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

128 行
5.4 KiB
Python

import os, json, tqdm
import numpy as np
import dgl
from zipfile import ZipFile
from torch.utils.data import Dataset
from scipy.sparse import csr_matrix
from dgl.data.utils import download, get_download_dir
class ShapeNet(object):
def __init__(self, num_points=2048, normal_channel=True):
self.num_points = num_points
self.normal_channel = normal_channel
SHAPENET_DOWNLOAD_URL = "https://shapenet.cs.stanford.edu/media/shapenetcore_partanno_segmentation_benchmark_v0_normal.zip"
download_path = get_download_dir()
data_filename = "shapenetcore_partanno_segmentation_benchmark_v0_normal.zip"
data_path = os.path.join(download_path, "shapenetcore_partanno_segmentation_benchmark_v0_normal")
if not os.path.exists(data_path):
local_path = os.path.join(download_path, data_filename)
if not os.path.exists(local_path):
download(SHAPENET_DOWNLOAD_URL, local_path, verify_ssl=False)
with ZipFile(local_path) as z:
z.extractall(path=download_path)
synset_file = "synsetoffset2category.txt"
with open(os.path.join(data_path, synset_file)) as f:
synset = [t.split('\n')[0].split('\t') for t in f.readlines()]
self.synset_dict = {}
for syn in synset:
self.synset_dict[syn[1]] = syn[0]
self.seg_classes = {'Airplane': [0, 1, 2, 3],
'Bag': [4, 5],
'Cap': [6, 7],
'Car': [8, 9, 10, 11],
'Chair': [12, 13, 14, 15],
'Earphone': [16, 17, 18],
'Guitar': [19, 20, 21],
'Knife': [22, 23],
'Lamp': [24, 25, 26, 27],
'Laptop': [28, 29],
'Motorbike': [30, 31, 32, 33, 34, 35],
'Mug': [36, 37],
'Pistol': [38, 39, 40],
'Rocket': [41, 42, 43],
'Skateboard': [44, 45, 46],
'Table': [47, 48, 49]}
train_split_json = 'shuffled_train_file_list.json'
val_split_json = 'shuffled_val_file_list.json'
test_split_json = 'shuffled_test_file_list.json'
split_path = os.path.join(data_path, 'train_test_split')
with open(os.path.join(split_path, train_split_json)) as f:
tmp = f.read()
self.train_file_list = [os.path.join(data_path, t.replace('shape_data/', '') + '.txt') for t in json.loads(tmp)]
with open(os.path.join(split_path, val_split_json)) as f:
tmp = f.read()
self.val_file_list = [os.path.join(data_path, t.replace('shape_data/', '') + '.txt') for t in json.loads(tmp)]
with open(os.path.join(split_path, test_split_json)) as f:
tmp = f.read()
self.test_file_list = [os.path.join(data_path, t.replace('shape_data/', '') + '.txt') for t in json.loads(tmp)]
def train(self):
return ShapeNetDataset(self, 'train', self.num_points, self.normal_channel)
def valid(self):
return ShapeNetDataset(self, 'valid', self.num_points, self.normal_channel)
def trainval(self):
return ShapeNetDataset(self, 'trainval', self.num_points, self.normal_channel)
def test(self):
return ShapeNetDataset(self, 'test', self.num_points, self.normal_channel)
class ShapeNetDataset(Dataset):
def __init__(self, shapenet, mode, num_points, normal_channel=True):
super(ShapeNetDataset, self).__init__()
self.mode = mode
self.num_points = num_points
if not normal_channel:
self.dim = 3
else:
self.dim = 6
if mode == 'train':
self.file_list = shapenet.train_file_list
elif mode == 'valid':
self.file_list = shapenet.val_file_list
elif mode == 'test':
self.file_list = shapenet.test_file_list
elif mode == 'trainval':
self.file_list = shapenet.train_file_list + shapenet.val_file_list
else:
raise "Not supported `mode`"
data_list = []
label_list = []
category_list = []
print('Loading data from split ' + self.mode)
for fn in tqdm.tqdm(self.file_list, ascii=True):
with open(fn) as f:
data = np.array([t.split('\n')[0].split(' ') for t in f.readlines()]).astype(np.float)
data_list.append(data[:, 0:self.dim])
label_list.append(data[:, 6].astype(np.int))
category_list.append(shapenet.synset_dict[fn.split('/')[-2]])
self.data = data_list
self.label = label_list
self.category = category_list
def translate(self, x, scale=(2/3, 3/2), shift=(-0.2, 0.2), size=3):
xyz1 = np.random.uniform(low=scale[0], high=scale[1], size=[size])
xyz2 = np.random.uniform(low=shift[0], high=shift[1], size=[size])
x = np.add(np.multiply(x, xyz1), xyz2).astype('float32')
return x
def __len__(self):
return len(self.data)
def __getitem__(self, i):
inds = np.random.choice(self.data[i].shape[0], self.num_points, replace=True)
x = self.data[i][inds,:self.dim]
y = self.label[i][inds]
cat = self.category[i]
if self.mode == 'train':
x = self.translate(x, size=self.dim)
x = x.astype(np.float)
y = y.astype(np.int)
return x, y, cat