Commits · 1990e797e1f5ef5bc12dbdde6ee03c8066754bf1 · OpenDAS / dgl

26 Sep, 2022 1 commit

[Misc] Black auto fix. (#4641) · a9f2acf3

Hongzhi (Steve), Chen authored Sep 26, 2022



* [Misc] Black auto fix.

* sort
Co-authored-by: Steve <ubuntu@ip-172-31-34-29.ap-northeast-1.compute.internal>

a9f2acf3

23 Jun, 2021 1 commit

[Example] Fix error in gcn train due to missing argument (#3040) · cb2327d4

Tomohiro Endo authored Jun 23, 2021



* Fix example

* Remove register_data_args and revert  to dataset
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>

cb2327d4

03 Feb, 2021 1 commit

[Dataset] Change the Data Type of the Node Features in GINDataset/TUDataset... · b1840f49

Mufei Li authored Feb 03, 2021


[Dataset] Change the Data Type of the Node Features in GINDataset/TUDataset from Float64 to Float32 (#2592)

* Update

* Update

* Update

* update
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
Co-authored-by: Tong He <hetong007@gmail.com>

b1840f49

19 Aug, 2020 4 commits
- [Example] Fix GCMC (#2067) · 2b77ad41
  Mufei Li authored Aug 19, 2020
```
* Fix

* Update data.py

* Update README.md

* Fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-1-5.us-west-2.compute.internal>
```
  2b77ad41
- deprecated some mxnet example (#2054) · 4c5136c8
  xiang song(charlie.song) authored Aug 19, 2020
```
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>
```
  4c5136c8
- Fix tree lstm (#2052) · 4edde000
  xiang song(charlie.song) authored Aug 19, 2020
```
Co-authored-by: Ubuntu <ubuntu@ip-172-31-63-129.ec2.internal>
```
  4edde000
- Fix (#2051) · f3f35098
  xiang song(charlie.song) authored Aug 19, 2020
```
Co-authored-by: Ubuntu <ubuntu@ip-172-31-63-129.ec2.internal>
```
  f3f35098
18 Aug, 2020 4 commits
- Fix mxnet gin (#2048) · 3d654843
  xiang song(charlie.song) authored Aug 19, 2020
```
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>
```
  3d654843
- [Feature] Change the Default Value of transpose in DGLGraph.adj (#2046) · 9088c635
  Mufei Li authored Aug 18, 2020
```
* Update adj

* Fix
```
  9088c635
- [Example] rm gcn spmv (#2044) · 09ec6020
  xiang song(charlie.song) authored Aug 18, 2020
```
* rm gcn spmv

* remove useless test

* remove useless test
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>
```
  09ec6020
- remove kvstore example which is not maintianed and is out of date (#2041) · 1a1f38e3
  xiang song(charlie.song) authored Aug 18, 2020
```
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>
```
  1a1f38e3
17 Aug, 2020 1 commit

[Doc/Feature] Refactor, doc update and behavior fix for graphs (#1983) · be444e52

Mufei Li authored Aug 18, 2020



* Update graph

* Fix for dgl.graph

* from_scipy

* Replace canonical_etypes with relations

* from_networkx

* Update for hetero_from_relations

* Roll back the change of canonical_etypes to relations

* heterograph

* bipartite

* Update doc

* Fix lint

* Fix lint

* Fix test cases

* Fix

* Fix

* Fix

* Fix

* Fix

* Fix

* Update

* Fix test

* Fix

* Update

* Use DGLError

* Update

* Update

* Update

* Update

* Fix

* Fix

* Fix

* Fix

* Fix

* Fix

* Fix

* Fix

* Update

* Fix

* Update

* Fix

* Fix

* Fix

* Update

* Fix

* Update

* Fix

* Update

* Update

* Update

* Update

* Update

* Update

* Update

* Fix

* Fix

* Update

* Update

* Update

* Update

* Update

* Update

* rewrite sanity checks

* delete unnecessary checks

* Update

* Update

* Update

* Update

* Update

* Update

* Update

* Update

* Fix

* Update

* Update

* Update

* Fix

* Fix

* Fix

* Update

* Fix

* Update

* Fix

* Fix

* Update

* Fix

* Update

* Fix
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com>
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
Co-authored-by: Quan Gan <coin2028@hotmail.com>

be444e52

07 Aug, 2020 1 commit

[bugfix] Fix a bunch of examples to be compatible with dgl 0.5 (#1957) · 264d96cd

