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Da Zheng bb54206620 remove pyinstrument. (#2772) 
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com>
 2021-03-21 20:27:12 -07:00
Zihao Ye edf644633d [performance] Optimize the association order of AXW in GraphSAGE. (#2747) 
* upd

* lint

* upd

* upd

* compatibility

* upd

* upd

Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
 2021-03-19 01:41:33 +08:00
Jinjing Zhou 366cc7ebf3 [Pickle] Fix HeteroGraphConv pickle problem (#2761) 
* fix pickle problem

* lint

* add pickle tests

* fix

* fix

* fix

* fix

* fix for windows
 2021-03-18 17:56:28 +08:00
Zhou Fang 337b155970 [Doc] fix tutorial - blitz 4 link prediction (#2726) 
The number of edges should be same as posive eids.

Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-03-18 14:36:58 +08:00
Mufei Li 09ef2c2c3d [Doc] Add Pseudo Code for HeteroGraphConv (#2729) 
* Update

* Update

* Update

* Update

Co-authored-by: Ubuntu <ubuntu@ip-172-31-15-8.us-west-2.compute.internal>
 2021-03-17 20:00:15 +08:00
Mufei Li b34a1e63d4 Update subgraph.py (#2754) 2021-03-17 18:15:30 +08:00
Roger Tu 93074dd358 Bug fix for RGCN Link Prediction Example Exceeding Specified Epochs (#2757) 
* Address bug where epochs exceed specified limit

* fix spacing
 2021-03-17 14:29:45 +08:00
Minjie Wang d3a058226c [Doc] Add one paper 2021-03-15 14:10:35 +08:00
Xiangkun Hu 99c6846a3c [Doc] Add four papers to Awesome DGL papers list (#2751) 
* PPIDataset

* Revert "PPIDataset"

This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.

* Hide implementations that may cause confusions to the user

* fix number of classes in Amazon Cobuy datasets

* add four papers
 2021-03-14 22:21:20 +08:00
鄢振宇Michael Yan 3c8382f6b6 Fix typos in zero-in-degree (#2750) 2021-03-14 19:13:59 +08:00
Mufei Li 63d94f611b [Papers] 4 New Papers Using DGL (#2743) 
* Update README.md

* Update README.md
 2021-03-12 16:33:58 +08:00
xnouhz 0b47e86803 [Example] Add DimeNet(++) for Molecular Graph Property Prediction (#2706) 
* [example] arma

* update

* update

* update

* update

* update

* [example] dimenet

* [docs] update dimenet

* [docs] update tf results

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

Co-authored-by: Mufei Li <mufeili1996@gmail.com>
 2021-03-09 17:08:59 +08:00
Tianqi Zhang (张天启) c88fca5055 [Feature] Add edge coarsening for homogeneous undirected graphs (#2691) 
* finish graph matching gpu version

* use C++ shuffle

* finish graph matching

* fix bug

* fix bug

* change name and use swap

* upt

* fix format problem

* fix format problem

* stronger test

* upt

* upt

* change python api

* upt

* upt

* format check

* upt

* upt

* fix bug

Co-authored-by: Tong He <hetong007@gmail.com>
 2021-03-09 16:35:27 +08:00
Tianqi Zhang (张天启) 91cb347719 [Example][Bug Fix] Improve DiffPool (#2730) 
* change DiffPoolBatchedGraphLayer

* fix bug and add benchmark

* upt

* upt

* upt

* upt

Co-authored-by: Tong He <hetong007@gmail.com>
 2021-03-09 16:03:00 +08:00
Hengrui Zhang 3317522622 [Example] Add implementation of InfoGraph (#2644) 
* Add implementation of unsupervised model

* [Doc] Update Implementor's information

* [doc] add index of infograph

* [Feature] QM9_v2 Dataset Support

* fix a typo

* move qm9dataset from data to examples

* Update qm9_v2.py

* Infograph -> InfoGraph

* add implementation and results of semi-supervised model

* Update README.md

* Update README.md

* fix a typo

* Remove the duplicated links.

