Da Zheng
6e7f19f27b
[Distributed] add distributed in-degree and out-degree. ( #2918 )
...
* add distributed in-degree and out-degree.
* update comments.
* fix a bug.
* add tests.
* add tests.
* fix a bug.
* fix docstring.
* update doc.
* fix
* fix.
Co-authored-by: Zheng <dzzhen@3c22fba32af5.ant.amazon.com >
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2021-05-18 19:46:09 +08:00
Quan (Andy) Gan
657c220de7
[Feature] Python interface for adjacency matrix summation and multiplication ( #2893 )
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* test commit
* fixes
* oops
* add docs
* lint
* why does it say I have a trailing whitespace
* oh ok
* fixes
* why there's an invalid argument error
* address comments
* fix
* address comments
2021-05-17 19:47:02 +08:00
kyawlinoo
b03077b60d
[NN] GCNII model added < https://arxiv.org/pdf/2007.02133.pdf > ( #2874 )
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* Auto stash before rebase of "origin/pytorch-nn-working"
GCNII model added
* linting
* linting
* lint
* Frequency Adaptive gcn init comit
* Revert "Frequency Adaptive gcn init comit"
This reverts commit 86a80586accoin2028@hotmail.com >
* added beta formula and changed param name
* fix docstring
* lint
* white space lint
* update docstring
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
* docstring formula update
* added gcn2
* added GCN2Conv
* Update nn.pytorch.rst
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-05-17 10:25:59 +08:00
Quan (Andy) Gan
caa6d6072c
[Feature] Replacing thread_wrapped_func with minimal mp.Process wrapper ( #2905 )
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* standardizing thread_wrapped_func
* lints
* Update __init__.py
2021-05-14 11:34:49 +08:00
YYY
c18f957d0e
[Model] add implementation of twirls ( #2770 )
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* add implementation of twirls
* format the code
* fix some format error, and ignore others
* fix format errors
* fix format errors
* expose unfolding & attention
* Update nn.pytorch.rst
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-05-11 09:58:48 +08:00
xiang song(charlie.song)
975eb8fc5d
[Distributed] Distributed node embedding and sparse optimizer ( #2733 )
...
* Draft for sparse emb
* add some notes
* Fix
* Add sparse optim for dist pytorch
* Update test
* Fix
* upd
* upd
* Fix
* Fix
* Fix bug
* add transductive exmpale
* Fix example
* Some fix
* Upd
* Fix lint
* lint
* lint
* lint
* upd
* Fix lint
* lint
* upd
* remove dead import
* update
* lint
* update unitest
* update example
* Add adam optimizer
* Add unitest and update data
* upd
* upd
* upd
* Fix docstring and fix some bug in example code
* Update rgcn readme
Co-authored-by: Ubuntu <ubuntu@ip-172-31-57-25.ec2.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-24-210.ec2.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-66.ec2.internal >
2021-05-03 08:37:40 +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
Quan (Andy) Gan
99751d4960
[Doc] Rename block to message flow graph ( #2702 )
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* rename block to mfg
* revert
* rename
2021-02-25 18:26:19 +08:00
Minjie Wang
8a07ab7737
[Doc] Tutorials re-organization ( #2683 )
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* 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 )
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* 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
3a19bbc508
fix doc ( #2604 )
2021-02-02 11:04:43 +08:00
Minjie Wang
4ca706e1b4
[Doc] Update doc of dgl.function ( #2585 )
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* update doc of dgl.function
* small fix
2021-01-28 16:32:18 +08:00
Zihao Ye
7bab1365e2
[feature] Supporting half precision floating data type (fp16). ( #2552 )
...
* add tvm as submodule
* compilation is ok but calling fails
* can call now
* pack multiple modules, change names
* upd
* upd
* upd
* fix cmake
* upd
* upd
* upd
* upd
* fix
* relative path
* upd
* upd
* upd
* singleton
* upd
* trigger
* fix
* upd
* count reducible
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* only keep related files
* upd
* upd
* upd
* upd
* lint
* lint
* lint
* lint
* pylint
* upd
* upd
* compilation
* fix
* upd
* upd
* upd
* upd
* upd
* upd
* upd doc
* refactor
* fix
* upd number
Co-authored-by: Zhi Lin <linzhilynn@gmail.com >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-42-78.us-east-2.compute.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-21-156.us-east-2.compute.internal >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-01-28 11:21:58 +08:00
xiang song(charlie.song)
a7e941c379
[Feature] Add support for sparse embedding ( #2451 )
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* Add sparse embedding for dgl and update rgcn example
* upd
* Fix
* Revert "Fix"
This reverts commit 4da87cdfb8ubuntu@ip-172-31-56-220.ec2.internal >
2021-01-28 00:26:49 +08:00
Tong He
0855d25501
[NN] Support scalar edge weight for GraphConv, SAGEConv and GINConv ( #2557 )
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* add edge weight in forward
* fix lint
* fix
* fix
* address comments
* add utils
* add util to normalize in gcn way
* fix lint
* add unittest
* fix lint
* fix docstring
* fix docstring
* address comments
* improve notation consistence
* use preferred fn
2021-01-26 23:34:12 +08:00
Quan (Andy) Gan
6c23fba8fa
[Doc][Org] move edge_softmax to functional ( #2442 )
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* move edge_softmax to functional
* change examples
* fixes
* revert
* fix
* fix
* remove
* fix
* test
* add init
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-01-26 12:46:37 +08:00
Quan (Andy) Gan
2288098ba6
[Feature] Converting a block to a graph and allow block construction ( #2555 )
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* first commit
* more commit
* fix and docstring
* add to api reference
* address comments
* Update convert.py
2021-01-24 12:44:54 +08:00
xnouhz
2c6d071617
[Feature] QM9 Dataset Support ( #2521 )
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* [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
Da Zheng
1db7588739
fix. ( #2534 )
...