Zihao Ye authored Aug 08, 2020



* upd

* upd

* upd

* upd

* upd

* upd

* fix pinsage also

* upd

* upd

* upd
Co-authored-by: Ubuntu <ubuntu@ip-172-31-29-3.us-east-2.compute.internal>
Co-authored-by: Quan Gan <coin2028@hotmail.com>
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>

264d96cd

03 Aug, 2020 1 commit

[Dataset] SSTDataset (#1918) · 001d7937

Xiangkun Hu authored Aug 03, 2020

* PPIDataset

* Revert "PPIDataset"

This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.

* SSTDataset

* Update tree.py

001d7937

01 Aug, 2020 1 commit

[Dataset] Citation graph (#1902) · b347590a

xiang song(charlie.song) authored Aug 01, 2020



* citation graph

* GCN example use new citatoin dataset

* mxnet gat

* triger

* Fix

* Fix gat

* fix

* Fix tensorflow dgi

* Fix appnp, graphsage for mxnet

* fix monet and sgc for mxnet

* Fix tagcn

* update sgc, appnp
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>

b347590a

30 Jul, 2020 1 commit

[Dataset] RDF dataset with DGL-Dataset template (#1869) · aee10679

xiang song(charlie.song) authored Jul 30, 2020



* update rdf builtin dataset

* Fix

* use new dataset

* fix

* rdf dataset using new framework

* tf work

* Fix mxnet

* Fix tensorflow

* Fix mxnet

* Update

* upd

* update some docstring

* clean some dead code
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>

aee10679

29 Jul, 2020 1 commit

[Example] Fix some example after graph refactor. (#1884) · 15411d93

xiang song(charlie.song) authored Jul 29, 2020



* Update cluster GCN README

We do not need to build metis right now.
We can use builtin metis.

* Fix gcmc mxnet

* Fix graphwriter
Co-authored-by: Ubuntu <ubuntu@ip-172-31-68-185.ec2.internal>

15411d93

28 Jul, 2020 1 commit

[Refactor][Graph] Merge DGLGraph and DGLHeteroGraph (#1862) · 44089c8b

Minjie Wang authored Jul 28, 2020



* 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>

44089c8b

05 Apr, 2020 1 commit

[Feature] Simplify shared memory graph index (#1381) · 7c47d8c9

Da Zheng authored Apr 05, 2020



* simplify shared memory graph index.

* fix.

* remove edge_dir in SharedMemGraphStore.

* avoid creating shared-mem graph store with from_csr.

* simplify from_csr.

* add comments.

* fix lint.

* remove the test.

* fix compilation error.

* fix a bug.

* fix a bug.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-16-150.us-west-2.compute.internal>

7c47d8c9

28 Mar, 2020 1 commit

[Feature] Deprecate multigraph (#1389) · 67cb7a43

xiang song(charlie.song) authored Mar 28, 2020



* Deprecate multi-graph

* Handle heterograph and edge_ids

* lint

* Fix

* Remove multigraph in C++ end

* Fix lint

* Add some test and fix something

* Fix

* Fix

* upd

* Fix some test case

* Fix

* Fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>

67cb7a43

20 Mar, 2020 1 commit
- [Hetero] Replace card with num_nodes · 0f40c6e4
  Mufei Li authored Mar 20, 2020
```
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
```
  0f40c6e4
05 Mar, 2020 1 commit

