Commits · 5e34ca8bb55fc10e3aa73d6ffc49b9d2a39d0b6e · OpenDAS / dgl

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12 Aug, 2020 4 commits

[Feature] Lazy copy ndata, edata to device (#1986) · 5e34ca8b

xiang song(charlie.song) authored Aug 12, 2020



* Lazy to device

* remove print

* lint

* Fix

* Fix

* Fix

* Fix

* Fix

* Fix

* Fix

* lint

* Fix

* Revert "Fix"

This reverts commit 615c9b8f80f5f6ee2ab43c849a22f0083deedf3b.

* Add test for frame lazy update

* disable tensorflow

* upd
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>

5e34ca8b

[Example] Update results in Sudoku example with RRN (#1998) · 912da18c

Xiangkun Hu authored Aug 12, 2020

* PPIDataset

* Revert "PPIDataset"

This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.

* remove duplicate edges

* Update README.md

* change model save and load

* Update README.md

* Update README.md

912da18c

[Distributed] adjust various APIs. (#1993) · d1cf5c38

Da Zheng authored Aug 11, 2020

* rename get_data_size.

* remove g from DistTensor.

* remove g from DistEmbedding.

* clean up API of graph partition book.

* fix DistGraph

* fix lint.

* collect all part policies.

* fix.

* fix.

* support distributed sampler.

* remove partition.py

d1cf5c38

[Model] Fix GCMC broken code (#2001) · a6b44e72
Quan (Andy) Gan authored Aug 12, 2020
```
* [Model] Fix GCMC debugging code

* use the one with apply_edges
```
a6b44e72

11 Aug, 2020 9 commits

[Distributed] Move server start code to initialize. (#2002) · 4efa3320
Da Zheng authored Aug 11, 2020
```
* move server start code to initialize.

* fix.

* fix lint.

* fix examples.

* add more checks.
```
4efa3320

[Doc] Data pipeline user guide remove chapter number (#1997) · af990989

Xiangkun Hu authored Aug 11, 2020

* PPIDataset

* Revert "PPIDataset"

This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.

* data pipeline user guide

* remove chapter numbers

af990989

[feature] Allow copy_e + udf reduce function (#1996) · 0f565759
Zihao Ye authored Aug 11, 2020
```
* up

* pylint
```
0f565759

[Feature] Edge DataLoader for edge classification & link prediction (#1828) · f5eb80d2

Quan (Andy) Gan authored Aug 11, 2020

* clean commit

* oops forgot the most important files

* use einsum

* copy feature from frontier to block

* Revert "copy feature from frontier to block"

This reverts commit 5224ec963eb6a3ef1b6ab74d8ecbd44e4e42f285.

* temp fix

* unit test

* fix

* revert jtnn

* lint

* fix win64

* docstring fixes and doc indexing

* revert einsum in sparse bidecoder

* fix some examples

* lint

* fix due to some tediousness in remove_edges

* addresses comments

* fix

* more jtnn fixes

* fix

f5eb80d2

[Distributed] Remove server_count from ip_config.txt (#1985) · d340ea3a

Chao Ma authored Aug 11, 2020



* remove server_count from ip_config.txt

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* lint

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* Update dist_context.py

* fix lint.

* make it work for multiple spaces.

* update ip_config.txt.

* fix examples.

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* update

* udpate

* update

* update

* update

* update

* update
Co-authored-by: Da Zheng <zhengda1936@gmail.com>
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-1.us-west-2.compute.internal>

d340ea3a

[Doc] Chapter 3 Graph data input pipeline in DGL (#1995) · d090ae86

Xiangkun Hu authored Aug 11, 2020

* PPIDataset

* Revert "PPIDataset"

This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.

* data pipeline user guide

d090ae86

[Doc] Message passing and NN User Guide (#1991) · e262e110

Tianjun Xiao authored Aug 11, 2020



* add message passing user gude rst

* add nn user guide
Co-authored-by: Mufei Li <mufeili1996@gmail.com>

e262e110

[Fix] OpenMP compatibility issues (#1992) · 71f4230a

chwan-rice authored Aug 11, 2020



* fix OpenMP compatibility issues

* typo
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>

71f4230a

Remove stale partition code and fix #1949 (#1984) · a089b91f
Jinjing Zhou authored Aug 11, 2020
```
* remove unused code

* fix litn

* fix
```
a089b91f

10 Aug, 2020 4 commits

[Distributed] Fix standalone (#1974) · ee30b2aa

Da Zheng authored Aug 10, 2020



* fix tests.

