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Zihao Ye aa884d43b6 [doc][fix] Improve the docstring and fix its behavior in DGL's kernel (#2563) 
* upd

* fix

* lint

* fix

* upd
 2021-01-25 00:18:57 +08:00
nv-dlasalle a6abffe303 [Fix] Don't create extra formats in dataloader (#2551) 
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-01-24 20:59:24 +08:00
Quan (Andy) Gan 2288098ba6 [Feature] Converting a block to a graph and allow block construction (#2555) 
* first commit

* more commit

* fix and docstring

* add to api reference

* address comments

* Update convert.py
 2021-01-24 12:44:54 +08:00
Mufei Li 7ff2662b88 [Fix] Better Error Message for node_type_subgraph (#2554) 
* Update

* Update

* Update
 2021-01-21 15:12:05 +08:00
nv-dlasalle 9d90faf0b9 Use ALG2 for SpMM in cuSparse (#2550) 2021-01-21 11:12:30 +08:00
xnouhz 2c6d071617 [Feature] QM9 Dataset Support (#2521) 
* [Model] MixHop for Node Classification task

* [docs] update

* [docs] update

* [fix] remove seed option

* [fix] update readme

* [feature] support qm9 dataset

* [style] update

* [docs] fix the details

* [fix] indexing only support int

* [style] update

* [fix] multiple backends support

* [docs] add qm9

* [fix] Z type: float32 -> int32

* [fix] Z type: int32 -> long

* [docs] add ref

* [docs] fix

* [docs] update

* [docs] update

* [fix] test eval

* [docs] fix example

Co-authored-by: xnuohz@126.com <ubuntu@ip-172-31-44-184.us-east-2.compute.internal>
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
 2021-01-21 01:33:30 +08:00
Jinjing Zhou 0c156573a3 [Test] API benchmarks (#2542) 
* add bench jenkins

* instance type

* fix

* fix

* fix

* 111

* test

* 111

* 111

* fix

* test

* run

* fix

* fix

* fix

* fix

* fix

* publish results

* 111

* regression

* launch ec2 script

* fix

* add

* run on master

* change

* rrr

* run gpu

* fix

* fix

* try fix

* fix

* ff

* fix

* fix

* fix

* refactor

* fix

* fix

* update

* fix

* fix

* fix

* fix

* remove import torchtext

* add shm size

* update

* fix

* fix

* fix

* fix

* fix this!!!!

* 111

* fix

* remove verbose

* fix

* fix

* fix

* fix

* fix

* fix

* fix

* fix

* update readme

* fix

* fix

* fix

* change asv default to head

* commit sage and rgcn

* fix

* update

* add benchmarks

* add

* fix

* update

* remove RandomState

* tmp remove

* new batch

* fix

* fix

* fix

* address comment

* fix warning

* fix

Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-01-20 20:02:54 +08:00
Josh Carty 8a2b54d1d4 Add a TensorFlow example for SGC (#2480) 
This is a TensorFlow implementation of Simple Graph Convolution. For
simplicity, we use the implementation of AdamW in TensorFlow Addons
that differs from Adam in PyTorch. This results in worse performance
on the evaluation datasets.

Co-authored-by: Josh Carty <joshuac@spotify.com>
Co-authored-by: Zihao Ye <expye@outlook.com>
 2021-01-20 15:35:32 +08:00
Jinjing Zhou 917a755291 [Fix] fix version check (#2544) 2021-01-19 19:35:43 +08:00
张天启 9a9a06eb2f [Bug Fix] Fix undefined var bug in LegacyTUDataset (#2543) 
* [Bug Fix] Fix undefined var bug in LegacyTUDataset

* upt

* [Bug Fix] Fix cache file name bug in TUDataset

Co-authored-by: Tong He <hetong007@gmail.com>
 2021-01-19 13:58:01 +08:00
张天启 b36b6c268e [Example] Add HGP-SL example for pytorch backend (#2515) 
* add sagpool example for pytorch backend