[Model] Scene Graph Extraction Model with GluonCV (#1260) · cbee4278

Tong He authored Mar 05, 2020



* add working scripts

* add frcnn training script

* remove redundent files

* refactor validation computation, will optimize sgdet and training

* validation finally finished

* f-rcnn training

* test reldn

* rm file

* update reldn training

* data preprocess to h5

* temp

* use coco json

* fix conflict

* new obj dataset for detection

* update training

* before cleanup

* remove abundant files

* add arg parse to train

* cleanup code file

* update

* fix

* add readme

* add ipynb as demo

* add demo pic

* update readme

* add demo script

* improve paths

* improve readme

* add docstrings

* fix args description

* update readme

* add models from s3

* update README
Co-authored-by: Minjie Wang <minjie.wang@nyu.edu>

cbee4278

23 Feb, 2020 1 commit

[KVStore] Small fix on kvstore (#1284) · ddf8c858

Chao Ma authored Feb 23, 2020

* update

* str to int

* update

* update

* update

* test remove sync

* update

* update

* update

* update

* update

* update

* update

* update

* clear

ddf8c858

17 Feb, 2020 1 commit

[KVStore] New kvstore used by DGL-KE (#1263) · b133abb8

Chao Ma authored Feb 17, 2020

* new kvstore

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* test warning

* update

* update

* udpate

* update

* update

* update

* update

* small fix

* small fix

* get group count

* update

* update

* make file

* update

* use addr

* get id

* partition book

* update

* partition

* barrier

* update

* loop count

* update

* update

* update

* update

* update

* update

* update

* update

* update

* add mxnet demo

* update ip

* update

* update

* update

* random

* update

* update

* update

* update

* update

* update

* fix lint

* fix lint

* fix lint

b133abb8

13 Feb, 2020 1 commit
- [Bugfix] Correct the loss function in RGCN model (#1217) · 7a80faf1
  Zihao Ye authored Feb 13, 2020
```
* upd

* upd

* fix
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
```
  7a80faf1
30 Dec, 2019 2 commits

[KVStore] Reduce memory cost of kvstore (#1156) · 6731ea3a

Chao Ma authored Dec 30, 2019

* API change of kvstore

* add demo for kvstore

* update

* remove duplicated log

* change queue size

* update

* update

* update

* update

* update

* update

* update

* update

* update

* fix lint

* change name

* update

* fix lint

* update

* update

* update

* update

* change message queue size to a python argument

* change default queue size to 2GB

* OMP_NUM_THREADS=1

* add multiple NICs support for kvstore

* test

* fix lint

* update

* update

* update

* update

* update

* update

* update

* fix lint

* fix lint

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* fix lint

6731ea3a

[KVStore] Made kvstore can support multiple NICs (#1150) · 4f02bb75

Chao Ma authored Dec 30, 2019

* API change of kvstore

* add demo for kvstore

* update

* remove duplicated log

* change queue size

* update

* update

* update

* update

* update

* update

* update

* update

* update

* fix lint

* change name

* update

* fix lint

* update

* update

* update

* update

* change message queue size to a python argument

* change default queue size to 2GB

* OMP_NUM_THREADS=1

* add multiple NICs support for kvstore

* test

* fix lint

* update

* update

* update

* update

* update

* update

* update

* fix lint

* fix lint

* update

* update

* update

* update

4f02bb75

25 Dec, 2019 1 commit

[Small Fix] Change default message queue size of communicator to 2GB (#1140) · d57ff78d

Chao Ma authored Dec 25, 2019

* API change of kvstore

* add demo for kvstore

* update

* remove duplicated log

* change queue size

* update

* update

* update

* update

* update

* update

* update

* update

* update

* fix lint

* change name

* update

* fix lint

* update

* update

* update

* update

* change message queue size to a python argument

* change default queue size to 2GB

* OMP_NUM_THREADS=1

d57ff78d

24 Dec, 2019 1 commit

[KVStore] API change of kvstore (#1058) · e4ef8d1a

Chao Ma authored Dec 24, 2019

* API change of kvstore

* add demo for kvstore

* update

* remove duplicated log

* change queue size

* update

* update

* update

* update

* update

* update

* update

* update

* update

* fix lint

* change name

* update

* fix lint

* update

* update

* update

* update

* change message queue size to a python argument

e4ef8d1a

30 Nov, 2019 1 commit
- [Hotfix] Fix GAT example and clarify the usage of early stop (#1065) · fdc58a89
  Zihao Ye authored Nov 30, 2019
```
* upd

* rm redundancy:

* upd
```
  fdc58a89
08 Nov, 2019 1 commit
- Small change for kvstore api (#981) · a0193fd5
  Chao Ma authored Nov 08, 2019
```
* Small change for kvstore api

* fix ci

* fix ci
```
  a0193fd5
05 Nov, 2019 1 commit
- add init api on kvserver (#975) · 7897fa3b
  Chao Ma authored Nov 05, 2019
  
