_latent_hidden_layers:
hidden_layer_dimension = 1024
if self.dimension_fg > 0:
self.to_fg = nn.Sequential(
Linear(num_output_features, 256), # HACK pooling
Dropout(inplace=True, p=self.latent_dropout),
ReLU(inplace=False),
Linear(256, self.dimension_fg),
Dropout(inplace=True, p=self.latent_dropout),
ReLU(inplace=False))
self.from_latent = nn.Sequential(
Linear(self.dimension_3d, hidden_layer_dimension),
Dropout(inplace=True, p=self.latent_dropout),
ReLU(inplace=False),
Linear(hidden_layer_dimension, num_output_features_3d),
Dropout(inplace=True, p=self.latent_dropout),
ReLU(inplace=False))
else:
if self.dimension_fg > 0:
self.to_fg = nn.Sequential(
Linear(num_output_features, self.dimension_fg),
Dropout(inplace=True, p=self.latent_dropout),
ReLU(inplace=False))
self.from_latent = nn.Sequential(
Linear(self.dimension_3d, num_output_features_3d),
Dropout(inplace=True, p=self.latent_dropout),
ReLU(inplace=False))
####################################
############ decoder ###############
upper_conv = self.is_deconv and not upper_billinear
lower_conv = self.is_deconv and not lower_billinear
if self.skip_connections:
for li in range(1, num_encoding_layers - 1):
setattr(
self, 'upconv_' + str(li) + '_stage' + str(ns),
unetUp(self.filters[num_encoding_layers - li],
self.filters[num_encoding_layers - li - 1],
upper_conv,
padding=1))
#setattr(self, 'upconv_2_stage' + str(ns), unetUp(self.filters[2], self.filters[1], upper_conv, padding=1))
else:
for li in range(1, num_encoding_layers - 1):
setattr(
self, 'upconv_' + str(li) + '_stage' + str(ns),
unetUpNoSKip(self.filters[num_encoding_layers - li],
self.filters[num_encoding_layers - li - 1],
upper_conv,
padding=1))
#setattr(self, 'upconv_2_stage' + str(ns), unetUpNoSKip(self.filters[2], self.filters[1], upper_conv, padding=1))
if self.skip_connections or self.skip_background:
setattr(
self,
'upconv_' + str(num_encoding_layers - 1) + '_stage' + str(ns),
unetUp(self.filters[1], self.filters[0], lower_conv,
padding=1))
else:
setattr(
self,
'upconv_' + str(num_encoding_layers - 1) + '_stage' + str(ns),
unetUpNoSKip(self.filters[1],
self.filters[0],
lower_conv,
padding=1))
setattr(self, 'final_stage' + str(ns),
nn.Conv2d(self.filters[0], output_channels, 1))
self.relu = ReLU(inplace=True)
self.relu2 = ReLU(inplace=False)
self.dropout = Dropout(inplace=True, p=0.3)
def __init__(self, embedding_size):
super(MobileFaceNet, self).__init__()
self.conv1 = Conv_block(3,
64,
kernel=(3, 3),
stride=(2, 2),
padding=(1, 1))
self.conv2_dw = Conv_block(64,
64,
kernel=(3, 3),
stride=(1, 1),
padding=(1, 1),
groups=64)
self.conv_23 = Depth_Wise(64,
64,
kernel=(3, 3),
stride=(2, 2),
padding=(1, 1),
groups=128)
self.conv_3 = Residual(64,
num_block=4,
groups=128,
kernel=(3, 3),
stride=(1, 1),
padding=(1, 1))
self.conv_34 = Depth_Wise(64,
128,
kernel=(3, 3),
stride=(2, 2),
padding=(1, 1),
groups=256)
self.conv_4 = Residual(128,
num_block=6,
groups=256,
kernel=(3, 3),
stride=(1, 1),
padding=(1, 1))
self.conv_45 = Depth_Wise(128,
128,
kernel=(3, 3),
stride=(2, 2),
padding=(1, 1),
groups=512)
self.conv_5 = Residual(128,
num_block=2,
groups=256,
kernel=(3, 3),
stride=(1, 1),
padding=(1, 1))
self.conv_6_sep = Conv_block(128,
512,
kernel=(1, 1),
stride=(1, 1),
padding=(0, 0))
self.conv_6_dw = Linear_block(512,
512,
groups=512,
kernel=(7, 7),
stride=(1, 1),
padding=(0, 0))
self.conv_6_flatten = Flatten()
self.linear = Linear(512, embedding_size, bias=False)
self.bn = BatchNorm1d(embedding_size)
def __init__(
self,
in_channels: int,
hidden_channels: int,
num_layers: int,
out_channels: Optional[int] = None,
dropout: float = 0.0,
act: Union[str, Callable, None] = "relu",
norm: Optional[torch.nn.Module] = None,
jk: Optional[str] = None,
act_first: bool = False,
act_kwargs: Optional[Dict[str, Any]] = None,
**kwargs,
):
super().__init__()
from class_resolver.contrib.torch import activation_resolver
self.in_channels = in_channels
self.hidden_channels = hidden_channels
self.num_layers = num_layers
self.dropout = dropout
self.act = activation_resolver.make(act, act_kwargs)
self.jk_mode = jk
self.act_first = act_first
if out_channels is not None:
self.out_channels = out_channels
else:
self.out_channels = hidden_channels
self.convs = ModuleList()
self.convs.append(
self.init_conv(in_channels, hidden_channels, **kwargs))
for _ in range(num_layers - 2):
self.convs.append(
self.init_conv(hidden_channels, hidden_channels, **kwargs))
if out_channels is not None and jk is None:
self._is_conv_to_out = True
self.convs.append(
self.init_conv(hidden_channels, out_channels, **kwargs))
else:
self.convs.append(
self.init_conv(hidden_channels, hidden_channels, **kwargs))
self.norms = None
if norm is not None:
self.norms = ModuleList()
for _ in range(num_layers - 1):
self.norms.append(copy.deepcopy(norm))
if jk is not None:
self.norms.append(copy.deepcopy(norm))
if jk is not None and jk != 'last':
self.jk = JumpingKnowledge(jk, hidden_channels, num_layers)
if jk is not None:
if jk == 'cat':
in_channels = num_layers * hidden_channels
else:
in_channels = hidden_channels
self.lin = Linear(in_channels, self.out_channels)
def __init__(
self, out_h, out_w, feat_dim, blocks_args=None, global_params=None
):
super().__init__()
assert isinstance(blocks_args, list), "blocks_args should be a list"
assert len(blocks_args) > 0, "block args must be greater than 0"
self._global_params = global_params
self._blocks_args = blocks_args
# Batch norm parameters
bn_mom = 1 - self._global_params.batch_norm_momentum
bn_eps = self._global_params.batch_norm_epsilon
# Get stem static or dynamic convolution depending on image size
image_size = global_params.image_size
Conv2d = get_same_padding_conv2d(image_size=image_size)
# Stem
in_channels = 3 # rgb
out_channels = round_filters(
32, self._global_params
) # number of output channels
# self._conv_stem = Conv2d(in_channels, out_channels, kernel_size=3, stride=2, bias=False)
self._conv_stem = Conv2d(
in_channels, out_channels, kernel_size=3, stride=1, bias=False
)
self._bn0 = nn.BatchNorm2d(
num_features=out_channels, momentum=bn_mom, eps=bn_eps
)
image_size = calculate_output_image_size(image_size, 2)
# Build blocks
self._blocks = nn.ModuleList([])
for block_args in self._blocks_args:
