def __init__(self, data, decode_modelname, train_pos_edge_adj_t, num_hidden_channels, num_layers, jk_mode='cat', alpha=0.1, theta=0.5, shared_weights = True, activation = None, dropout = 0.0):
'''
Args:
data (torch_geometric.data.Data): グラフデータ.
decode_modelname
train_pos_edge_adj_t (torch.SparseTensor[2, num_pos_edges]): trainデータのリンク.
num_hidden_channels (int or None): 隠れ層の出力次元数. 全ての層で同じ値が適用される.
num_layers (int or None): 隠れ層の数.
jk_mode (:obj:`str`): JK-Netにおけるaggregation方法. ('cat', 'max' or 'lstm'). (Default: 'cat)
alpha (float): convolution後に初期層を加える割合. (Default: 0.1)
theta (float): .
shared_weights (bool): . (Default: True)
activation (obj`int` or None): activation functionを指定。None, "relu", "leaky_relu", or "tanh". (Default: None)
dropout (float): 各層のDropoutの割合. (Default: 0.0)
'''
super(GCNIIwithJK, self).__init__()
self.device = torch.device('cuda' if torch.cuda.is_available() else 'cpu')
self.decode_modelname = decode_modelname
self.num_layers = num_layers
self.train_pos_edge_adj_t = train_pos_edge_adj_t
self.hidden_channels_str = (f'{num_hidden_channels}_'*num_layers)[:-1]
self.lins = torch.nn.ModuleList()
# self.lins.append(torch.nn.Linear(data.x.size(1), num_hidden_channels))
self.lins.append(GCNConv(data.x.size(1), num_hidden_channels))
self.convs = torch.nn.ModuleList()
for layer in range(num_layers):
self.convs.append(GCN2Conv(num_hidden_channels, alpha, theta, layer+1, shared_weights = shared_weights, normalize = False))
if self.decode_modelname in ['VGAE', 'Shifted-VGAE']:
self.convs.append(GCN2Conv(num_hidden_channels, alpha, theta, layer+1, shared_weights = shared_weights, normalize = False))
self.jk_mode = jk_mode
self.jumps = torch.nn.ModuleList()
for layer in range(num_layers//4):
self.jumps.append(JumpingKnowledge(jk_mode))
if self.jk_mode == 'cat':
self.lins.append(torch.nn.Linear(4 * num_hidden_channels, num_hidden_channels))
self.batchnorms = torch.nn.ModuleList()
for layer in range(num_layers - 1 + (num_layers%4==0)):
self.batchnorms.append(torch.nn.BatchNorm1d(num_hidden_channels))
self.activation = activation
self.dropout = dropout
def __init__(self,
in_channels,
hidden_channels,
out_channels,
num_layers,
dropout,
alpha=0.5,
theta=1.0,
shared_weights=True):
super(GCNII, self).__init__()
self.conv_in = GCNConv(in_channels, hidden_channels, normalize=False)
self.convs = torch.nn.ModuleList()
for l in range(num_layers):
self.convs.append(
GCN2Conv(hidden_channels,
alpha,
theta,
layer=l + 1,
shared_weights=shared_weights,
normalize=False))
self.conv_out = GCNConv(hidden_channels, out_channels, normalize=False)
self.dropout = dropout
def test_gcn2_conv():
x = torch.randn(4, 16)
x_0 = torch.randn(4, 16)
edge_index = torch.tensor([[0, 0, 0, 1, 2, 3], [1, 2, 3, 0, 0, 0]])
row, col = edge_index
value = torch.rand(row.size(0))
adj2 = SparseTensor(row=row, col=col, value=value, sparse_sizes=(4, 4))
adj1 = adj2.set_value(None)
conv = GCN2Conv(16, alpha=0.2)
assert conv.__repr__() == 'GCN2Conv(16, alpha=0.2, beta=1.0)'
out1 = conv(x, x_0, edge_index)
assert out1.size() == (4, 16)
assert torch.allclose(conv(x, x_0, adj1.t()), out1, atol=1e-6)
out2 = conv(x, x_0, edge_index, value)
assert out2.size() == (4, 16)
assert torch.allclose(conv(x, x_0, adj2.t()), out2, atol=1e-6)
t = '(Tensor, Tensor, Tensor, OptTensor) -> Tensor'
jit = torch.jit.script(conv.jittable(t))
assert jit(x, x_0, edge_index).tolist() == out1.tolist()
assert jit(x, x_0, edge_index, value).tolist() == out2.tolist()
t = '(Tensor, Tensor, SparseTensor, OptTensor) -> Tensor'
jit = torch.jit.script(conv.jittable(t))
assert torch.allclose(jit(x, x_0, adj1.t()), out1, atol=1e-6)
assert torch.allclose(jit(x, x_0, adj2.t()), out2, atol=1e-6)
conv.cached = True
conv(x, x_0, edge_index)
assert conv(x, x_0, edge_index).tolist() == out1.tolist()
conv(x, x_0, adj1.t())
assert torch.allclose(conv(x, x_0, adj1.t()), out1, atol=1e-6)
def __init__(self,
num_of_features,
hid_size,
num_of_classes,
num_layers=64,
alpha=0.1,
theta=0.5,
shared_weights=True,
dropout=0.0):
super(GCNII, self).__init__()
self.lins = torch.nn.ModuleList()
