eca9b8ef08
allow for configuring default_dir ( #3277 )
...
* allow for configuring default_dir
* allow for using DGLDEFAULTDIR environment variable
* Update env_var.rst
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-08-26 17:32:16 +00:00
b1ffa231b2
add flag ( #3264 )
...
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-08-26 17:31:23 +00:00
731660d23e
fixed typos in docs and docstring ( #3231 )
...
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-08-20 02:41:21 +00:00
decd41fe18
[Doc] Fix WeightBasis documentation ( #3189 )
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* fix
* fix type
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-08-20 02:18:38 +00:00
a7473d5693
[Doc] Fix perf doc ( #3177 )
2021-08-20 02:12:23 +00:00
1be22df0d0
[Doc] Note for performance benchmarks ( #3152 )
...
Co-authored-by: Tong He <hetong007@gmail.com >
2021-07-21 11:07:51 +00:00
3f6f694159
[Bug fix] Various fix from bug bash ( #3133 )
...
* Update
* Update
* Update dependencies
* Update
* Update
* Fix ogbn-products gat
* Update
* Update
* Reformat
* Fix typo in node2vec_random_walk
* Specify file encoding
* Working for 6.7
* Update
* Fix subgraph
* Fix doc for sample_neighbors_biased
* Fix hyperlink
* Add example for udf cross reducer
* Fix
* Add example for slice_batch
* Replace dgl.bipartite
* Fix GATConv
* Fix math rendering
* Fix doc
Co-authored-by: Ubuntu <ubuntu@ip-172-31-28-17.us-west-2.compute.internal >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-22-156.us-west-2.compute.internal >
2021-07-15 09:17:15 +08:00
066bef21f0
[Doc] Fix CoraFull number of edges inconsistency in doc ( #3139 )
2021-07-14 15:06:57 +08:00
d7390763f0
[Distributed] Deprecate old DistEmbedding impl, use synchronized embedding impl ( #3111 )
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* fix.
* fix.
* fix.
* fix.
* Fix test
* Deprecate old DistEmbedding impl, use synchronized embedding impl
* update doc
Co-authored-by: Ubuntu <ubuntu@ip-172-31-71-112.ec2.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-66.ec2.internal >
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-07-14 00:15:53 +08:00
186ef59283
[Feature] apply dgl.reorder() onto several node classification datase… ( #3102 )
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* [Feature] apply dgl.reorder() onto several node classification datasets in DGL
* rebase on latest dgl.reorder_graph()
2021-07-13 08:52:17 +08:00
175f53decf
[Feature] enable edge reorder in dgl.reorder_graph() ( #3113 )
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* [Feature] enable edge reorder in dgl.reorder_graph()
* refine doc string
* refine doc string for dgl.reorder_graph
* refine doc string further
2021-07-12 14:11:46 +08:00
751685a979
[Doc] Add documentation for DGLGraph.adj_sparse ( #3096 )
...
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-07-07 11:24:47 +08:00
c372f0aed6
[doc] Expose dgl.partition APIs ( #3103 )
2021-07-06 12:17:56 +08:00
d3e4460b98
[Doc] Add docstring for missing APIs ( #3088 )
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* add docstring for missing API; fix some docstring
* rename apis; address comments
2021-07-05 18:40:07 +08:00
ced0e443c2
[Doc] Add user guide for GPU-based sampling ( #3070 )
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* add user guide for gpu sampling
* Update minibatch-gpu-sampling.rst
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-07-05 12:07:43 +08:00
4307fe8895
[Feature] Add dgl.reorder() to re-order graph according to specified … ( #3063 )
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* [Feature] Add dgl.reorder() to re-order graph according to specified strategy
* fix unit test failure for metis reorder
* fix unit test failure on mxnet_cpu
* refine unit test for dgl.reorder
* fix unit test failure on mxnet
* fix array_equal error for mxnet unit test
* fix unit test failure for mxnet
* convert metis output to numpy array explicitly
Co-authored-by: Tong He <hetong007@gmail.com >
2021-06-30 13:29:08 +08:00
61fba9da0f
[Doc] Add Node2Vec docstrings to documentation server ( #3068 )
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Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-06-29 22:29:10 +08:00
dad8751d29
[Doc] Add instructions for Windows users to install VC2015 redistributable ( #3071 )
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* add instructions for VC2015 redist install
* fix typo
2021-06-29 13:10:48 +08:00
789b03f433
[Doc] Add KNN Benchmark Results ( #3055 )
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* add knn benchmark result
* update
2021-06-28 16:13:56 +08:00
81456af8c5
[Doc] fix inconsistent variable names ( #3065 )
...