* polish sagpool example for pytorch backend

* [Example] SAGPool: use std variance

* [Example] SAGPool: change to std

* add sagpool example to index page

* add graph property prediction tag to sagpool

* [Example] add graph classification example HGP-SL

* [Example] fix sagpool

* fix bug

* [Example] change tab to space in README of hgp-sl

* remove redundant files

* remote redundant network

* [Example]: change link from code to doc in HGP-SL

* [Example] in HGP-SL, change to meaningful name

* [Example] Fix path mistake for 'hardgat'

Co-authored-by: zhangtianqi <tianqizh@amazon.com>
 2021-01-18 17:01:52 +08:00
Minjie Wang 1caf01d0d4 Add one paper 2021-01-18 14:28:22 +08:00
Minjie Wang 6b4638203e Update README.md 2021-01-18 14:01:54 +08:00
Andrew 8c8c5b1dc1 [Bug fix] Stop erasing schemas of frames with no data rows (#2529) 
* added option for batching empty data, fixes #2526

* added option for batching empty data, fixes #2526

* decreased line lengths

* removed trailing whitespace

* fixed wrong feature name

* [Bugfix] stop erasing schema of frames w/ no cols (fixes #2528)

* removed arg doc

Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com>
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-01-17 10:32:47 +08:00
Chen Sirui 673cc64c8c [Example] Add hardGAT example (#2486) 
* Add hgat example

* Add experiment

* Clean code

* clear the code

* Add index in README

* Add index in README

* Add index in README

* Add index in README

* Add index in README

* Add index in README

* Change the code title and folder name

* Ready to merge

* Prepare for rebase and change message passing function

* use git ignore to handle empty file

* change file permission to resolve empty file

* Change permission

* change file mode

Co-authored-by: Chen <chesirui@3c22fbe5458c.ant.amazon.com>
Co-authored-by: Tianjun Xiao <xiaotj1990327@gmail.com>
 2021-01-15 16:58:19 +08:00
Mufei Li 121ee7c95b Update PULL_REQUEST_TEMPLATE.md (#2541) 2021-01-15 16:10:37 +08:00
Mufei Li 5da3439c16 [Feature] Add Device Flag in Data Loaders (#2450) 
* Update

* Update

* Update

* Update

* Update

* Update

* Update

* Update

* Update

* Update

* Update

* Update

* Update

Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-01-15 07:39:26 +08:00
Minjie Wang b1fb3c15ec Update example README.md 2021-01-14 17:19:13 +08:00
Andrew 0ab9167c11 Update CONTRIBUTORS.md (#2538) 2021-01-14 17:09:00 +08:00
Jinjing Zhou c29daaef56 Add API benchmarks (#2522) 
* add bench jenkins

* instance type

* fix

* fix

* fix

* 111

* test

* 111

* 111

* fix

* test

* run

* fix

* fix

* fix

* fix

* fix

* publish results

* 111

* regression

* launch ec2 script

* fix

* add

* run on master

* change

* rrr

* run gpu

* fix

* fix

* try fix

* fix

* ff

* fix

* fix

* fix

* refactor

* fix

* fix

* update

* fix

* fix

* fix

* fix

* remove import torchtext

* add shm size

* update

* fix

* fix

* fix

* fix

* fix this!!!!

* 111

* fix

* remove verbose

* fix

* fix

* fix

* fix

* fix

* fix

* fix

* fix

* update readme

* fix

* fix

* fix

* change asv default to head

* commit sage and rgcn

* fix

* update

* add benchmarks

* add

* fix

* update

* remove RandomState

* tmp remove

Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-01-14 15:53:28 +08:00
Andrew 0778766411 [Bug fix] [Feature] added option for batching empty data (#2527) 
* added option for batching empty data, fixes #2526

* added option for batching empty data, fixes #2526

* decreased line lengths

* removed trailing whitespace

* fixed wrong feature name

* now default behavior when all graphs are empty

Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-01-14 15:25:13 +08:00
Quan (Andy) Gan 4d89b54efa [Bug] Fix munmap() using wrong parameter (#2519) 
* fix munmap() using wrong parameter

* rename variables

Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-01-14 15:00:49 +08:00
Mufei Li a6ec8480ef [Doc] Update FAQ (#2536) 2021-01-14 14:26:02 +08:00
Da Zheng 1db7588739 fix. (#2534) 
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-01-14 14:23:36 +08:00
Tong He bedccc2392 fix 2532 (#2533) 2021-01-14 13:40:25 +08:00
KounianhuaDu a9e16c177c [Example] GNN-FiLM (#2476) 
* gnnfilm