# Update block input and output filters based on depth multiplier.
block_args = block_args._replace(
input_filters=round_filters(
block_args.input_filters, self._global_params
),
output_filters=round_filters(
block_args.output_filters, self._global_params
),
num_repeat=round_repeats(
block_args.num_repeat, self._global_params
),
)
# The first block needs to take care of stride and filter size increase.
self._blocks.append(
MBConvBlock(
block_args, self._global_params, image_size=image_size
)
)
image_size = calculate_output_image_size(
image_size, block_args.stride
)
if (
block_args.num_repeat > 1
): # modify block_args to keep same output size
block_args = block_args._replace(
input_filters=block_args.output_filters, stride=1
)
for _ in range(block_args.num_repeat - 1):
self._blocks.append(
MBConvBlock(
block_args, self._global_params, image_size=image_size
)
)
# image_size = calculate_output_image_size(image_size, block_args.stride) # stride = 1
# Head
in_channels = block_args.output_filters # output of final block
out_channels = round_filters(1280, self._global_params)
# out_channels = round_filters(512, self._global_params)
Conv2d = get_same_padding_conv2d(image_size=image_size)
self._conv_head = Conv2d(
in_channels, out_channels, kernel_size=1, bias=False
)
self._bn1 = nn.BatchNorm2d(
num_features=out_channels, momentum=bn_mom, eps=bn_eps
)
# Final linear layer
self._avg_pooling = nn.AdaptiveAvgPool2d(1)
self._dropout = nn.Dropout(self._global_params.dropout_rate)
self._fc = nn.Linear(out_channels, self._global_params.num_classes)
self._swish = MemoryEfficientSwish()
self.output_layer = Sequential(
BatchNorm2d(1280),
# BatchNorm2d(512),
Dropout(self._global_params.dropout_rate),
Flatten(),
Linear(1280 * out_h * out_w, feat_dim),
# Linear(512 * out_h * out_w, feat_dim),
BatchNorm1d(feat_dim),
)
def __init__(self, input_size, output_size, hidsize=16):
super(MLP, self).__init__()
self.fc1 = Linear(input_size, hidsize)
self.fc2 = Linear(hidsize, output_size)
from torch.nn import Linear, ReLU
from torch.nn import MSELoss
import numpy as np
N, D_in, H, D_out = 1000, 64, 100, 1
x = np.random.randn(N, D_in)
y = np.random.randn(N, D_out)
x = torch.from_numpy(x).float()
y = torch.from_numpy(y).float()
print(x.shape, y.shape)
# every layer takes the input and the output dimensions as well
model = torch.nn.Sequential(Linear(D_in, H), ReLU(), Linear(H, D_out))
loss_fn = MSELoss(reduction='sum')
learning_rate = 1e-4
optimizer = torch.optim.Adam(model.parameters(), lr=learning_rate)
for t in range(10000):
y_pred = model(x)
loss = loss_fn(y_pred, y)
print("at iter ", t, " loss is ", loss.item())
optimizer.zero_grad()
loss.backward()
optimizer.step()
def __init__(self,
resolution: Union[int, List[int]],
in_channels: int,
out_channels: int,
conv_type: str = 'graph',
kernel_size: int = 3,
sampling: str = 'healpix',
knn: int = 10,
pool_method: str = 'max',
kernel_size_pooling: int = 4,
periodic: Union[int, bool, None] = None,
ratio: Union[int, float, bool, None] = None):
super().__init__()
conv_type = conv_type.lower()
sampling = sampling.lower()
pool_method = pool_method.lower()
assert conv_type != 'image' or periodic is not None
periodic = bool(periodic)
### Delete in the future
self.test_mode = False
if resolution == [46, 92] and pool_method in ['max', 'avg']:
resolution = [48, 92]
self.test_mode = True
if not isinstance(resolution, Iterable):
resolution = [resolution]
resolution = np.array(resolution)
self.sphere_graph = UNetSpherical.build_graph([resolution], sampling,
knn)[0]
coarsening = int(np.sqrt(kernel_size_pooling))
resolutions = [
resolution, resolution // coarsening,
resolution // coarsening // coarsening
]
self.graphs = []
if conv_type == 'graph':
self.graphs = UNetSpherical.build_graph(resolutions, sampling, knn)
self.laplacians = UNetSpherical.get_laplacian_kernels(self.graphs)
elif conv_type == 'image':
self.laplacians = [None] * 20
else:
raise ValueError(f'{conv_type} convolution is not supported')
### Delete in the future
if self.test_mode:
self.sphere_graph = pygsp.graphs.SphereEquiangular(nlat=46,
nlon=92,
poles=0)
# Pooling - unpooling
if pool_method in ('interp', 'maxval', 'maxarea', 'learn'):
assert conv_type == 'graph'
self.pool1, self.unpool1 = PoolUnpoolBlock.getGeneralPoolUnpoolLayer(
