Commits · f62669b05c73395404d0eb281d7657fb0f84790a · OpenDAS / dgl

13 Feb, 2023 1 commit

enable sparse on windows and mac (#5277) · f62669b0

Quan (Andy) Gan authored Feb 13, 2023



* enable sparse on windows and mac

* that was stupid

* let's see what's going on..

* [Sparse] Fix the import error on Mac OS.

When using template functions that are defined in source files from DGL,
the loader of MacOS somehow cannot find their definitions. This fix simply
avoids depending on template functions from DGL headers.

With this fix, the sparse tests all pass on the MAC environment.

* ok this is the problem

* make errors clearer

* uh

* test

* Update __init__.py

* disabling ddp on windows

---------
Co-authored-by: czkkkkkk <zekucai@gmail.com>

f62669b0

01 Feb, 2023 1 commit

Cleanup mock_sparse related code. (#5230) · b3308ae7

Hongzhi (Steve), Chen authored Feb 01, 2023



* remove_mock_sparse_example

* mock_sparse_test

* remove_mock_sparse

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

b3308ae7

16 Jan, 2023 1 commit

[Sparse] Sparse matrix subtraction (#5164) · 27010dbc

Quan (Andy) Gan authored Jan 16, 2023



* use NotImplemented

* format

* sparse sub

* address comments

* lint

* Update elementwise_op_diag.py

* ugh
Co-authored-by: Rhett Ying <85214957+Rhett-Ying@users.noreply.github.com>

27010dbc

13 Jan, 2023 4 commits

[Sparse] Support sparse matrix dividing scalar (#5173) · acc567aa

Quan (Andy) Gan authored Jan 13, 2023



* use NotImplemented

* format

* extend to pytorch scalar

* sparse div scalar

* oops

* Apply suggestions from code review
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
Co-authored-by: Mufei Li <mufeili1996@gmail.com>

acc567aa

[Sparse] Refactor matmul interface. (#5162) · b5c5c860
czkkkkkk authored Jan 13, 2023
```
* [Sparse] Refactor matmul interface.

* Update
```
b5c5c860

[Sparse] Rename as_sparse to to_sparse, dense to to_dense. (#5170) · 9334421d

Hongzhi (Steve), Chen authored Jan 13, 2023



* as_sp_to_sp

* dense

* revert_mock

* test

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

9334421d

[Sparse] Make functions compatible with PyTorch scalar tensors (#5163) · 5f5db2df
Quan (Andy) Gan authored Jan 13, 2023
```
* use NotImplemented

* format

* extend to pytorch scalar

* reformat

* reformat

* lint
```
5f5db2df

12 Jan, 2023 2 commits
- [Sparse] Use NotImplemented to let Python dispatch types (#5160) · 8abf9d54
  Quan (Andy) Gan authored Jan 12, 2023
```
* use NotImplemented

* add TypeError tests

* format

* lint

* fix type

* fix docstring

* lint

* remove redundant condition
```
  8abf9d54
- [Sparse] Use efficient implementation for Diag @ Sparse and Sparse @ Diag. (#5147) · bff32a09
  czkkkkkk authored Jan 12, 2023
  
  bff32a09
08 Jan, 2023 1 commit

[DataLoader] Allow batch_size=None for GraphDataLoader (#4483) · 580c7024

Quan (Andy) Gan authored Jan 09, 2023

* overwrite default_collate_fn

* Update dataloader.py

* Update dataloader.py

* Update dataloader.py

* Update dataloader.py

* Update test_dataloader.py

* revert the test code being reverted in #4956

580c7024

06 Jan, 2023 4 commits
- [API Deprecation]Deprecate contrib module (#5114) · 56ffb650
  peizhou001 authored Jan 06, 2023
  
  56ffb650
- [Sparse] Remove SparseMatrix.indices and add device/dtype conversions (#5108) · c8bc5588
  Mufei Li authored Jan 06, 2023
```
* Update

* Update

* Update

* lint

* lint

* Update

* CI

* Update diag_matrix.py

* Update sparse_matrix.py

* Update sparse_matrix.py
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
Co-authored-by: Hongzhi (Steve), Chen <chenhongzhi.nkcs@gmail.com>
```
  c8bc5588
- deprecate candidates in dataloader (#5117) · c55ab2d1
  peizhou001 authored Jan 06, 2023
  
  c55ab2d1
- [API Deprecation]Deprecate candidates in dgl.distributed (#5116) · 3a2a5031
  peizhou001 authored Jan 06, 2023
  