* update

* readme

Co-authored-by: zhjwy9343 <6593865@qq.com>
 2021-01-13 22:34:14 +08:00
zhjwy9343 c448e61b55 [Doc] CN User Guide Chapter 7 (#2481) 
* [Doc] Add Chapter 7

* [Doc] Add CN part 7, 7.1, 7.2, and 7.3

* [Doc] Add CN part 7, 7.1, 7.2, and 7.3

* [Doc] 1st round copyediting, 7, 7.1, 7.2, and 7.3, removing EN parts.

* [Doc] 2nd round copyediting.

* [Doc] 3rd round copyediting.

* [Doc] Copyedit with reviewers' comments.

Co-authored-by: Mufei Li <mufeili1996@gmail.com>
 2021-01-13 19:28:20 +08:00
zhjwy9343 31f65f036a [Doc] user guide CN chapter 6 (#2452) 
* [Doc] Add 1st CN in chapter 6

* [Doc] Add 1st CN in chapter 6

* [Doc] Add 1st CN in chapter 6.1

* [Doc] Add 1st CN in chapter 6.1

* [Doc] Add 1st CN in chapter 6.2

* [Doc] Add CN in chapter 6.2

* [Doc] Add CN in chapter 6.3

* [Doc] Fix a code bug in chapter 6.3

* [Doc] Add CN in chapter 6.4, 6.5, and 6.6.

* [Doc] Add CN in chapter 6.4, 6.5, and 6.6，then remove EN parts.

* [Doc] revised 6.4, 6.5, and 6.6.

* [Doc] 2nd round of copyediting.

* Delete syn1.bin

Remove this unrelated file to this branch

* [Doc] Update guide_cn index.rst.

* [Doc] Update guide_cn index.rst.

* [Doc] Update guide_cn index.rst.

* [Doc] Update guide_cn index.rst.

* [Doc] Add chapter 7 in index page

* [Doc] edit chapter 6 in PR

* [Doc] edit chapter 6 in PR

* [Doc] Copyediting with Murphy and Minjie's comments.

* [Doc] Fix doc line in the previous chapters.

Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-01-13 17:12:33 +08:00
xiang song(charlie.song) 54f186bba0 Fix (#2524) 
Co-authored-by: Ubuntu <ubuntu@ip-172-31-59-204.ec2.internal>
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-01-13 15:09:21 +08:00
张恒瑞 80fdcfdf83 [Example] Graph Random Neural Network (#2502) 
* Add Implementation of GRAND

* Performance updated

* Update README.md

add indexing entries

* add indexing entries for grand

* change grand from 2021 to 2020

* [Example] fix some bugs

* [Examples] fix bug

Co-authored-by: 张恒瑞 <hengrui@macbook.local>
Co-authored-by: 张恒瑞 <hengrui@192.168.124.35>
Co-authored-by: zhjwy9343 <6593865@qq.com>
 2021-01-13 14:06:47 +08:00
Hongyu Cai 1502c56d51 [Doc] Fix typo of datasets (#2517) 
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-01-13 12:34:47 +08:00
Mufei Li 1e69bf5387 [Paper List] Add Three Papers (#2525) 
* Update README.md

* Update README.md

* Update README.md
 2021-01-13 03:33:38 +08:00
Quan (Andy) Gan 498505bafb [Doc] fix docserver build for tutorials (#2518) 
* fix doc build

* hide GPU code
 2021-01-12 17:55:58 +08:00
Hongyu Cai 5d4995e6e8 Update README.md (#2510) 
fix typo

Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com>
 2021-01-12 13:14:10 +08:00
Quan (Andy) Gan 9fb376385d fix (#2516) 2021-01-12 09:53:19 +08:00
Jinjing Zhou 71283997ce Integrate Regression Test with Jenkins (#2448) 
* add bench jenkins

* instance type

* fix

* fix

* fix

* 111

* test

* 111

* 111

* fix

* test

* run

* fix

* fix

* fix

* fix

* fix

* publish results

* 111

* regression

* launch ec2 script

* fix

* add

* run on master

* change

* rrr

* run gpu

* fix

* fix

* try fix

* fix

* ff

* fix

* fix

* fix

* refactor

* fix

* fix

* update

* fix

* fix

* fix

* fix

* remove import torchtext

* add shm size

* update

* fix

* fix

* fix

* fix

* fix this!!!!