self.graphs[0], self.graphs[1], pool_method)
self.pool2, self.unpool2 = PoolUnpoolBlock.getGeneralPoolUnpoolLayer(
self.graphs[1], self.graphs[2], pool_method)
else:
self.pool1, self.unpool1 = PoolUnpoolBlock.getPoolUnpoolLayer(
sampling,
pool_method,
kernel_size=kernel_size_pooling,
ratio=ratio)
self.pool2, self.unpool2 = PoolUnpoolBlock.getPoolUnpoolLayer(
sampling,
pool_method,
kernel_size=kernel_size_pooling,
ratio=ratio)
# Encoding block 1
self.conv11 = ConvBlock(in_channels,
32 * 2,
kernel_size,
conv_type,
True,
True,
laplacian=self.laplacians[0],
periodic=periodic,
ratio=ratio)
self.conv13 = ConvBlock(32 * 2,
64 * 2,
kernel_size,
conv_type,
True,
True,
laplacian=self.laplacians[0],
periodic=periodic,
ratio=ratio)
self.conv1_res = Linear(in_channels, 64 * 2)
# Encoding block 2
self.conv21 = ConvBlock(64 * 2,
96 * 2,
kernel_size,
conv_type,
True,
True,
laplacian=self.laplacians[1],
periodic=periodic,
ratio=ratio)
self.conv23 = ConvBlock(96 * 2,
128 * 2,
kernel_size,
conv_type,
True,
True,
laplacian=self.laplacians[1],
periodic=periodic,
ratio=ratio)
self.conv2_res = Linear(64 * 2, 128 * 2)
# Encoding block 3
self.conv31 = ConvBlock(128 * 2,
256 * 2,
kernel_size,
conv_type,
True,
True,
laplacian=self.laplacians[2],
periodic=periodic,
ratio=ratio)
self.conv33 = ConvBlock(256 * 2,
128 * 2,
kernel_size,
conv_type,
True,
True,
laplacian=self.laplacians[2],
periodic=periodic,
ratio=ratio)
self.conv3_res = Linear(128 * 2, 128 * 2)
# Decoding block 2
self.uconv21 = ConvBlock(256 * 2,
128 * 2,
kernel_size,
conv_type,
True,
True,
laplacian=self.laplacians[1],
periodic=periodic,
ratio=ratio)
self.uconv22 = ConvBlock(128 * 2,
64 * 2,
kernel_size,
conv_type,
True,
True,
laplacian=self.laplacians[1],
periodic=periodic,
ratio=ratio)
# Decoding block 1
self.uconv11 = ConvBlock(128 * 2,
64 * 2,
kernel_size,
conv_type,
True,
True,
laplacian=self.laplacians[0],
periodic=periodic,
ratio=ratio)
self.uconv12 = ConvBlock(64 * 2,
32 * 2,
kernel_size,
conv_type,
True,
True,
laplacian=self.laplacians[0],
periodic=periodic,
ratio=ratio)
self.uconv13 = ConvBlock(32 * 2 * 2,
out_channels,
kernel_size,
conv_type,
False,
False,
laplacian=self.laplacians[0],
periodic=periodic,
ratio=ratio)
axes[0].legend()
import torch.nn.functional as F
x = torch.linspace(-3, 3, 1000, requires_grad=True)
Y = torch.nn.functional.relu(x)
y = torch.sum(F.relu(x))
y.backward()
axes[1].plot(x.detach().numpy(), Y.detach().numpy(), label='function')
axes[1].plot(x.detach().numpy(), x.grad.detach().numpy(), label='derivative')
axes[1].legend()
plt.show()
from torch.nn import Linear
print("\n Test Linear model \n")
x = torch.tensor([[1.0, 1.0]])
torch.manual_seed(1)
model = Linear(in_features=2, out_features=2)
print(list(model.parameters()))
print("class result:", str(model(x)))
w = torch.tensor([[0.3643, -0.1371], [-0.3121, 0.3319]])
b = torch.tensor([[-0.6657, 0.4241]])
f = torch.mm(x, w) + b
print("result:", str(f))
def __init__(self,
model: str,
in_channels: int,
out_channels: int,
hidden_channels: int,
num_relations: int,
num_layers: int,
heads: int = 4,
dropout: float = 0.5):
super().__init__()
self.save_hyperparameters()
self.model = model.lower()
self.num_relations = num_relations
self.dropout = dropout
self.convs = ModuleList()
self.norms = ModuleList()
self.skips = ModuleList()
if self.model == 'rgat':
self.convs.append(
ModuleList([
GATConv(in_channels,
hidden_channels // heads,
heads,
add_self_loops=False) for _ in range(num_relations)
]))
for _ in range(num_layers - 1):
self.convs.append(
ModuleList([
GATConv(hidden_channels,
hidden_channels // heads,
heads,
add_self_loops=False)
for _ in range(num_relations)
]))
elif self.model == 'rgraphsage':
self.convs.append(
ModuleList([
SAGEConv(in_channels, hidden_channels, root_weight=False)
for _ in range(num_relations)
]))
for _ in range(num_layers - 1):
self.convs.append(
ModuleList([
SAGEConv(hidden_channels,
hidden_channels,
root_weight=False)
for _ in range(num_relations)
]))
for _ in range(num_layers):
self.norms.append(BatchNorm1d(hidden_channels))
self.skips.append(Linear(in_channels, hidden_channels))
for _ in range(num_layers - 1):
self.skips.append(Linear(hidden_channels, hidden_channels))
self.mlp = Sequential(
Linear(hidden_channels, hidden_channels),