* fix.

* remove a test.

* make code work in the standalone mode.

* fix example.

* more fix.

* make DistDataloader work with num_workers=0

* fix DistDataloader tests.

* fix.

* fix lint.

* fix cleanup.

* fix test

* remove unnecessary code.

* remove tests.

* fix.

* fix.

* fix.

* fix example

* fix.

* fix.

* fix launch script.
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-1.us-west-2.compute.internal>

ee30b2aa

[Doc] Reorg doc (#1989) · c2cd6eb2
Minjie Wang authored Aug 10, 2020

c2cd6eb2
hotfix (#1987) · e4b4fcff
xiang song(charlie.song) authored Aug 10, 2020
```
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>
```
e4b4fcff

Fix the performance issue of graph partitioning in new DGLGraph (#1934) · 729ff2ef

Da Zheng authored Aug 09, 2020



* fix perf.

* fix.

* accelerate metis.

* fix lint.

* use gklib.

* fix perf.

* fix.

* update metis.

* update launch script

* handle synchronized API.

* fix.

* fix example.

* fix dataloader.

* temp fix.

* temp fix omp.

* distinguish roles.

* initialize iterator of DistDataloader correctly.

* check the correctness of launch script.

* move feature copy to sampler.

* measure mem/network copy time.

* remove

* Revert "measure mem/network copy time."

This reverts commit 86cefdc14b7815fcf5aad6496af912dba48e4aa6.

* fix.

* fix

* fix.

* fix cmake.

* disable metis in windows.

* disable metis tests in windows.

* remove test for multigraph.

* fix test.

* fix.

* fix cmake.

* fix.

* revert.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-115.us-west-2.compute.internal>
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-1.us-west-2.compute.internal>

729ff2ef

09 Aug, 2020 4 commits

[Feature] [Example] Graph matching routines with DGLGraphs (#1935) · 4097fa21

gurdaspuriya authored Aug 09, 2020



* Adding graph matching routines

* Adding graph matching routines
Co-authored-by: Ubuntu <ubuntu@ip-172-31-32-199.us-east-2.compute.internal>
Co-authored-by: Zihao Ye <expye@outlook.com>

4097fa21

[Example] Rgcn support ogbn-mag dataset. (#1812) · 4ef01dbb

xiang song(charlie.song) authored Aug 09, 2020



* rgcn support ogbn-mag dataset

* upd

* multi-gpu val and test

* Fix

* fix

* Add support for ogbn-mag

* Fix

* Fix

* Fix

* Fix

* Add layer_norm

* update

* Fix merge

* Clean some code

* update Readme

* upd
Co-authored-by: Ubuntu <ubuntu@ip-172-31-68-185.ec2.internal>
Co-authored-by: Ubuntu <ubuntu@ip-172-31-87-240.ec2.internal>
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>

4ef01dbb

hotfix (#1980) · e7515773
xiang song(charlie.song) authored Aug 09, 2020
```
Co-authored-by: Ubuntu <ubuntu@ip-172-31-87-240.ec2.internal>
```
e7515773

[Distributed] Set the number of threads correctly to speed up (#1976) · b9ef70e5

Da Zheng authored Aug 08, 2020

* temp fix omp.

* set server threads.

* add CAPI to set up OMP threads.

* fix.

* fix.

* update namesapce.

* set cpi properly.

* allow to config num worker threads.

* set #threads.

* fix.

b9ef70e5

08 Aug, 2020 7 commits
- [Distributed] Fix the launch script. (#1977) · f0fbbc16
  Da Zheng authored Aug 08, 2020
```
* update launch script

* check the correctness of launch script.

* fix.
```
  f0fbbc16
- [Distributed] move feature copy to samplers in distributed GraphSage. (#1975) · 4b8eaf20
  Da Zheng authored Aug 08, 2020
```
* fix example.

* move feature copy to sampler.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-1.us-west-2.compute.internal>
```
  4b8eaf20
- [NN] Fix error message of GatedGraphConv (#1964) · f7ce48bc
  Quan (Andy) Gan authored Aug 08, 2020
```
Co-authored-by: Zihao Ye <expye@outlook.com>
```
  f7ce48bc
- Update train_sampling_unsupervised.py (#1973) · d34cbf31
  Mufei Li authored Aug 08, 2020
  