self.lins.append(nn.Linear(num_of_features, hid_size))
self.lins.append(nn.Linear(hid_size, num_of_classes))
self.convs = torch.nn.ModuleList()
for layer in range(num_layers):
self.convs.append(
GCN2Conv(hid_size,
alpha,
theta,
layer + 1,
shared_weights,
normalize=False))
self.dropout = dropout
def __init__(self, hidden_channels, num_layers, alpha, theta,
shared_weights=True, dropout=0.0):
super(Net, self).__init__()
self.lins = torch.nn.ModuleList()
self.lins.append(Linear(train_dataset.num_features, hidden_channels))
self.lins.append(Linear(hidden_channels, train_dataset.num_classes))
self.convs = torch.nn.ModuleList()
for layer in range(num_layers):
self.convs.append(
GCN2Conv(hidden_channels, alpha, theta, layer + 1,
shared_weights, normalize=False))
self.dropout = dropout
def make_layers(
self,
dim_in,
dim_out,
alpha=None,
theta=None,
shared_weights=None,
normalize=None,
):
self.convs.append(
GCN2Conv(dim_out,
alpha,
theta,
shared_weights,
normalize=normalize))
self.lins.append(torch.nn.Linear(dim_in, dim_out))
def __init__(self,
in_channels,
hidden_channels,
out_channels,
num_layers,
alpha,
dropout=0.):
super(Net, self).__init__()
self.lin1 = Linear(in_channels, hidden_channels)
self.convs = ModuleList()
self.batch_norms = ModuleList()
for _ in range(num_layers):
self.convs.append(GCN2Conv(hidden_channels, alpha, cached=True))
self.batch_norms.append(BatchNorm(hidden_channels))
self.lin2 = Linear(hidden_channels, out_channels)
self.dropout = dropout
def __init__(self, input_shape, output_shape,
hidden_channels, num_layers, dropout, alpha,
shared_weights, use_edge_weights):
super(GCN2, self).__init__()
self.lins = torch.nn.ModuleList()
self.start_with_lin = input_shape != hidden_channels
if self.start_with_lin:
self.lins.append(Linear(input_shape, hidden_channels))
self.lins.append(Linear(hidden_channels, output_shape))
self.convs = torch.nn.ModuleList()
for layer in range(num_layers):
self.convs.append(
GCN2Conv(channels=hidden_channels, alpha=alpha, theta=0.5, layer=layer + 1,
shared_weights=shared_weights, normalize=True))
self.dropout = dropout
self.use_edge_weights = use_edge_weights
def __init__(self,
data_list,
decode_modelname,
train_pos_edge_adj_t,
num_hidden_channels,
num_layers,
alpha=0.1,
theta=0.5,
shared_weights=True,
activation=None,
dropout=0.0,
future_prediction=True):
'''
Args:
data (torch_geometric.data.Data): グラフデータ.
decode_modelname
train_pos_edge_adj_t (torch.SparseTensor[2, num_pos_edges]): trainデータのリンク.
num_hidden_channels (int or None): 隠れ層の出力次元数. 全ての層で同じ値が適用される.
num_layers (int or None): 隠れ層の数.
alpha (float): convolution後に初期層を加える割合. (Default: 0.1)
theta (float): .
shared_weights (bool): . (Default: True)
activation (obj`int` or None): activation functionを指定。None, "relu", "leaky_relu", or "tanh". (Default: None)
dropout (float): 各層のDropoutの割合. (Default: 0.0)
'''
super(EvolveGCNIIO, self).__init__()
self.device = torch.device(
'cuda' if torch.cuda.is_available() else 'cpu')
self.decode_modelname = decode_modelname
self.num_layers = num_layers
self.train_pos_edge_adj_t = train_pos_edge_adj_t
self.hidden_channels_str = (f'{num_hidden_channels}_' *
num_layers)[:-1]
self.lins = torch.nn.ModuleList()
self.recurrents = torch.nn.ModuleList()
self.lins.append(GCNConv(data_list[-1].x.size(1), num_hidden_channels))
self.recurrents.append(
LSTM(input_size=num_hidden_channels,
hidden_size=num_hidden_channels))
self.convs = torch.nn.ModuleList()
for layer in range(num_layers - 1):
self.convs.append(
GCN2Conv(num_hidden_channels,
alpha,
theta,
layer + 1,
shared_weights=shared_weights,
normalize=False))
self.recurrents.append(
LSTM(input_size=num_hidden_channels,
hidden_size=num_hidden_channels))
self.batchnorms = torch.nn.ModuleList()
for layer in range(num_layers - 2):
self.batchnorms.append(torch.nn.BatchNorm1d(num_hidden_channels))
self.activation = activation
self.dropout = dropout
self.future_prediction = future_prediction
if self.future_prediction is True:
self.feature_recurrents = torch.nn.ModuleList()
self.feature_recurrents.append(
LSTM(input_size=num_hidden_channels,
hidden_size=num_hidden_channels))