BatchNorm1d(hidden_channels),
ReLU(inplace=True),
Dropout(p=self.dropout),
Linear(hidden_channels, out_channels),
)
self.train_acc = Accuracy()
self.val_acc = Accuracy()
self.test_acc = Accuracy()
:param model:
:type model:
:param constant:
:type constant:"""
for m in model.modules():
if isinstance(m, (Conv2d, Linear)):
constant_(m.weight, constant)
constant_(m.bias, constant)
def normal_init(model: Module, mean: float = 0, std: float = 1.0):
"""
:param model:
:param mean:
:param std:
:return:
"""
for m in model.modules():
if isinstance(m, (Conv2d, Linear)):
torch.nn.init.normal_(m.weight, mean, std)
torch.nn.init.normal_(m.bias, mean, std)
if __name__ == "__main__":
a = Linear(3, 3)
fan_in_init(a)
xavier_init(a)
constant_init(a)
def __init__(self, channel, reduction=16):
super(SELayer, self).__init__()
self.avg_pool = AdaptiveAvgPool2d(1)
self.fc = Sequential(Linear(channel, channel // reduction),
ReLU(inplace=True),
Linear(channel // reduction, channel), Sigmoid())
def __init__(self, n_output=1,num_features_xd=78, num_features_xt=25,
n_filters=32, embed_dim=128, output_dim=128, dropout=0.2):
super(GINConvNet, self).__init__()
dim = 32
self.dropout = nn.Dropout(dropout)
self.relu = nn.ReLU()
self.n_output = n_output
# convolution layers
nn1 = Sequential(Linear(num_features_xd, dim), ReLU(), Linear(dim, dim))
self.conv1 = GINConv(nn1)
self.bn1 = torch.nn.BatchNorm1d(dim)
nn2 = Sequential(Linear(dim, dim), ReLU(), Linear(dim, dim))
self.conv2 = GINConv(nn2)
self.bn2 = torch.nn.BatchNorm1d(dim)
nn3 = Sequential(Linear(dim, dim), ReLU(), Linear(dim, dim))
self.conv3 = GINConv(nn3)
self.bn3 = torch.nn.BatchNorm1d(dim)
nn4 = Sequential(Linear(dim, dim), ReLU(), Linear(dim, dim))
self.conv4 = GINConv(nn4)
self.bn4 = torch.nn.BatchNorm1d(dim)
nn5 = Sequential(Linear(dim, dim), ReLU(), Linear(dim, dim))
self.conv5 = GINConv(nn5)
self.bn5 = torch.nn.BatchNorm1d(dim)
self.fc1_xd = Linear(dim, output_dim)
# 1D convolution on protein sequence # mut features
self.embedding_xt_mut = nn.Embedding(num_features_xt + 1, embed_dim)
self.conv_xt_mut_1 = nn.Conv1d(in_channels=1000, out_channels=n_filters, kernel_size=8)
# 1D convolution on protein sequence # mut features
self.embedding_xt_meth = nn.Embedding(num_features_xt + 1, embed_dim)
self.conv_xt_meth_1 = nn.Conv1d(in_channels=1000, out_channels=n_filters, kernel_size=8)
# cell line mut feature
self.conv_xt_mut_1 = nn.Conv1d(in_channels=1, out_channels=n_filters, kernel_size=8)
self.pool_xt_mut_1 = nn.MaxPool1d(3)
self.conv_xt_mut_2 = nn.Conv1d(in_channels=n_filters, out_channels=n_filters*2, kernel_size=8)
self.pool_xt_mut_2 = nn.MaxPool1d(3)
self.conv_xt_mut_3 = nn.Conv1d(in_channels=n_filters*2, out_channels=n_filters*4, kernel_size=8)
self.pool_xt_mut_3 = nn.MaxPool1d(3)
self.fc1_xt_mut = nn.Linear(1280, output_dim)
# cell line meth feature
self.conv_xt_meth_1 = nn.Conv1d(in_channels=1, out_channels=n_filters, kernel_size=8)
self.pool_xt_meth_1 = nn.MaxPool1d(3)
self.conv_xt_meth_2 = nn.Conv1d(in_channels=n_filters, out_channels=n_filters*2, kernel_size=8)
self.pool_xt_meth_2 = nn.MaxPool1d(3)
self.conv_xt_meth_3 = nn.Conv1d(in_channels=n_filters*2, out_channels=n_filters*4, kernel_size=8)
self.pool_xt_meth_3 = nn.MaxPool1d(3)
self.fc1_xt_meth = nn.Linear(83584, output_dim)
# combined layers
self.fc1 = nn.Linear(3*output_dim, 1024)
self.fc2 = nn.Linear(1024, 128)
self.out = nn.Linear(128, n_output)
# activation and regularization
self.relu = nn.ReLU()
self.dropout = nn.Dropout(0.5)
def __init__(self, in_channels, num_classes):
super(Output, self).__init__()
self.conv = BasicConv2d(in_channels, 128, kernel_size=1)
self.fc1 = Linear(2048, 1024)
self.fc2 = Linear(1024, num_classes)
def __init__(self, D_key, D_query):
super(AttentionLayer, self).__init__()
self.W_k = Linear(D_key, D_query, bias=False)
self.W_q = Linear(D_key + D_query, D_query, bias=False)
def __init__(self, args):
super(VAE, self).__init__(args)
self.args = args
# encoder: q(z2 | x)
self.q_z2_layers = nn.ModuleList()
self.q_z2_layers.append( GatedDense(np.prod(self.args.input_size), 300) )
self.q_z2_layers.append( GatedDense(300, 300) )
self.q_z2_mean = Linear(300, self.args.z2_size)
self.q_z2_logvar = NonLinear(300, self.args.z2_size, activation=nn.Hardtanh(min_val=-6.,max_val=2.))
