running this code will give there error still, I believe it is internet to DGL’s code base.
import dgl
import numpy as np
import torch
import torch.nn as nn
import torch.nn.functional as F
import networkx as nx
from dgl.nn.pytorch import GraphConv
import itertools
def build_karate_club_graph():
# All 78 edges are stored in two numpy arrays. One for source endpoints
# while the other for destination endpoints.
src = np.array([1, 2, 2, 3, 3, 3, 4, 5, 6, 6, 6, 7, 7, 7, 7, 8, 8, 9, 10, 10,
10, 11, 12, 12, 13, 13, 13, 13, 16, 16, 17, 17, 19, 19, 21, 21,
25, 25, 27, 27, 27, 28, 29, 29, 30, 30, 31, 31, 31, 31, 32, 32,
32, 32, 32, 32, 32, 32, 32, 32, 32, 33, 33, 33, 33, 33, 33, 33,
33, 33, 33, 33, 33, 33, 33, 33, 33, 33])
dst = np.array([0, 0, 1, 0, 1, 2, 0, 0, 0, 4, 5, 0, 1, 2, 3, 0, 2, 2, 0, 4,
5, 0, 0, 3, 0, 1, 2, 3, 5, 6, 0, 1, 0, 1, 0, 1, 23, 24, 2, 23,
24, 2, 23, 26, 1, 8, 0, 24, 25, 28, 2, 8, 14, 15, 18, 20, 22, 23,
29, 30, 31, 8, 9, 13, 14, 15, 18, 19, 20, 22, 23, 26, 27, 28, 29, 30,
31, 32])
# Edges are directional in DGL; Make them bi-directional.
u = np.concatenate([src, dst])
v = np.concatenate([dst, src])
# Construct a DGLGraph
return dgl.graph((u, v))
G = build_karate_club_graph()
print('We have %d nodes.' % G.number_of_nodes())
print('We have %d edges.' % G.number_of_edges())
# Since the actual graph is undirected, we convert it for visualization
# purpose.
nx_G = G.to_networkx().to_undirected()
# Kamada-Kawaii layout usually looks pretty for arbitrary graphs
pos = nx.kamada_kawai_layout(nx_G)
nx.draw(nx_G, pos, with_labels=True, node_color=[[.7, .7, .7]])
# In DGL, you can add features for all nodes at once, using a feature tensor that
# batches node features along the first dimension. The code below adds the learnable
# embeddings for all nodes:
embed = nn.Embedding(34, 5) # 34 nodes with embedding dim equal to 5
G.ndata['feat'] = embed.weight
# print out node 2's input feature
print(G.ndata['feat'][2])
# print out node 10 and 11's input features
print(G.ndata['feat'][[10, 11]])
class GCN(nn.Module):
def __init__(self, in_feats, hidden_size, num_classes):
super(GCN, self).__init__()
self.conv1 = GraphConv(in_feats, hidden_size)
self.conv2 = GraphConv(hidden_size, num_classes)
def forward(self, g, inputs):
h = self.conv1(g, inputs)
h = torch.relu(h)
h = self.conv2(g, h)
return h
# The first layer transforms input features of size of 5 to a hidden size of 5.
# The second layer transforms the hidden layer and produces output features of
# size 2, corresponding to the two groups of the karate club.
net = GCN(5, 5, 2)
inputs = embed.weight
labeled_nodes = torch.tensor([0, 33]) # only the instructor and the president nodes are labeled
labels = torch.tensor([0, 1]) # their labels are different
optimizer = torch.optim.Adam(itertools.chain(net.parameters(), embed.parameters()), lr=0.01)
all_logits = []
for epoch in range(50):
logits = net(G, inputs)
# we save the logits for visualization later
all_logits.append(logits.detach())
logp = F.log_softmax(logits, 1)
# we only compute loss for labeled nodes
loss = F.nll_loss(logp[labeled_nodes], labels)
optimizer.zero_grad()
loss.backward()
optimizer.step()
print('Epoch %d | Loss: %.4f' % (epoch, loss.item()))
