项目文件夹

文件
Minjie Wang 44089c8b4d [Refactor][Graph] Merge DGLGraph and DGLHeteroGraph (#1862)
* Merge

* [Graph][CUDA] Graph on GPU and many refactoring (#1791)

* change edge_ids behavior and C++ impl

* fix unittests; remove utils.Index in edge_id

* pass mx and th tests

* pass tf test

* add aten::Scatter_

* Add nonzero; impl CSRGetDataAndIndices/CSRSliceMatrix

* CSRGetData and CSRGetDataAndIndices passed tests

* CSRSliceMatrix basic tests

* fix bug in empty slice

* CUDA CSRHasDuplicate

* has_node; has_edge_between

* predecessors, successors

* deprecate send/recv; fix send_and_recv

* deprecate send/recv; fix send_and_recv

* in_edges; out_edges; all_edges; apply_edges

* in deg/out deg

* subgraph/edge_subgraph

* adj

* in_subgraph/out_subgraph

* sample neighbors

* set/get_n/e_repr

* wip: working on refactoring all idtypes

* pass ndata/edata tests on gpu

* fix

* stash

* workaround nonzero issue

* stash

* nx conversion

* test_hetero_basics except update routines

* test_update_routines

* test_hetero_basics for pytorch

* more fixes

* WIP: flatten graph

* wip: flatten

* test_flatten

* test_to_device

* fix bug in to_homo

* fix bug in CSRSliceMatrix

* pass subgraph test

* fix send_and_recv

* fix filter

* test_heterograph

* passed all pytorch tests

* fix mx unittest

* fix pytorch test_nn

* fix all unittests for PyTorch

* passed all mxnet tests

* lint

* fix tf nn test

* pass all tf tests

* lint

* lint

* change deprecation

* try fix compile

* lint

* update METIDS

* fix utest

* fix

* fix utests

* try debug

* revert

* small fix

* fix utests

* upd

* upd

* upd

* fix

* upd

* upd

* upd

* upd

* upd

* trigger

* +1s

* [kernel] Use heterograph index instead of unitgraph index (#1813)

* upd

* upd

* upd

* fix

* upd

* upd

* upd

* upd

* upd

* trigger

* +1s

* [Graph] Mutation for Heterograph (#1818)

* mutation add_nodes and add_edges

* Add support for remove_edges, remove_nodes, add_selfloop, remove_selfloop

* Fix

Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>

* upd

* upd

* upd

* fix

* [Transfom] Mutable transform (#1833)

* add nodesy

* All three

* Fix

* lint

* Add some test case

* Fix

* Fix

* Fix

* Fix

* Fix

* Fix

* fix

* triger

* Fix

* fix

Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>

* [Graph] Migrate Batch & Readout module to heterograph (#1836)

* dgl.batch

* unbatch

* fix to device

* reduce readout; segment reduce

* change batch_num_nodes|edges to function

* reduce readout/ softmax

* broadcast

* topk

* fix

* fix tf and mx

* fix some ci

* fix batch but unbatch differently

* new checkk

* upd

* upd

* upd

* idtype behavior; code reorg

* idtype behavior; code reorg

* wip: test_basics

* pass test_basics

* WIP: from nx/ to nx

* missing files

* upd

* pass test_basics:test_nx_conversion

* Fix test

* Fix inplace update

* WIP: fixing tests

* upd

* pass test_transform cpu

* pass gpu test_transform

* pass test_batched_graph

* GPU graph auto cast to int32

* missing file

* stash

* WIP: rgcn-hetero

* Fix two datasety

* upd

* weird

* Fix capsuley

* fuck you

* fuck matthias

* Fix dgmg

* fix bug in block degrees; pass rgcn-hetero

* rgcn

* gat and diffpool fix
also fix ppi and tu dataset

* Tree LSTM

* pointcloud

* rrn; wip: sgc

* resolve conflicts

* upd

* sgc and reddit dataset

* upd

* Fix deepwalk, gindt and gcn

* fix datasets and sign

* optimization

* optimization

* upd

* upd

* Fix GIN

* fix bug in add_nodes add_edges; tagcn

* adaptive sampling and gcmc

* upd

* upd

* fix geometric

* fix

* metapath2vec

* fix agnn

* fix pickling problem of block

* fix utests

* miss file

* linegraph

* upd

* upd

* upd

* graphsage

* stgcn_wave

* fix hgt

* on unittests

* Fix transformer

* Fix HAN

* passed pytorch unittests

* lint

* fix

* Fix cluster gcn

* cluster-gcn is ready

* on fixing block related codes

* 2nd order derivative

* Revert "2nd order derivative"

This reverts commit 523bf6c249bee61b51b1ad1babf42aad4167f206.