# encoder: q(z1 | x, z2)
self.q_z1_layers_x = nn.ModuleList()
self.q_z1_layers_z2 = nn.ModuleList()
self.q_z1_layers_joint = nn.ModuleList()
# x
self.q_z1_layers_x.append( GatedDense(np.prod(self.args.input_size), 300) )
# z1
self.q_z1_layers_z2.append( GatedDense(self.args.z2_size, 300) )
# joint
self.q_z1_layers_joint.append( GatedDense(2 * 300, 300) )
self.q_z1_mean = Linear(300, self.args.z1_size)
self.q_z1_logvar = NonLinear(300, self.args.z1_size, activation=nn.Hardtanh(min_val=-6.,max_val=2.))
# decoder: p(z1 | z2)
self.p_z1_layers = nn.ModuleList()
self.p_z1_layers.append( GatedDense(self.args.z2_size, 300) )
self.p_z1_layers.append( GatedDense(300, 300) )
self.p_z1_mean = Linear(300, self.args.z1_size)
self.p_z1_logvar = NonLinear(300, self.args.z1_size, activation=nn.Hardtanh(min_val=-6.,max_val=2.))
# decoder: p(x | z1, z2)
self.p_x_layers_z1 = nn.ModuleList()
self.p_x_layers_z2 = nn.ModuleList()
self.p_x_layers_joint = nn.ModuleList()
# z1
self.p_x_layers_z1.append( GatedDense(self.args.z1_size, 300) )
# z2
self.p_x_layers_z2.append( GatedDense(self.args.z2_size, 300) )
# joint
self.p_x_layers_joint.append( GatedDense(2 * 300, 300) )
if self.args.input_type == 'binary':
self.p_x_mean = NonLinear(300, np.prod(self.args.input_size), activation=nn.Sigmoid())
elif self.args.input_type == 'gray' or self.args.input_type == 'continuous':
self.p_x_mean = NonLinear(300, np.prod(self.args.input_size), activation=nn.Sigmoid())
self.p_x_logvar = NonLinear(300, np.prod(self.args.input_size), activation=nn.Hardtanh(min_val=-4.5,max_val=0))
# weights initialization
for m in self.modules():
if isinstance(m, nn.Linear):
he_init(m)
# add pseudo-inputs if VampPrior
if self.args.prior == 'vampprior':
self.add_pseudoinputs()
class GNN_ae(
torch.nn.Module
): # a baseline for no-coarsening unsupervised learning, essentially an auto-encoder
def __init__(self, dataset, hidden, num_layers=2, ratio=0.5):
super(GNN_ae, self).__init__()
self.embed_block1 = DenseGCNConv(dataset.num_features, hidden)
self.embed_block2 = DenseGCNConv(hidden, dataset.num_features)
# self.embed_block2 = GNNBlock(hidden, hidden, dataset.num_features)
self.num_layers = num_layers
self.jump = JumpingKnowledge(mode='cat')
self.lin1 = Linear(hidden, hidden)
self.lin2 = Linear(hidden, dataset.num_classes)
def reset_parameters(self):
self.embed_block1.reset_parameters()
self.embed_block2.reset_parameters()
self.jump.reset_parameters()
self.lin1.reset_parameters()
self.lin2.reset_parameters()
def forward(self, data, epsilon=0.01, opt_epochs=100):
x, adj, mask = data.x, data.adj, data.mask
batch_num_nodes = data.mask.sum(-1)
new_adjs = [adj]
Ss = []
x1 = F.relu(self.embed_block1(x, adj, mask, add_loop=True))
xs = [x1.mean(dim=1)]
new_adj = adj
coarse_x = x1
# coarse_x, new_adj, S = self.coarse_block1(x1, adj, batch_num_nodes)
# new_adjs.append(new_adj)
# Ss.append(S)
x2 = self.embed_block2(
coarse_x, new_adj, mask, add_loop=True
) #should not add ReLu, otherwise x2 could be all zero.
# xs.append(x2.mean(dim=1))
opt_loss = 0.0
for i in range(len(x)):
opt_loss += F.mse_loss(x2[i], x[i])
return xs, new_adjs, Ss, opt_loss
def get_nonzero_rows(self, M): # M is a matrix
# row_ind = M.sum(-1).nonzero().squeeze() #nonzero has bugs in Pytorch 1.2.0.........
#So we use other methods to take place of it
MM, MM_ind = torch.abs(M.sum(-1)).sort()
N = (torch.abs(M.sum(-1)) > 0).sum()
return M[MM_ind[:N]]
def predict(self, xs):
x = self.jump(xs)
x = F.relu(self.lin1(x))
x = F.dropout(x, p=0.5, training=self.training)
x = self.lin2(x)
return F.log_softmax(x, dim=-1)
def __repr__(self):
return self.__class__.__name__
def __init__(self, wrap_fsdp):
super().__init__()
self.inner = Linear(*INNER_SHAPE)
if wrap_fsdp:
self.inner = FSDP(self.inner)
self.outer = Linear(*OUTER_SHAPE)
def __init__(self):
super().__init__()
self.conv1 = GCNConv(3, 16)
self.conv2 = GCNConv(16, 16)
self.fc1 = Sequential(Linear(16, 16), ReLU(), Dropout(0.2),
Linear(16, 7))
class RECT_L(torch.nn.Module):
r"""The RECT model, *i.e.* its supervised RECT-L part, from the
`"Network Embedding with Completely-imbalanced Labels"
<https://arxiv.org/abs/2007.03545>`_ paper.