* 111

* fix

* remove verbose

* fix

* fix

* fix

* fix

* fix

* fix

* fix

* fix

* update readme

* fix

* fix

* fix

* change asv default to head

* commit sage and rgcn

* fix

* update
 2021-01-11 16:01:51 +08:00
Tong He 4e7a646b26 add one paper (#2513) 2021-01-11 15:18:27 +08:00
Xiangkun Hu 4807862288 [Doc] Add two papers to Awesome papers list (#2511) 
* PPIDataset

* Revert "PPIDataset"

This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.

* data pipeline user guide

* remove chapter numbers

* Update data.rst

* image in dataset userguide

* update links using ref

* modify the link of save_graphs and load_graphs in dataset user guide

* move image to s3 server.

* fix links and ref

* Hide implementations that may cause confusions to the user

* add papers

* fix number of classes in Amazon Cobuy datasets

* add two papers to Awesome paper list

* Update README.md
 2021-01-11 14:30:30 +08:00
Tong He a9f8f2589c [Doc] Update GraphDataLoader in our docs (#2504) 
* update graphdataloader in docs

* fix

* update examples

* fix sagpool

Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com>
 2021-01-11 13:11:19 +08:00
Quan (Andy) Gan e018939729 [Tutorial] New tutorials for small graphs (#2482) 
* new tutorials for small graphs

* address changes and use GraphDataLoader

* fix and add data

* fix load_data

* style fixes

* Update 5_graph_classification.py
 2021-01-10 22:24:21 +08:00
xiang song(charlie.song) 16169f3a9d [Test] Regression speed test for rgcn with neighbor sampling (#2461) 
* Add sage neighbor sample test for reddit

* Add ogbn-products dataset

* upd

* upd

* Add ogbn-mag

* rgcn heterogeneous performance test

* upd

* update

* upd

* upd

* use dgl dataloader

* upd

* Update with new collator

Co-authored-by: Ubuntu <ubuntu@ip-172-31-59-204.ec2.internal>
 2021-01-10 00:03:45 +08:00
Pein 400687d7a8 add venue label filename; delete redundant code (#2491) 
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com>
 2021-01-08 17:05:33 +08:00
Quan (Andy) Gan bdb88df576 [Performance] Allow DataLoaders to return indices of the seed array (#2495) 
* return indices from dataloader

* fixes

* fix

* fix distgraph and added some todos

* Update dataloader.py

* Update dataloader.py

Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com>
 2021-01-08 14:30:52 +08:00
Quan (Andy) Gan 79940695de [Examples][Bug] fix a silly typo in JTNN (#2505) 2021-01-07 20:14:45 +08:00
Tong He e2e524df41 [Feature] Add GraphDataLoader implementation (#2496) 
* add graph dataloader

* add to doc

* fix

* fix

* fix docstring

* update according to torch default_collate

* add unittest

* fix

* fix lint

* fix
 2021-01-07 13:38:21 +08:00
Zihao Ye fa5f4d6aa7 [Doc] Hotfix on docstring of set_batch_num_edges (#2498) 2021-01-06 21:45:04 +08:00
Quan (Andy) Gan 2caac086c2 [Bug] send_and_recv and pull may write to wrong places (#2497) 
* fix

* fix test
 2021-01-06 17:18:37 +08:00
Quan (Andy) Gan 4507bebc1a add compute_loss example in link prediction user guide (#2487) 2021-01-06 14:27:51 +08:00
Mufei Li 0c2a2ea1e2 [Bugfix] Handle a Corner Case of Batching after Removing Nodes/Edges (#2465) 
* Update

* Update

* Update

Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com>
 2021-01-05 22:22:03 +08:00
Jinjing Zhou 08671d81f3 Fix ci icon in readme (#2490) 2021-01-05 15:10:58 +08:00