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-01-14 14:23:36 +08:00
Quan (Andy) Gan
e018939729
[Tutorial] New tutorials for small graphs ( #2482 )
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* 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
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
Zihao Ye
f960468f50
[feature] APIs for manually set batch_num_nodes and batch_num_edges ( #2430 )
...
* wip
* udp
* upd
* fix typo
* lint
* lint
* upd
* upd
* lint
* lint
* upd
* upd
* tftest
* fix
* fallback numpy
* fix tf
* docstring
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2021-01-04 23:43:58 +08:00
Zihao Ye
baace710cf
[documentation] Improve the docstring of global pooling layer ( #2437 )
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* upd
* fix-link
* lint
2020-12-21 10:12:54 +08:00
Zihao Ye
6b02babbad
[doc] Add docstring for segment reduce. ( #2375 )
2020-11-27 18:04:13 +08:00
Mufei Li
45e3e9af2c
[WIP] Misc Fix ( #2359 )
...
* Update
* Update
* Update
2020-11-19 23:54:55 +08:00
nv-dlasalle
6eda605ccd
[BugFix][Dataloading] Disable AsyncTransferer copying to anywhere but the GPU ( #2323 )
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* Disable copying for anywhere but the GPU
* Remove unused import and remove references to transferring from the GPU from the docs
* Skip gpu test in cpu mode
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2020-11-07 21:34:54 +08:00
nv-dlasalle
d453d72dd1
[Doc][Dataloading] Expand documentation of AsyncTransferer ( #2313 )
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* Update docs
* Make non-default streams non-blocking
2020-11-02 12:28:30 -08:00
nv-dlasalle
f673fc2553
[Dataloading] Add class for copying tensors to/from the GPU on a non-default stream ( #2284 )
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* Add async transferer class
* Add async ndarray copy interface
* Add python bindings
* Fix comment
* Add python class
* Fix linting issues
* Add python unit test
* Update python interface
* move async_transferer to cuda only directory
* Fix linting issue
* Move out of contrib
* Add doc strings
* Move test compute from backend
* Update comment
* Fix test naming
* Fix argument usage
* Wrap/unwrap backend parameters
* Move to dataloading
* Move to 'dataloading'
* Make GPU/CPU compatible
* Fix unit tests
* Add docs
* Use only backend interface for datamovement in unit test
2020-10-30 07:29:06 -07:00
Mufei Li
7a6d66682f
Update dgl.data.rst ( #2217 )
2020-09-21 10:15:24 +08:00
Mufei Li
877101a96b
[Doc] Update Doc for UDFs ( #2131 )
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* Update Doc for UDFs
* add degree bucketing explanation
* Update udf.rst
* Update
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2020-09-13 04:57:06 +08:00
Jinjing Zhou
0afacfb873
Fix create_format_ to create_formats ( #2184 )
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* Update dgl.DGLGraph.rst
* Update gcn.py
2020-09-12 14:44:30 +08:00
Zihao Ye
5bc029b99f
upd ( #2097 )
2020-08-23 21:25:31 +08:00
Minjie Wang
163398c036
Update dgl.DGLGraph.rst
2020-08-23 10:53:33 +08:00
Tianjun Xiao
7ead28c315
[Doc] [NN] Fix message and nn user guide link ( #2090 )
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* fix user guide link
* some fix on tensorflow
2020-08-22 00:18:22 +08:00
Xiangkun Hu
6f26cfcaec
[Doc] Fix links and references in dataset user guide ( #2085 )
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* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960
2020-08-21 21:09:26 +08:00
Minjie Wang
f13b9b6212
[Doc] Scan the API docs and make many changes ( #2080 )
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* WIP: api
* dgl.sampling, dgl.data
* dgl.sampling; dgl.dataloading
* sampling packages
* convert
* subgraph
* deprecate
* subgraph APIs
* All docstrings for convert/subgraph/transform
* almost all funcs under dgl namespace
* WIP: DGLGraph
* done graph query
* message passing functions
* lint
* fix merge error
* fix test
* lint
* fix
Co-authored-by: Quan Gan <coin2028@hotmail.com >
2020-08-20 23:26:49 +08:00
Da Zheng
9da1629c9d
[Distributed] Some small fixes on doc ( #2049 )
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* quick fix.