  3a2a5031
03 Jan, 2023 3 commits

[Sparse] Polish sparse matrix creation functions (#5093) · 9169fc35

Mufei Li authored Jan 03, 2023



* update

* Update

* Update

* Update

* Update
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>

9169fc35

[Sparse] Use Pytorch dense computation in SpMM tests (#5096) · 0698e91a
czkkkkkk authored Jan 03, 2023

0698e91a

[NN] Add SpatialEncoder and SpatialEncoder3d (#4991) · cd817a1a

ZhenyuLU_Heliodore authored Jan 03, 2023



* Add SpatialEncoder and SpatialEncoder3d

* Optimize the code execution efficiency

* Fixed certain problems according to Dongyu's suggestions.

* Fix an error about probability of division by zero in PathEcoder; Change certain designs in SpatialEncoder

* Fix a typo

* polish the docstring

* fix doc

* lint
Co-authored-by: Ubuntu <ubuntu@ip-172-31-14-146.ap-northeast-1.compute.internal>
Co-authored-by: rudongyu <ru_dongyu@outlook.com>

cd817a1a

29 Dec, 2022 3 commits

[Sparse] Namespace migration and doc update (#5088) · 37bd0925

Mufei Li authored Dec 29, 2022



* update

* lint

* lint

* comments
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>

37bd0925

[Sparse] New print for SparseMatrix and DiagMatrix (#5085) · 255ad1b3
Minjie Wang authored Dec 29, 2022
```
* new print func

* lintrunner
```
255ad1b3

[Sparse] Add tests for sparse examples; Migrate from mock_sparse to mock_sparse2 (#5073) · 025e4321

Minjie Wang authored Dec 29, 2022



* pass gcn

* example tests

* pass gcnii, hgnn, sgc, sign

* black

* test file

* add torchmetrics

* migrate appnp, c_and_s, twirls

* fix style

* minor fix

* fix hypergraphatt and twirls

* pass gat

* fix torchmetric

* lintrunner
Co-authored-by: Mufei Li <mufeili1996@gmail.com>

025e4321

28 Dec, 2022 3 commits

[Sparse] Support BSpMM and BSDDMM (#5079) · 14429df6

czkkkkkk authored Dec 28, 2022

* [Sparse] Support BSpMM and BSDDMM

* Update SpMM and SDDMM error messages

* Use TORCH_CHECK

* Update error string

14429df6

[Sparse] Add coalesce and has_duplicate to SparseMatrix (#5071) · fa5ff2fc

Minjie Wang authored Dec 28, 2022

* add coalesce() and has_duplicate()

* Add duplicate check in spspmm

* black

* fix

* clang-format

* lintrunner

* minor fix

* fix

fa5ff2fc

[Sparse] Elementwise multiplication of a SparseMatrix object by a scalar (#5076) · 8c3e7830
Mufei Li authored Dec 28, 2022
```
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
```
8c3e7830

27 Dec, 2022 1 commit

[Sparse] Softmax based on Reduction and BroadcastOp (#5067) · 0f1bcd99

Mufei Li authored Dec 27, 2022



* Update

* update

* Update

* Update

* Update

* format

* Update

* lint

* Update

* lint

* CI

* CI

* Update

* address comments
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>

0f1bcd99

24 Dec, 2022 1 commit

[Sparse] Add SpSpMM for sparse-sparse and sparse-diag matrix multiplication. (#5050) · 0159c3c1

czkkkkkk authored Dec 24, 2022



* [Sparse] Add SpSpMM

* Update matmul interface

* address comments

* fix test utils to generate only coalesced matrices

* fix linter

* fix ut

* fix

* rm print
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>

0159c3c1

22 Dec, 2022 1 commit

[Sparse] Sparse matrix reduction Python part (#5013) · f0ce2bea

Quan (Andy) Gan authored Dec 22, 2022



* initial commit

* lint

* rename

* address comments

* add doctests

* address comments

* remove additional test

* add description

* lint

* lint

* lint

* Update test_reduction.py
Co-authored-by: Hongzhi (Steve), Chen <chenhongzhi.nkcs@gmail.com>

f0ce2bea

21 Dec, 2022 2 commits
- [Sparse] Fix SpMM and SDDMM test precision problem (#5060) · 56ce60b0
  czkkkkkk authored Dec 21, 2022
  