In particular, a GCN model is trained that reconstructs semantic class
knowledge.
.. note::
For an example of using RECT, see `examples/rect.py
<https://github.com/pyg-team/pytorch_geometric/blob/master/examples/
rect.py>`_.
Args:
in_channels (int): Size of each input sample.
hidden_channels (int): Intermediate size of each sample.
normalize (bool, optional): Whether to add self-loops and compute
symmetric normalization coefficients on the fly.
(default: :obj:`True`)
dropout (float, optional): The dropout probability.
(default: :obj:`0.0`)
"""
def __init__(self,
in_channels: int,
hidden_channels: int,
normalize: bool = True,
dropout: float = 0.0):
super().__init__()
self.in_channels = in_channels
self.hidden_channels = hidden_channels
self.dropout = dropout
self.conv = GCNConv(in_channels, hidden_channels, normalize=normalize)
self.lin = Linear(hidden_channels, in_channels)
self.reset_parameters()
def reset_parameters(self):
self.conv.reset_parameters()
self.lin.reset_parameters()
torch.nn.init.xavier_uniform_(self.lin.weight.data)
def forward(self,
x: Tensor,
edge_index: Adj,
edge_weight: OptTensor = None) -> Tensor:
""""""
x = self.conv(x, edge_index, edge_weight)
x = F.dropout(x, p=self.dropout, training=self.training)
return self.lin(x)
@torch.no_grad()
def embed(self,
x: Tensor,
edge_index: Adj,
edge_weight: OptTensor = None) -> Tensor:
return self.conv(x, edge_index, edge_weight)
@torch.no_grad()
def get_semantic_labels(self, x: Tensor, y: Tensor,
mask: Tensor) -> Tensor:
"""Replaces the original labels by their class-centers."""
y = y[mask]
mean = scatter(x[mask], y, dim=0, reduce='mean')
return mean[y]
def __repr__(self) -> str:
return (f'{self.__class__.__name__}({self.in_channels}, '
f'{self.hidden_channels})')
def __init__(self):
super(Net, self).__init__()
#name
self.name = "DirCNNh2"
#optimizer
self.lr = 0.001
self.optimizer_name = 'Adam-Exp'
#data
#self.data_name = "ModelNet10"
self.data_name = "Geometry"
self.batch_size = 20
self.nr_points = 1024
self.nr_classes = 10 if self.data_name == 'ModelNet10' else 40
#train_info
self.max_epochs = 301
self.save_every = 100
#model
self.k = 20
self.l = 7
# DD1
self.in_size = 3
self.out_size = 64
layers = []
layers.append(Linear(self.in_size, 64))
layers.append(ReLU())
layers.append(torch.nn.BatchNorm1d(64))
layers.append(Linear(64 , 64))
layers.append(ReLU())
layers.append(torch.nn.BatchNorm1d(64))
layers.append(Linear(64, self.out_size))
layers.append(ReLU())
layers.append(torch.nn.BatchNorm1d(self.out_size))
dense3dnet = Sequential(*layers)
self.dd = DD(l = self.l,
k = self.k,
mlp = dense3dnet,
conv_p = True,
conv_fc = False,
conv_fn = False,
out_3d = True)
# DD2
self.in_size_2 = 64 * 6
self.out_size_2 = 128
layers2 = []
layers2.append(Linear(self.in_size_2, self.out_size_2))
layers2.append(ReLU())
layers2.append(torch.nn.BatchNorm1d(self.out_size_2))
dense3dnet2 = Sequential(*layers2)
self.dd2 = DDm(l = self.l,
k = self.k,
mlp = dense3dnet2,
conv_p = False,
conv_fc = True,
conv_fn = True,
out_3d = False)
self.nn1 = torch.nn.Linear(self.out_size_2, 1024)
self.bn1 = torch.nn.BatchNorm1d(1024)
self.nn2 = torch.nn.Linear(1024, 512)
self.bn2 = torch.nn.BatchNorm1d(512)
self.nn3 = torch.nn.Linear(512, 265)
self.bn3 = torch.nn.BatchNorm1d(265)
self.nn4 = torch.nn.Linear(265, self.nr_classes)
self.sm = torch.nn.LogSoftmax(dim=1)
#make the prediction of y = 2*x -1 at x = [1, 2]
yhat = forward(x)
print("The prediction: ", yhat)
""" PRACTICE """
x = torch.tensor([[1.0], [2.0], [3.0]])
yhat = forward(x)
print("My result: ", yhat)
""" CLASS LINEAR """
# import class linear
from torch.nn import Linear
torch.manual_seed(1)
# create Linear Regression Model, and print out the parameters
lr = Linear(in_features=1, out_features=1, bias=True)
print("Parameters w and b: ", list(lr.parameters()))
#make the prediction at x = [[1.]]
