import argparse import time import dgl import numpy as np import tensorflow as tf from dgl.data import CiteseerGraphDataset, CoraGraphDataset, PubmedGraphDataset from gcn import GCN def evaluate(model, features, labels, mask): logits = model(features, training=False) logits = logits[mask] labels = labels[mask] indices = tf.math.argmax(logits, axis=1) acc = tf.reduce_mean(tf.cast(indices == labels, dtype=tf.float32)) return acc.numpy().item() def main(args): # load and preprocess dataset if args.dataset == "cora": data = CoraGraphDataset() elif args.dataset == "citeseer": data = CiteseerGraphDataset() elif args.dataset == "pubmed": data = PubmedGraphDataset() else: raise ValueError("Unknown dataset: {}".format(args.dataset)) g = data[0] if args.gpu < 0: device = "/cpu:0" else: device = "/gpu:{}".format(args.gpu) g = g.to(device) with tf.device(device): features = g.ndata["feat"] labels = g.ndata["label"] train_mask = g.ndata["train_mask"] val_mask = g.ndata["val_mask"] test_mask = g.ndata["test_mask"] in_feats = features.shape[1] n_classes = data.num_labels n_edges = data.graph.number_of_edges() print( """----Data statistics------' #Edges %d #Classes %d #Train samples %d #Val samples %d #Test samples %d""" % ( n_edges, n_classes, train_mask.numpy().sum(), val_mask.numpy().sum(), test_mask.numpy().sum(), ) ) # add self loop if args.self_loop: g = dgl.remove_self_loop(g) g = dgl.add_self_loop(g) n_edges = g.number_of_edges() # normalization degs = tf.cast(tf.identity(g.in_degrees()), dtype=tf.float32) norm = tf.math.pow(degs, -0.5) norm = tf.where(tf.math.is_inf(norm), tf.zeros_like(norm), norm) g.ndata["norm"] = tf.expand_dims(norm, -1) # create GCN model model = GCN( g, in_feats, args.n_hidden, n_classes, args.n_layers, tf.nn.relu, args.dropout, ) loss_fcn = tf.keras.losses.SparseCategoricalCrossentropy( from_logits=True ) # use optimizer optimizer = tf.keras.optimizers.Adam( learning_rate=args.lr, epsilon=1e-8 ) # initialize graph dur = [] for epoch in range(args.n_epochs): if epoch >= 3: t0 = time.time() # forward with tf.GradientTape() as tape: logits = model(features) loss_value = loss_fcn(labels[train_mask], logits[train_mask]) # Manually Weight Decay # We found Tensorflow has a different implementation on weight decay # of Adam(W) optimizer with PyTorch. And this results in worse results. # Manually adding weights to the loss to do weight decay solves this problem. for weight in model.trainable_weights: loss_value = loss_value + args.weight_decay * tf.nn.l2_loss( weight ) grads = tape.gradient(loss_value, model.trainable_weights) optimizer.apply_gradients(zip(grads, model.trainable_weights)) if epoch >= 3: dur.append(time.time() - t0) acc = evaluate(model, features, labels, val_mask) print( "Epoch {:05d} | Time(s) {:.4f} | Loss {:.4f} | Accuracy {:.4f} | " "ETputs(KTEPS) {:.2f}".format( epoch, np.mean(dur), loss_value.numpy().item(), acc, n_edges / np.mean(dur) / 1000, ) ) acc = evaluate(model, features, labels, test_mask) print("Test Accuracy {:.4f}".format(acc)) if __name__ == "__main__": parser = argparse.ArgumentParser(description="GCN") parser.add_argument( "--dataset", type=str, default="cora", help="Dataset name ('cora', 'citeseer', 'pubmed').", ) parser.add_argument( "--dropout", type=float, default=0.5, help="dropout probability" ) parser.add_argument("--gpu", type=int, default=-1, help="gpu") parser.add_argument("--lr", type=float, default=1e-2, help="learning rate") parser.add_argument( "--n-epochs", type=int, default=200, help="number of training epochs" ) parser.add_argument( "--n-hidden", type=int, default=16, help="number of hidden gcn units" ) parser.add_argument( "--n-layers", type=int, default=1, help="number of hidden gcn layers" ) parser.add_argument( "--weight-decay", type=float, default=5e-4, help="Weight for L2 loss" ) parser.add_argument( "--self-loop", action="store_true", help="graph self-loop (default=False)", ) parser.set_defaults(self_loop=False) args = parser.parse_args() print(args) main(args)