  7897fa3b
04 Nov, 2019 2 commits
- [kvstore] Performance improvement for distributed kvstore (#972) · cccde032
  Chao Ma authored Nov 04, 2019
```
* Performance improvment for distributed kvstore

* update

* update
```
  cccde032
- hotfix (#971) · fdd0fe65
  Zihao Ye authored Nov 04, 2019
  
  fdd0fe65
03 Nov, 2019 1 commit

[NN] nn modules & examples update (#890) · 9a0511c8

Zihao Ye authored Nov 04, 2019

* upd

* damn it

* fuck

* fuck pylint

* fudge

* remove some comments about MXNet

* upd

* upd

* damn it

* damn it

* fuck

* fuck

* upd

* upd

* pylint bastard

* upd

* upd

* upd

* upd

* upd

* upd

* upd

* upd

* upd

9a0511c8

30 Oct, 2019 1 commit

[Bug Fix] Fix package reliability bug of networkx (#949) · 82499e60

xiang song(charlie.song) authored Oct 30, 2019

* upd

* fig edgebatch edges

* add test

* trigger

* Update README.md for pytorch PinSage example.

Add noting that the PinSage model example under
example/pytorch/recommendation only work with Python 3.6+
as its dataset loader depends on stanfordnlp package
which work only with Python 3.6+.

* Provid a frame agnostic API to test nn modules on both CPU and CUDA side.

1. make dgl.nn.xxx frame agnostic
2. make test.backend include dgl.nn modules
3. modify test_edge_softmax of test/mxnet/test_nn.py and
    test/pytorch/test_nn.py work on both CPU and GPU

* Fix style

* Delete unused code

* Make agnostic test only related to tests/backend

1. clear all agnostic related code in dgl.nn
2. make test_graph_conv agnostic to cpu/gpu

* Fix code style

* fix

* doc

* Make all test code under tests.mxnet/pytorch.test_nn.py
work on both CPU and GPU.

* Fix syntex

* Remove rand

* Add TAGCN nn.module and example

* Now tagcn can run on CPU.

* Add unitest for TGConv

* Fix style

* For pubmed dataset, using --lr=0.005 can achieve better acc

* Fix style

* Fix some descriptions

* trigger

* Fix doc

* Add nn.TGConv and example

* Fix bug

* Update data in mxnet.tagcn test acc.

* Fix some comments and code

* delete useless code

* Fix namming

* Fix bug

* Fix bug

* Add test for mxnet TAGCov

* Add test code for mxnet TAGCov

* Update some docs

* Fix some code

* Update docs dgl.nn.mxnet

* Update weight init

* Fix

* reproduce the bug

* Fix concurrency bug reported at #755.
Also make test_shared_mem_store.py more deterministic.

* Update test_shared_mem_store.py

* Update dmlc/core

* networkx >= 2.4 will break our examples

* Update tutorials/requirements

* fix selfloop edges

* upd version

82499e60

21 Oct, 2019 1 commit
- Send any shape of tensor rather than matrix (#942) · ff9f67ee
  Chao Ma authored Oct 21, 2019
  
  ff9f67ee
26 Sep, 2019 1 commit

[Model][Hetero] GCMC using new hetero APIs (#860) · 9737b270

Minjie Wang authored Sep 26, 2019

* init

* rm data

* README

* fix rating values that are not decimal

* rm stale codes

* small fix

* upd

* rewrite decoder

* fix many

* many fix; performance matched

* upd; handle sparse input

* upd

* address comments

* more docstring; download data automatically

* shared param mode

9737b270

11 Sep, 2019 1 commit
- [KVStore] Distributed kvstore (#851) · 77822769
  Chao Ma authored Sep 11, 2019
```
* update

* speedup

* add some comments
```
  77822769
09 Sep, 2019 1 commit
- [Feature] Edge softmax on a subset of edges in the graph. (#842) · 6a4b5ae9
  Zihao Ye authored Sep 09, 2019
```
* upd

* add test

* fix

* upd

* merge

* hotfix

* upd

* fix
```
  6a4b5ae9