node model

test/performance/node_classification/dgl/model.py

@@ -4,7 +4,7 @@ Performance check of AutoGL model + DGL (trainer + dataset)
 import os
 import numpy as np
 from tqdm import tqdm
-
+import dgl
 os.environ["AUTOGL_BACKEND"] = "dgl"
 import sys
 sys.path.append("../../../../")
@@ -53,7 +53,7 @@ if __name__ == '__main__':
     parser = argparse.ArgumentParser('dgl model')
     parser.add_argument('--device', type=str, default='cuda')
     parser.add_argument('--dataset', type=str, choices=['Cora', 'CiteSeer', 'PubMed'], default='Cora')
-    parser.add_argument('--repeat', type=int, default=50)
+    parser.add_argument('--repeat', type=int, default=1)
     parser.add_argument('--model', type=str, choices=['gat', 'gcn', 'sage'], default='gat')
     parser.add_argument('--lr', type=float, default=0.01)
     parser.add_argument('--weight_decay', type=float, default=0.0)
@@ -69,6 +69,10 @@ if __name__ == '__main__':
     elif args.dataset == 'PubMed':
         dataset = PubmedGraphDataset()
     graph = dataset[0].to(args.device)
+
+    graph = dgl.remove_self_loop(graph)
+    graph = dgl.add_self_loop(graph)
+
     label = graph.ndata['label']
     train_mask = graph.ndata['train_mask']
     val_mask = graph.ndata['val_mask']