* fix some typos

* fix typos

* update model.py

* update collate fn

* remove unused functions

* Update model.py

* add device option

* Update evaluate_embedding.py

* Update evaluate_embedding.py

* Update unsupervised.py

* Fix typos

* fix bugs

* Update README.md

Co-authored-by: Mufei Li <mufeili1996@gmail.com>
 2021-03-09 15:26:11 +08:00
Hengrui Zhang a1f59c3b68 [Feature] QM9Edge Dataset Support (#2704) 
* [Feature] Support QM9Edge Datset

* Update qm9_edge.py

* disable tqdm

* Update qm9_edge.py

* Update qm9_edge.py

* Update qm9_edge.py

* Update qm9_edge.py

* Update qm9_edge.py

* Update qm9_edge.py

* Update qm9_edge.py

* remove preprocessing part

* add comparisons in qm9.py

* [docs] add qm9edge dataset

Co-authored-by: Mufei Li <mufeili1996@gmail.com>
 2021-03-09 14:51:21 +08:00
maqy1995 62dd1c8689 fix doc typo (#2721) 2021-03-05 23:30:21 +08:00
Mufei Li 7380d61eb9 [NN] Support Unidirectional Bipartite Graphs in CFConv (#2674) 
* Update

* update

* Update

Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
 2021-03-03 16:35:07 +08:00
Quan (Andy) Gan 97bdae9e85 [Docker] Add Dependency Packages for CI (#2713) 
* add ogb to docker build

* mxnet 1.6 disappeared
 2021-03-02 22:16:31 +08:00
Yu Sun f7938649d1 [Example] Variational Graph Auto-Encoders (#2587) 
* [Example]Variational Graph Auto-Encoders

* change dgl dataset to single directional graph

* clean code

* refresh

Co-authored-by: Tianjun Xiao <xiaotj1990327@gmail.com>
 2021-03-02 10:24:34 +08:00
Da Zheng d0638b1ea9 [Example] Update the example of distributed GNN training of RGCN (#2709) 
* support gpu training.

* remove unnecessary arguments.

* update README.

* update time measurement.

* add zero_grad.

Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal>
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
 2021-03-01 12:00:15 -08:00
Minjie Wang 668bd928fe [Doc] Add TDC to paper list 2021-03-01 19:25:19 +08:00
Padarn Wilson 062f59a8f6 fix small typo bug (#2708) 
Co-authored-by: Zihao Ye <expye@outlook.com>
 2021-02-28 17:37:13 +08:00
Da Zheng 28b0a76618 [Example] Provide instructions of setting up passwordless SSH login. (#2707) 2021-02-27 18:34:46 -08:00
Quan (Andy) Gan 5087a21279 Update README.md (#2705) 2021-02-26 15:09:18 +08:00
Ligeng Zhu 6568d0aaf6 [Example] Recommend NFS over copy files (#2689) 
* Update README to use NFS, rather than copying files

* Update README.md

* Update README.md

* Update README.md

* Add ParMetis

* Update README.md

* fix directory.

* fix

* redo.

* fix.

* update.

* add more descriptions

Co-authored-by: Da Zheng <zhengda1936@gmail.com>
Co-authored-by: Quan Gan <coin2028@hotmail.com>
 2021-02-25 20:20:52 +08:00
Quan (Andy) Gan 99751d4960 [Doc] Rename block to message flow graph (#2702) 
* rename block to mfg

* revert

* rename
 2021-02-25 18:26:19 +08:00
xnouhz 491d908b55 [Example] Add ARMA for Node Classification (#2694) 
* [example] arma

* update

* update

* update

* update

* update

Co-authored-by: Mufei Li <mufeili1996@gmail.com>
 2021-02-25 17:38:43 +08:00
Smile 583aa76621 [Example] Pytorch Seal example (#2638) 
* add seal example

* 1. add paper infomation in examples/README
2. adjust codes
3. option test

* use latest `to_simple` to replace coalesce graph function

* remove outdated codes

* remove useless comment
 2021-02-25 15:53:35 +08:00
Da Zheng 0526b885ee [Distributed] Fix the path for distributed partitioning. (#2700) 
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal>
 2021-02-24 20:41:41 -08:00
Ligeng Zhu 7ab3d993a4 Change the absolute path to relative one in part_config.json (#2690) 
* Update partition.py

* fix lint.

Co-authored-by: Da Zheng <zhengda1936@gmail.com>
 2021-02-24 16:12:19 -08:00
Quan (Andy) Gan 1686106390 change __repr__ (#2696) 
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-02-25 00:21:00 +08:00
Jinjing Zhou 704ec68576 [Benchmark] Fix benchmark tests and add script to generate excel result (#2681) 
* add script

* 21

* log

* fix regression tests

* add iter time

* fix

* Revert "fix"

This reverts commit 9b4587ad61dfeb82dcce6d1de188809f62947663.