* update sparse optimizer.
* fix.
* fix
2020-08-18 21:13:19 -07:00
Da Zheng
75ffc31f76
[Doc] Update the docstring of distributed APIs. ( #2025 )
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* add doc.
* update DistGraph.
* add DistTensor.
* update DistEmbedding.
* add partition.py
* add sampling.
* fix.
* add graph partition book and create a base class.
* fix test.
* add rst.
* update doc rst.
* update.
* fix.
* fix docs
* update distributed tensor and embeddings.
* add checks.
* update DistGraph.
* update initialization.
* fix graph partition book.
* update graph partition book.
* update partition.
* update partition.
* fix.
* add example code.
* update DistGraph
* Update python/dgl/distributed/dist_context.py
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
* Update python/dgl/distributed/dist_context.py
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
* Update python/dgl/distributed/dist_dataloader.py
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
* Update python/dgl/distributed/dist_dataloader.py
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
* Update python/dgl/distributed/dist_dataloader.py
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
* update initialize.
* update dataloader.
* update distgraph.
* update DistGraph.
* update DistTensor.
* update.
* more updates.
* fix lint.
* add num_nodes and num_edges
Co-authored-by: Chao Ma <mctt90@gmail.com >
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2020-08-18 11:53:45 -07:00
Tianjun Xiao
65866989c0
[NN] [Doc] Fix nn api doc ( #2047 )
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* fix mxnet nn doc and no note on chebconv
* change notes to note to highlight
2020-08-18 23:47:16 +08:00
Mufei Li
be444e52d9
[Doc/Feature] Refactor, doc update and behavior fix for graphs ( #1983 )
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* 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 >
2020-08-18 04:26:29 +08:00
Jinjing Zhou
0afc3cf8e1
[NN] Add ChebConv for Tensorflow ( #2038 )
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* add chebconv
* fix
* lint
* fix lint
* docs
2020-08-17 22:12:27 +08:00
Quan (Andy) Gan
4f1da61b58
[Doc] fix inconsistencies in minibatch user guide ( #2032 )
2020-08-17 12:43:43 +08:00
Quan (Andy) Gan
1f7b219594
[Doc] User guide section 5 and 6 ( #2029 )
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* [Doc] User guide section 5 and 6
* oops
* fix
2020-08-17 09:47:01 +08:00
Xiangkun Hu
62e69b67aa
[Doc] Modify the link of save_graphs and load_graphs in dataset user guide ( #2027 )
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* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960
2020-08-15 09:21:08 +08:00
Jinjing Zhou
de2e608bb3
Update dgl.rst ( #2020 )
2020-08-14 18:18:45 +08:00
Xiangkun Hu
f4f78803cf
[Doc] Update links by :ref in dataset user guide ( #2024 )
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* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960
2020-08-14 17:28:54 +08:00
Quan (Andy) Gan
cd48435206
[Transform] Docstring and subframes ( #1962 )
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* update knn graph docs
* more docs
* [Doc] transform module docstrings
* remove copy_ndata and copy_edata
* fix
* lint
* fix
* fix
* fix
* clean up docstrings
* fix docstring
* dtype specifications
* addresses comments
* fix
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2020-08-13 10:41:43 +08:00
Tianjun Xiao
69f5869f3b
[Doc] NN doc refactor Conv Layers ( #1672 )
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* go through gcn, relgcn
* fix tagconv formula
* fix doc in sageconv
* fix sgconv doc
* replace hat with tilde
* more comments on gmmconv
* fix agnnconv chebconv doc
* modify nnconv doc
* remove &
* add nn conv examples
* Rebase master
* More merge conflicts
* check homo
* add back self loop for some convs, check homo in tranform
* add example for denseconv
* add example and doc for dotgat and cfconv
* check in-degree for graphconv
* add language fix
* gconv address all comments
* another round of change based on api template
* change agnn
* go through agnn, appnp, atomic, cf, cheb, dense, gat, sage modules
* finish pytorch part of nn conv
* mxnet graphconv done
* tensorflow graphconv works
* add new modules into doc
* add comments to not split code
* refine doc
* resr
* more comments
* more fix
* finish conv and dense conv part api
* pylint fix
* fix pylink
* fix pylint
* more fix
* fix
* fix test fail because zere in degree
* fix test fail
* sage is not update for mxnet tf
Co-authored-by: Ubuntu <ubuntu@ip-172-31-0-81.us-east-2.compute.internal >
2020-08-12 18:47:19 +08:00