test/performance/node_classification/dgl/test.py

@@ -0,0 +1,212 @@
+import argparse
+import numpy as np
+import networkx as nx
+import time
+import torch
+import torch.nn.functional as F
+import dgl
+from dgl.data import register_data_args
+from dgl.data import CoraGraphDataset, CiteseerGraphDataset, PubmedGraphDataset
+
+
+
+import torch
+import torch.nn as nn
+import dgl.function as fn
+from dgl.nn import GATConv
+
+
+class GAT(nn.Module):
+    def __init__(self,
+                 g,
+                 num_layers,
+                 in_dim,
+                 num_hidden,
+                 num_classes,
+                 heads,
+                 activation,
+                 feat_drop,
+                 attn_drop,
+                 negative_slope,
+                 residual):
+        super(GAT, self).__init__()
+        self.g = g
+        self.num_layers = num_layers
+        self.gat_layers = nn.ModuleList()
+        self.activation = activation
+        # input projection (no residual)
+        self.gat_layers.append(GATConv(
+            in_dim, num_hidden, heads[0],
+            feat_drop, attn_drop, negative_slope, False, self.activation))
+        # hidden layers
+        for l in range(1, num_layers):
+            # due to multi-head, the in_dim = num_hidden * num_heads
+            self.gat_layers.append(GATConv(
+                num_hidden * heads[l-1], num_hidden, heads[l],
+                feat_drop, attn_drop, negative_slope, residual, self.activation))
+        # output projection
+        self.gat_layers.append(GATConv(
+            num_hidden * heads[-2], num_classes, heads[-1],
+            feat_drop, attn_drop, negative_slope, residual, None))
+
+    def forward(self, inputs):
+        h = inputs
+        for l in range(self.num_layers):
+            h = self.gat_layers[l](self.g, h).flatten(1)
+        # output projection
+        logits = self.gat_layers[-1](self.g, h).mean(1)
+        return logits
+
+def accuracy(logits, labels):
+    _, indices = torch.max(logits, dim=1)
+    correct = torch.sum(indices == labels)
+    return correct.item() * 1.0 / len(labels)
+
+
+def evaluate(model, features, labels, mask):
+    model.eval()
+    with torch.no_grad():
+        logits = model(features)
+        logits = logits[mask]
+        labels = labels[mask]
+        return accuracy(logits, labels)
+
+
+def main(args):
+    # load and preprocess dataset
+    args.dataset = 'pubmed'
+    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:
+        cuda = False
+    else:
+        cuda = True
+        g = g.int().to(args.gpu)
+
+    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']
+    num_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.int().sum().item(),
+           val_mask.int().sum().item(),
+           test_mask.int().sum().item()))
+
+    # add self loop
+    g = dgl.remove_self_loop(g)
+    g = dgl.add_self_loop(g)
+    n_edges = g.number_of_edges()
+    # create model
+    heads = ([args.num_heads] * args.num_layers) + [args.num_out_heads]
+    model = GAT(g,
+                args.num_layers,
+                num_feats,
+                args.num_hidden,
+                n_classes,
+                heads,
+                F.elu,
+                args.in_drop,
+                args.attn_drop,
+                args.negative_slope,
+                args.residual)
+    print(model)
+
+    if cuda:
+        model.cuda()
+    loss_fcn = torch.nn.CrossEntropyLoss()
+
+    # use optimizer
+    optimizer = torch.optim.Adam(
+        model.parameters(), lr=args.lr, weight_decay=args.weight_decay)
+
+    # initialize graph
+    dur = []
+    for epoch in range(args.epochs):
+        model.train()
+        if epoch >= 3:
+            t0 = time.time()
+        # forward
+        logits = model(features)
+        loss = loss_fcn(logits[train_mask], labels[train_mask])
+
+        optimizer.zero_grad()
+        loss.backward()
+        optimizer.step()
+
+        if epoch >= 3:
+            dur.append(time.time() - t0)
+
+        train_acc = accuracy(logits[train_mask], labels[train_mask])
+
+        if args.fastmode:
+            val_acc = accuracy(logits[val_mask], labels[val_mask])
+        else:
+            val_acc = evaluate(model, features, labels, val_mask)
+
+
+        print("Epoch {:05d} | Time(s) {:.4f} | Loss {:.4f} | TrainAcc {:.4f} |"
+              " ValAcc {:.4f} | ETputs(KTEPS) {:.2f}".
+              format(epoch, np.mean(dur), loss.item(), train_acc,
+                     val_acc, n_edges / np.mean(dur) / 1000))
+
+    print()
+
+    acc = evaluate(model, features, labels, test_mask)
+    print("Test Accuracy {:.4f}".format(acc))
+
+
+if __name__ == '__main__':
+
+    parser = argparse.ArgumentParser(description='GAT')
+    register_data_args(parser)
+    parser.add_argument("--gpu", type=int, default=-1,
+                        help="which GPU to use. Set -1 to use CPU.")
+
+    parser.add_argument("--epochs", type=int, default=200,
+                        help="number of training epochs")
+    parser.add_argument("--num-heads", type=int, default=8,
+                        help="number of hidden attention heads")
+    parser.add_argument("--num-out-heads", type=int, default=1,
+                        help="number of output attention heads")
+    parser.add_argument("--num-layers", type=int, default=1,
+                        help="number of hidden layers")
+    parser.add_argument("--num-hidden", type=int, default=8,
+                        help="number of hidden units")
+    parser.add_argument("--residual", action="store_true", default=False,
+                        help="use residual connection")
+    parser.add_argument("--in-drop", type=float, default=.6,
+                        help="input feature dropout")
+    parser.add_argument("--attn-drop", type=float, default=.6,
+                        help="attention dropout")
+    parser.add_argument("--lr", type=float, default=0.01,
+                        help="learning rate")
+    parser.add_argument('--weight-decay', type=float, default=0,
+                        help="weight decay")
+    parser.add_argument('--negative-slope', type=float, default=0.2,
+                        help="the negative slope of leaky relu")
+    parser.add_argument('--early-stop', action='store_true', default=False,
+                        help="indicates whether to use early stop or not")
+    parser.add_argument('--fastmode', action="store_true", default=False,
+                        help="skip re-evaluate the validation set")
+    args = parser.parse_args()
+    print(args)
+
+    main(args)