* passed torch utests again

* fix all mxnet unittests

* delete some useless tests

* pass all tf cpu tests

* disable

* disable distributed unittest

* fix

* fix

* lint

* fix

* fix

* fix script

* fix tutorial

* fix apply edges bug

* fix 2 basics

* fix tutorial

Co-authored-by: yzh119 <expye@outlook.com>
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com>
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>
Co-authored-by: Ubuntu <ubuntu@ip-172-31-7-42.us-west-2.compute.internal>
Co-authored-by: Ubuntu <ubuntu@ip-172-31-1-5.us-west-2.compute.internal>
Co-authored-by: Ubuntu <ubuntu@ip-172-31-68-185.ec2.internal>
2020-07-28 14:30:41 +08:00

113 行
3.9 KiB
Python

"""
Improved Semantic Representations From Tree-Structured Long Short-Term Memory Networks
https://arxiv.org/abs/1503.00075
"""
import time
import itertools
import networkx as nx
import numpy as np
import torch as th
import torch.nn as nn
import torch.nn.functional as F
import dgl
class TreeLSTMCell(nn.Module):
def __init__(self, x_size, h_size):
super(TreeLSTMCell, self).__init__()
self.W_iou = nn.Linear(x_size, 3 * h_size, bias=False)
self.U_iou = nn.Linear(2 * h_size, 3 * h_size, bias=False)
self.b_iou = nn.Parameter(th.zeros(1, 3 * h_size))
self.U_f = nn.Linear(2 * h_size, 2 * h_size)
def message_func(self, edges):
return {'h': edges.src['h'], 'c': edges.src['c']}
def reduce_func(self, nodes):
h_cat = nodes.mailbox['h'].view(nodes.mailbox['h'].size(0), -1)
f = th.sigmoid(self.U_f(h_cat)).view(*nodes.mailbox['h'].size())
c = th.sum(f * nodes.mailbox['c'], 1)
return {'iou': self.U_iou(h_cat), 'c': c}
def apply_node_func(self, nodes):
iou = nodes.data['iou'] + self.b_iou
i, o, u = th.chunk(iou, 3, 1)
i, o, u = th.sigmoid(i), th.sigmoid(o), th.tanh(u)
c = i * u + nodes.data['c']
h = o * th.tanh(c)
return {'h' : h, 'c' : c}
class ChildSumTreeLSTMCell(nn.Module):
def __init__(self, x_size, h_size):
super(ChildSumTreeLSTMCell, self).__init__()
self.W_iou = nn.Linear(x_size, 3 * h_size, bias=False)
self.U_iou = nn.Linear(h_size, 3 * h_size, bias=False)
self.b_iou = nn.Parameter(th.zeros(1, 3 * h_size))
self.U_f = nn.Linear(h_size, h_size)
def message_func(self, edges):
return {'h': edges.src['h'], 'c': edges.src['c']}
def reduce_func(self, nodes):
h_tild = th.sum(nodes.mailbox['h'], 1)
f = th.sigmoid(self.U_f(nodes.mailbox['h']))
c = th.sum(f * nodes.mailbox['c'], 1)
return {'iou': self.U_iou(h_tild), 'c': c}
def apply_node_func(self, nodes):
iou = nodes.data['iou'] + self.b_iou
i, o, u = th.chunk(iou, 3, 1)
i, o, u = th.sigmoid(i), th.sigmoid(o), th.tanh(u)
c = i * u + nodes.data['c']
h = o * th.tanh(c)
return {'h': h, 'c': c}
class TreeLSTM(nn.Module):
def __init__(self,
num_vocabs,
x_size,
h_size,
num_classes,
dropout,
cell_type='nary',
pretrained_emb=None):
super(TreeLSTM, self).__init__()
self.x_size = x_size
self.embedding = nn.Embedding(num_vocabs, x_size)
if pretrained_emb is not None:
print('Using glove')
self.embedding.weight.data.copy_(pretrained_emb)
self.embedding.weight.requires_grad = True
self.dropout = nn.Dropout(dropout)
self.linear = nn.Linear(h_size, num_classes)
cell = TreeLSTMCell if cell_type == 'nary' else ChildSumTreeLSTMCell
self.cell = cell(x_size, h_size)
def forward(self, batch, g, h, c):
"""Compute tree-lstm prediction given a batch.
Parameters
----------
batch : dgl.data.SSTBatch
The data batch.
g : dgl.DGLGraph
Tree for computation.
h : Tensor
Initial hidden state.
c : Tensor
Initial cell state.
Returns
-------
logits : Tensor
The prediction of each node.
"""
# feed embedding
embeds = self.embedding(batch.wordid * batch.mask)
g.ndata['iou'] = self.cell.W_iou(self.dropout(embeds)) * batch.mask.float().unsqueeze(-1)
g.ndata['h'] = h
g.ndata['c'] = c
# propagate
dgl.prop_nodes_topo(g, self.cell.message_func, self.cell.reduce_func, apply_node_func=self.cell.apply_node_func)
# compute logits
h = self.dropout(g.ndata.pop('h'))
logits = self.linear(h)
return logits