x = torch.tensor([[1.0]])
yhat = lr(x)
print("The prediction: ", yhat)
# create the prediction using Linear Model
x = torch.tensor([[1.0], [2.0]])
yhat = lr(x)
print("The prediction: ", yhat)
""" PRACTICE """
x = torch.tensor([[1.0], [2.0], [3.0]])
yhat = lr(x)
print("THe prediction: ", yhat)
def __init__(self, vocab_size, embedding_dim, context_size):
super(NGramLanguageModeler, self).__init__()
self.embeddings = Embedding(vocab_size, embedding_dim)
self.linear1 = Linear(context_size * embedding_dim, 128)
self.linear2 = Linear(128, vocab_size)
import time
import torch
from torch.nn import CrossEntropyLoss, Flatten, Linear, Sequential
from torch.nn.utils.convert_parameters import parameters_to_vector
from backpack.hessianfree.hvp import hessian_vector_product
from backpack.utils.convert_parameters import vector_to_parameter_list
from backpack.utils.examples import load_mnist_data
B = 4
X, y = load_mnist_data(B)
model = Sequential(
Flatten(),
Linear(784, 10),
)
lossfunc = CrossEntropyLoss()
print("# 1) Hessian matrix with automatic differentiation | B =", B)
loss = lossfunc(model(X), y)
num_params = sum(p.numel() for p in model.parameters())
hessian = torch.zeros(num_params, num_params)
start = time.time()
for i in range(num_params):
# GGN-vector product with i.th unit vector yields the i.th row
e_i = torch.zeros(num_params)
e_i[i] = 1.0
def __init__(self, config):
super().__init__()
self.transform_nn = Linear(config.hidden_size, config.hidden_size)
self.dropout = nn.Dropout(config_args["classifier_dropout_prob"])
self.activation = nn.ReLU()
self.out_proj = nn.Linear(config.hidden_size, config.num_labels)
def linear_model(data_path: Path,
output_path: Path,
mode: Mode,
num_input: int,
radius: int,
num_output: int,
epochs: int,
lr: float = typer.Argument(1e-3),
lambda_: float = typer.Argument(1e-4)):
data = json.load(open(data_path, 'r'))
info = [{} for _ in data]
X = torch.stack([
morgan_count_fingerprint(d['id'], num_input, radius,
bitInfo=info[i]).tensor()
for i, d in enumerate(data)
]).float()
Y = torch.stack([torch.tensor(d['prediction']['output']) for d in data])
print("X = ", X.numpy())
print("Y = ",
Y.numpy() if mode != 'classification' else Y.argmax(dim=-1).numpy())
create_path(output_path)
interpretable_model = Sequential(Linear(num_input, num_output))
optimizer = torch.optim.SGD(interpretable_model.parameters(), lr=lr)
EPS = 1e-15
with tq(total=epochs) as pbar:
for epoch in range(epochs):
optimizer.zero_grad()
out = interpretable_model(X).squeeze()
W = torch.cat(
[w.flatten() for w in interpretable_model[0].parameters()])
reg = lambda_ * torch.norm(W, 1)
loss = F.mse_loss(out, Y) + reg
description = f"Loss: {loss.item():.4f}"
if mode == 'classification':
y1 = F.softmax(out, dim=-1).max(dim=1)[1]
y2 = F.softmax(Y, dim=-1).max(dim=1)[1]
acc = accuracy(y1, y2)
description = description + f", Accuracy: {acc:.2f})"
if acc == 1:
break
else:
acc = loss.item()
loss.backward()
optimizer.step()
pbar.update(1)
pbar.set_description(description)
weight = interpretable_model[0].weight
torch.set_printoptions(precision=2)
np.set_printoptions(precision=2)
w_abs = weight.abs().detach().numpy()
for c in range(num_output):
print(f"Feature importance for class {c}:")
print(f"max: {w_abs[c].max()}")
print(f"mean: {w_abs[c].mean()}")
print(f"std: {w_abs[c].std()}")
np.save(f"{output_path}/W.npy", weight.detach().numpy())
np.save(f"{output_path}/morgan_envs.npy", np.array(info))
for i, d in enumerate(data):
mol = mol_from_smiles(d['id'])
d2d = Draw.rdMolDraw2D.MolDraw2DSVG(300, 300)
d2d.drawOptions().addAtomIndices = True
d2d.DrawMolecule(mol)
d2d.FinishDrawing()
open(f"{output_path}/mol-with-indexes.svg",
"w").write(d2d.GetDrawingText())
def __init__(self):
super(model, self).__init__()
self.input = Sequential(Linear(out_features=64, in_features=784),
ReLU())
self.out = Sequential(Linear(in_features=64, out_features=784),
Sigmoid())
class BasicGNN(torch.nn.Module):
r"""An abstract class for implementing basic GNN models.
Args:
in_channels (int): Size of each input sample.
hidden_channels (int): Size of each hidden sample.
num_layers (int): Number of message passing layers.
out_channels (int, optional): If not set to :obj:`None`, will apply a
final linear transformation to convert hidden node embeddings to
output size :obj:`out_channels`. (default: :obj:`None`)
dropout (float, optional): Dropout probability. (default: :obj:`0.`)
act (str or Callable, optional): The non-linear activation function to
use. (default: :obj:`"relu"`)
norm (torch.nn.Module, optional): The normalization operator to use.
(default: :obj:`None`)
jk (str, optional): The Jumping Knowledge mode. If specified, the model
will additionally apply a final linear transformation to transform
node embeddings to the expected output feature dimensionality.
(:obj:`None`, :obj:`"last"`, :obj:`"cat"`, :obj:`"max"`,
:obj:`"lstm"`). (default: :obj:`None`)
act_first (bool, optional): If set to :obj:`True`, activation is
applied before normalization. (default: :obj:`False`)
act_kwargs (Dict[str, Any], optional): Arguments passed to the
respective activation function defined by :obj:`act`.
(default: :obj:`None`)
**kwargs (optional): Additional arguments of the underlying
:class:`torch_geometric.nn.conv.MessagePassing` layers.