* fix

* fix

* add

* add ogb instruction

* add cu11 dockerfile

* fix

* fix

* more iter apply_edge

* add iteration time

Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-02-24 19:41:49 +08:00
Quan (Andy) Gan 71d53d9eef add thumbnails for tutorials (#2695) 
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-02-23 20:33:35 +08:00
Quan (Andy) Gan da2f690a5a [Doc] Clarify link prediction tutorial (#2673) 
* link prediction clarification

* fix
 2021-02-23 19:41:54 +08:00
Tong He 7298173ac1 [Doc]Improve docstring for GINDataset (#2676) 
* add docstring for gin

* update doc

Co-authored-by: Mufei Li <mufeili1996@gmail.com>
 2021-02-23 15:14:10 +08:00
Zihao Ye 174dd18905 [hotfix] A bunch of fix for SetTransformer (#2658) 
* upd

* lint

* upd

* fix

* fix

* upd

* upd

* fix

* warning

* upd

* upd
 2021-02-23 14:19:51 +08:00
Da Zheng 48a1794f85 [Doc] Fix the user guide for distributed partitioning. (#2684) 
* fix doc.

* explain the schema file.

* fix.
 2021-02-22 18:59:15 -08:00
xiang song(charlie.song) 80c26877de [Bug Fix] Fix munmap bug in sparse optimizer (#2675) 
* Fix munmap bug

* lint

* update

Co-authored-by: Ubuntu <ubuntu@ip-172-31-56-220.ec2.internal>
 2021-02-22 11:33:44 +08:00
xiang song(charlie.song) 16e324daf3 [Bug Fix] Add warning for invalid input graph of edge UDF (#2682) 
* Add warning for invalid graph of edge UDF

* lint

Co-authored-by: Ubuntu <ubuntu@ip-172-31-56-220.ec2.internal>
 2021-02-22 10:12:40 +08:00
Zihao Ye 72a16b22e4 [bugfix] Fix the behavior of select_topk (#2688) 
* fix

* lint

* lint
 2021-02-21 18:52:35 +08:00
Zihao Ye e6bf54cdcb [Feature] Support aggregate multiple edge features in to_simple. (#2623) 
* upd

* fix

* upd

* upd

* upd

* upd

* upd

* upd

* upd

* upd

* upd

* fix

* refactor

* upd test

* large feat_len or n in segment reduce

* lint
 2021-02-21 10:05:42 +08:00
Minjie Wang 8a07ab7737 [Doc] Tutorials re-organization (#2683) 
* reorg

* change titles

* rm some stale API doc; minor fix

* fix docs

* add warning

* rm new-tutorial run in ci

* lint
 2021-02-20 17:42:45 +08:00
Da Zheng 0fc649523b [Doc] Distributed heterogeneous graph training (#2654) 
* update DistGraph docstrings.

* add user guide.

* add doc string.

* fix.

* fix.

* fix.

Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
 2021-02-19 10:48:05 -08:00
xiang song(charlie.song) 453d358d2c [Doc] Fix docs for sparse optimizer (#2680) 
Co-authored-by: Ubuntu <ubuntu@ip-172-31-56-220.ec2.internal>
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
 2021-02-19 14:07:35 +08:00
Quan (Andy) Gan 9e04a52abd [Doc] Reorganize tutorial (#2678) 2021-02-19 13:49:13 +08:00
Quan (Andy) Gan dda103d9f6 Fix bug in EdgeConv implementation (#2669) 
* Update edgeconv.py

* update edgeconv to builtin

* add explanation on why ReLU is not there

* remove redundant code
 2021-02-19 13:07:21 +08:00
Quan (Andy) Gan d93a975997 revert (#2672) 2021-02-19 12:05:42 +08:00
Da Zheng ff64bd0de8 add warning for a bug in README (#2665) 2021-02-16 00:16:40 -08:00
Zihao Ye 0cbaa1fbcb [Doc] Make the docstring of nn.glob more informative. (#2649) 
* upd

* fix weight and sum

* upd sortpool
 2021-02-12 12:29:22 +08:00