  d34cbf31
- [Distributed] Add roles (#1971) · 5454471f
  Da Zheng authored Aug 08, 2020
```
* distinguish roles.

* add comments.

* fix lint.

* move roles to server_state.

* fix text.

* fix tests.

* fix tests.

* Revert "fix tests."

This reverts commit 5baa136b872a4550d4e612bfb1dfe363d7814adf.
```
  5454471f
- [Distributed] Fix synchronized APIs in kvstore (#1948) · 2823c61f
  Da Zheng authored Aug 07, 2020
```
* handle synchronized API.

* fix.

* fix.

* fix.
Co-authored-by: Chao Ma <mctt90@gmail.com>
```
  2823c61f
- [Distributed] Fix dataloader (#1970) · bab32d5b
  Da Zheng authored Aug 07, 2020
```
* fix dataloader.

* initialize iterator of DistDataloader correctly.

* update test.
```
  bab32d5b
07 Aug, 2020 7 commits

[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

[bugfix] Fix dataloader bug in GAT PPI data example (#1966) · dcf46412

Xiangkun Hu authored Aug 08, 2020



* PPIDataset

* Revert "PPIDataset"

This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.

* fix dataloader bug
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com>
Co-authored-by: Zihao Ye <expye@outlook.com>

dcf46412

[hotfix] Refactor edge softmax module (#1967) · 18bfec24
Zihao Ye authored Aug 07, 2020
```
* upd

* upd

* upd

* upd

* upd

* upd

* upd

* upd
```
18bfec24
Remove duplicate code of deepwalk (#1965) · 3611a66e
xiang song(charlie.song) authored Aug 07, 2020
```
Co-authored-by: Ubuntu <ubuntu@ip-172-31-87-240.ec2.internal>
```
3611a66e

[Refactor] Enable new kernel in all message passing APIs (#1953) · 22167f72

Minjie Wang authored Aug 07, 2020

* WIP: frame refactor

* new frame

* simple update_all builtin

* move all subgraph routines into the same file

* sddmm & spmm schedule; node & edge udf

* degree bucketing

* some tricky 0deg corner cases

* bug in frame append

* merge test_hetero_basics and test_basics

* some code rearange

* fix test_heterograph

* add mean spmm

* enable all builtin combinations

* pass gpu test

* pass pytorch tests

* wip

* fix some pt debugging codes

* fix bug in mxnet backward

* pass all mxnet utests

* passed tf tests

* docstring

* lint

* lint

* fix broadcasting bugs

* add warning and clamp for mean reducer

* add test for zero-degree mean

* address comments

* lint

* small fix

22167f72

[Dataset] RedditDataset change data.train_mask to numpy array (#1961) · 5d5436ba

Xiangkun Hu authored Aug 07, 2020



* PPIDataset

* Revert "PPIDataset"

This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.

* Update reddit.py
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com>

5d5436ba

[HotFix] Fix add_reverse_edges (#1960) · 35c9473b
xiang song(charlie.song) authored Aug 07, 2020
```
* Hot fix

* more test
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>
```
35c9473b

06 Aug, 2020 5 commits

[Doc] Dataset api doc add save_info(), load_info() (#1954) · 3d837706

Xiangkun Hu authored Aug 06, 2020



* PPIDataset

* Revert "PPIDataset"

This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.

* update doc

* Update data.rst
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com>

3d837706

[Hot fix][Dataset] knowledge graph dataset statistics output (#1952) · 78651016
xiang song(charlie.song) authored Aug 06, 2020
```
* Hot fix

* Fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>
```
78651016
[Bug] Fix VRGCN with new dataset (#1955) · ba110e50
Quan (Andy) Gan authored Aug 06, 2020

ba110e50

[Doc] Fix some format issues in dataset api doc (#1951) · 13ea9ddb

Xiangkun Hu authored Aug 06, 2020



* PPIDataset

* Revert "PPIDataset"

This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.

* update doc
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>

13ea9ddb

fix (#1950) · cebf3364
Jinjing Zhou authored Aug 06, 2020

cebf3364