"""
def __init__(
self,
in_channels: int,
hidden_channels: int,
num_layers: int,
out_channels: Optional[int] = None,
dropout: float = 0.0,
act: Union[str, Callable, None] = "relu",
norm: Optional[torch.nn.Module] = None,
jk: Optional[str] = None,
act_first: bool = False,
act_kwargs: Optional[Dict[str, Any]] = None,
**kwargs,
):
super().__init__()
from class_resolver.contrib.torch import activation_resolver
self.in_channels = in_channels
self.hidden_channels = hidden_channels
self.num_layers = num_layers
self.dropout = dropout
self.act = activation_resolver.make(act, act_kwargs)
self.jk_mode = jk
self.act_first = act_first
if out_channels is not None:
self.out_channels = out_channels
else:
self.out_channels = hidden_channels
self.convs = ModuleList()
self.convs.append(
self.init_conv(in_channels, hidden_channels, **kwargs))
for _ in range(num_layers - 2):
self.convs.append(
self.init_conv(hidden_channels, hidden_channels, **kwargs))
if out_channels is not None and jk is None:
self._is_conv_to_out = True
self.convs.append(
self.init_conv(hidden_channels, out_channels, **kwargs))
else:
self.convs.append(
self.init_conv(hidden_channels, hidden_channels, **kwargs))
self.norms = None
if norm is not None:
self.norms = ModuleList()
for _ in range(num_layers - 1):
self.norms.append(copy.deepcopy(norm))
if jk is not None:
self.norms.append(copy.deepcopy(norm))
if jk is not None and jk != 'last':
self.jk = JumpingKnowledge(jk, hidden_channels, num_layers)
if jk is not None:
if jk == 'cat':
in_channels = num_layers * hidden_channels
else:
in_channels = hidden_channels
self.lin = Linear(in_channels, self.out_channels)
def init_conv(self, in_channels: int, out_channels: int,
**kwargs) -> MessagePassing:
raise NotImplementedError
def reset_parameters(self):
for conv in self.convs:
conv.reset_parameters()
for norm in self.norms or []:
norm.reset_parameters()
if hasattr(self, 'jk'):
self.jk.reset_parameters()
if hasattr(self, 'lin'):
self.lin.reset_parameters()
def forward(self, x: Tensor, edge_index: Adj, *args, **kwargs) -> Tensor:
""""""
xs: List[Tensor] = []
for i in range(self.num_layers):
x = self.convs[i](x, edge_index, *args, **kwargs)
if i == self.num_layers - 1 and self.jk_mode is None:
break
if self.act_first:
x = self.act(x)
if self.norms is not None:
x = self.norms[i](x)
if not self.act_first:
x = self.act(x)
x = F.dropout(x, p=self.dropout, training=self.training)
if hasattr(self, 'jk'):
xs.append(x)
x = self.jk(xs) if hasattr(self, 'jk') else x
x = self.lin(x) if hasattr(self, 'lin') else x
return x
def __repr__(self) -> str:
return (f'{self.__class__.__name__}({self.in_channels}, '
f'{self.out_channels}, num_layers={self.num_layers})')
def __init__(self, vocab_size, ext_vocab_size, emb_dim, enc_hidden_dim,
c_dim, z_dim, att_hidden_dim, states_sc_hidden=150,
cgate_hidden_dim=None):
"""
:param vocab_size: the number of words by the generator.
:param ext_vocab_size: the extended number of words that is accessible
by the copy mechanism.
:param emb_dim: the number of dimensions in word embeddings.
:param enc_hidden_dim: GRU encoder's hidden dimension.
:param c_dim: dimension of the group representation.
:param z_dim: dimension of the review representation.
:param att_hidden_dim: hidden dimension of hidden dimension of
feed-forward networks.
:param states_sc_hidden: hidden dimension of the score function used
for production of the group representation c.
:param cgate_hidden_dim: copy gate hidden dimension.
"""
assert vocab_size <= ext_vocab_size
super(CopyCat, self).__init__()
self._embds = Embedding(ext_vocab_size, emb_dim)
self._encoder = GruEncoder(input_dim=emb_dim, hidden_dim=enc_hidden_dim)
# POINTER-GENERATOR NETWORK #
# generation network - computes generation distribution over words
dec_inp_dim = z_dim + enc_hidden_dim
gen_network = Sequential()
gen_network.add_module("lin_proj", Linear(dec_inp_dim, emb_dim))
gen_network.add_module("out_embds", OutEmbds(self._embds, vocab_size))
gen_network.add_module("softmax", Softmax(dim=-1))
# copy gate - computes probability of copying a word
c_ffnn = Ffnn(z_dim + enc_hidden_dim + emb_dim,
hidden_dim=cgate_hidden_dim,
non_linearity=Tanh(), output_dim=1)
copy_gate = Sequential()
copy_gate.add_module("ffnn", c_ffnn)
copy_gate.add_module("sigmoid", Sigmoid())
pgn = PointerGenNetwork(gen=gen_network, copy_gate=copy_gate,
ext_vocab_size=ext_vocab_size)
# COMPLETE DECODER (GRU + ATTENTION + COPY-GEN) #
# attention for decoder over encoder's hidden states
dec_att = Attention(query_dim=z_dim, hidden_dim=att_hidden_dim,
value_dim=enc_hidden_dim,
non_linearity=Tanh())
self._keys_creator = dec_att.create_keys
self._decoder = GruPointerDecoder(input_dim=emb_dim + z_dim,
hidden_dim=z_dim,
contxt_dim=enc_hidden_dim,
att_module=dec_att,
pointer_gen_module=pgn,
cat_contx_to_inp=True,
pass_extra_feat_to_pg=False)
# NETWORKS THAT PRODUCES LATENT VARIABLES' MUS AND SIGMAS #
# z inference network
self._z_inf_network = MuSigmaFfnn(input_dim=enc_hidden_dim + c_dim,
non_linearity=Tanh(),
output_dim=z_dim)
# z prior network
self._z_prior_network = MuSigmaFfnn(input_dim=c_dim, output_dim=z_dim)
# c inference network
# scores each state to obtain group context vector
states_dim = enc_hidden_dim + emb_dim
self._c_states_scoring = Ffnn(input_dim=states_dim,
hidden_dim=states_sc_hidden,
output_dim=1, non_linearity=Tanh())
self._c_inf_network = MuSigmaFfnn(input_dim=states_dim,
output_dim=c_dim)
def _build_N_net(input_shape, output_shape):
net = torch.nn.Sequential(Linear(input_shape, 128), ReLU(),
Linear(128, output_shape))
return net.cuda()
def __init__(self, i, o):
super(Residual, self).__init__()
self.fc = Linear(i, o)
self.bn = BatchNorm1d(o)
self.relu = ReLU()