  56ce60b0
- [Sparse] Support SpMM and SDDMM (#5032) · 1f2fcae3
  czkkkkkk authored Dec 21, 2022
```
* [Sparse] Support SpMM and SDDMM

* Add SDDMMAutoGrad

* Rename SpMMImpl and SDDMMImpl and move them to dgl_sparse/src/matmul.h

* Update comments

* Update

* Minor fix
```
  1f2fcae3
20 Dec, 2022 1 commit

[Sparse] Add Two Sparse Matrices with Different Sparsity, DiagMatrix.dense,... · 11e61905

Mufei Li authored Dec 20, 2022


[Sparse] Add Two Sparse Matrices with Different Sparsity, DiagMatrix.dense, Add SparseMatrix and DiagMatrix (#5044)

* Update

* undo wrong edit

* lint

* fix import

* Update
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>

11e61905

15 Dec, 2022 1 commit
- [Sparse] Elementwise ops for DiagMatrix and Elementwise Power for SparseMatrix (#5024) · 354a2110
  Mufei Li authored Dec 15, 2022
```
* Update

* Update

* lint

* CI

* Update
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
```
  354a2110
12 Dec, 2022 2 commits
- Revert "[Sparse] Add SpMM and SDDMM." (#5014) · d02e560e
  czkkkkkk authored Dec 12, 2022
```
* Revert "[Sparse] Add SpMM and SDDMM. (#4999)"

This reverts commit 15365d78.

* lint
```
  d02e560e
- [Sparse] Add SpMM and SDDMM. (#4999) · 15365d78
  czkkkkkk authored Dec 12, 2022
```
* [Sparse] Add SpMM and SDDMM

* Update

* Add CSR and CSC SpMM tests
```
  15365d78
09 Dec, 2022 1 commit

[Sparse] Misc fix for existing elementwise ops (#5003) · e01580d3

Mufei Li authored Dec 09, 2022



* Update

* Update

* Update

* Update

* update

* lint

* CI

* CI

* CI
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>

e01580d3

07 Dec, 2022 2 commits

Add Graph Transformer Layer (Dense Computation) (#4959) · 279e2e8f

Zhiteng Li authored Dec 07, 2022



* Add GraphTransformerLayer (dense)

* beautify the python code with black

* refine according to mufei's comments

* fix AttributeError in unit test

* rename module as GraphormerLayer

* fix name issue
Co-authored-by: Mufei Li <mufeili1996@gmail.com>

279e2e8f

Update (#4997) · a80bd9e0

Mufei Li authored Dec 07, 2022


Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>

a80bd9e0

05 Dec, 2022 2 commits

[Sparse] neg and inv (#4980) · 97fbd94d

Mufei Li authored Dec 05, 2022



* Update

* update
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>

97fbd94d

[NN] Add PathEncoder (#4956) · 93ecfa31

ZhenyuLU_Heliodore authored Dec 05, 2022



* Add PathEncoder to transformer.py

* add blank line at the and

* rename variabl sp to shortest_path

* Fixed corresponding problems

* Fixed certain bugs when running on CUDA

* changed clamp min from 0 to 1
Co-authored-by: Ubuntu <ubuntu@ip-172-31-14-146.ap-northeast-1.compute.internal>
Co-authored-by: Mufei Li <mufeili1996@gmail.com>

93ecfa31

01 Dec, 2022 1 commit
- [Sparse] Add val_like and Disable Setting Nonzero Values (#4972) · e088acac
  Mufei Li authored Dec 01, 2022
```
* Update

* Update
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
```
  e088acac
29 Nov, 2022 1 commit
- [Sparse] Add SparseMatrix transposition (#4940) · 60b02f2f
  czkkkkkk authored Nov 29, 2022
  
  60b02f2f
28 Nov, 2022 1 commit
- [Test] Fix duplicate seed generation in unit test (#4961) · e0fc038d
  Quan (Andy) Gan authored Nov 28, 2022
```
* fix unit test

* oops
```
  e0fc038d