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-06-28 13:30:08 +08:00
ff519f98c3
[API] Standardize Subgraph APIs ( #2929 )
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* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Fix
* Update
* Fix subgraph tests
* Capture stdout for distributed test
* Capture stdout for distributed test
* Update
* Update
* Update
* Update subgraph.cc
Co-authored-by: Ubuntu <ubuntu@ip-172-31-28-17.us-west-2.compute.internal >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-06-21 19:53:37 +08:00
9706eaa895
[Feature] add permission information and fix import problems ( #3036 )
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* [Feature] add positive negative statistics
* [Feature] add permission information and fix import problem
* fix backend incompatible problem
* modify random split to remove sklearn usage
* modify file read to remove pandas usage
* add datasets into doc
* add random seed in data splitting
* add dataset unit test
* usage permission information update
Co-authored-by: zhjwy9343 <6593865@qq.com >
2021-06-21 11:55:15 +08:00
55e7796ac5
Revert "[Feature] add permission information and fix import problems ( #2998 )" ( #3029 )
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This reverts commit cba5b188b5VoVAllen@users.noreply.github.com >
2021-06-17 13:58:38 +08:00
cba5b188b5
[Feature] add permission information and fix import problems ( #2998 )
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* [Feature] add positive negative statistics
* [Feature] add permission information and fix import problem
* fix backend incompatible problem
* modify random split to remove sklearn usage
* modify file read to remove pandas usage
* add datasets into doc
Co-authored-by: zhjwy9343 <6593865@qq.com >
2021-06-16 18:24:17 +08:00
5be937a7fb
[Kernel] Slicing Batched Graphs ( #2965 )
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* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Add files via upload
* Add files via upload
* Add files via upload
* Add files via upload
* Update
* Update
* Add files via upload
* Add files via upload
* Update
* Lint
* Add files via upload
* Lint
* Update
* Update
* Update
* Update
* Update
* Lint Fix
* Lint
Co-authored-by: Ubuntu <ubuntu@ip-172-31-12-161.us-west-2.compute.internal >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2021-06-10 12:07:44 +08:00
a7fe461c1c
[Doc] Single-machine Multi-GPU node classification tutorial ( #2976 )
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* multi-GPU node classification tutorial
* Update 2_node_classification.py
* fixes
* elaborate a bit more
* address comments
* address comments
2021-06-08 10:28:02 +08:00
972a9f1323
[Doc] Re-organize the code for dgl.geometry, and expose it in the doc ( #2982 )
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* reorg and expose dgl.geometry
* fix lint
* fix test
* fix
2021-06-07 11:19:39 +08:00
895d6fff72
[Doc] changing of output dimension ( #2981 )
...
Co-authored-by: zhjwy9343 <6593865@qq.com >
2021-06-05 22:12:41 +08:00
b1628f2398
[Tutorial] Distributed node classification. ( #2969 )
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* add init version.
* fix build.
* fix format.
* fix.
* fix.
* fix format.
* update README.
* avoid running CI on distributed training tutorials.
* Update tutorials/dist/1_node_classification.py
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
* fix.
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2021-06-04 21:50:16 +08:00
6383e64937
[Doc] correct the matrix multiplication symbols ( #2961 )
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* correct the matrix multiplication symbols
* modified dimensionality of linear
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-06-03 08:51:23 +08:00
2ae190d690
[Doc] fix shape mismatch problem in user guide ( #2938 )
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Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-06-02 12:18:10 +08:00
09642d7c21
[Tutorial] Single Machine Multi-GPU Minibatch Graph Classification ( #2940 )
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* Update
* Update
* Update tutorials/multi/1_graph_classification.py
Co-authored-by: Tong He <hetong007@gmail.com >
* Update
* Update
* Update
Co-authored-by: Ubuntu <ubuntu@ip-172-31-4-21.us-west-2.compute.internal >
Co-authored-by: Tong He <hetong007@gmail.com >
2021-05-31 18:36:34 +08:00
6e7f19f27b
[Distributed] add distributed in-degree and out-degree. ( #2918 )
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* 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
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
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 86a80586ac0040497c1edfa0e80df719992dcc4a.
* Update python/dgl/nn/pytorch/conv/gcn2conv.py
modified docstring
Co-authored-by: Quan (Andy) Gan <coin2028@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
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
a90296aa9c
fix. ( #2907 )
...
Co-authored-by: Zheng <dzzhen@3c22fba32af5.ant.amazon.com >
2021-05-13 16:55:31 +08:00
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
5498cf051e
[Doc]Fix examples on negative graph sampler ( #2863 )
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* Fix examples on negative graph sampler
In heterogeneous graph, the old example may build a negative graph without edges. In dgl.dataloading.dataloader line637, it shows the key of neg_edges dict should be item in g.canonical_etypes.
* poke ci
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-05-06 21:34:31 +08:00
975eb8fc5d
[Distributed] Distributed node embedding and sparse optimizer ( #2733 )
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* 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
45ec21b033
[Distributed] fix docs for distributed training. ( #2840 )
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* update distributed training doc.
* explain data split.
* fix message passing.
* id mapping.
* fix.
* test data reshuffling.
* fix a bug.
* fix test.
* Revert "fix test."
This reverts commit 907f1dd88994894db94ffcd77b5995279f76b489.
* Revert "fix a bug."
This reverts commit ff0a4d893bbe4911a75ecb04bcbd9bc65315166b.
* Revert "test data reshuffling."
This reverts commit 99bb2f6405de67fc73652220b02e7184461c3e5e.
Co-authored-by: Zheng <dzzhen@3c22fba32af5.ant.amazon.com >
2021-04-29 14:38:41 +08:00
e36c5db614
[Distributed] Simplify distributed API ( #2775 )
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* remove num_workers.
* remove num_workers.
* remove num_workers.
* remove num-servers.
* update error message.
* update docstring.
* fix docs.
* fix tests.
* fix test.
* fix.
* print messages in test.
* fix.
* fix test.
* fix.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal >
2021-03-29 19:19:23 -07:00
1789972c4b
[Bugfix] add default value for BlockSampler ( #2771 )
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* [Bugfix] add default value for BlockSampler
* [Doc] modify user_guide description about MultiLayerDropoutSample
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-03-22 14:02:27 +08:00
17f863569e
fix ( #2744 )
2021-03-21 22:38:55 -07:00
a1f59c3b68
[Feature] QM9Edge Dataset Support ( #2704 )
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* [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
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
71d53d9eef
add thumbnails for tutorials ( #2695 )
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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
48a1794f85
[Doc] Fix the user guide for distributed partitioning. ( #2684 )
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* fix doc.
* explain the schema file.
* fix.
2021-02-22 18:59:15 -08:00
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
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
Konstantinos Vandikas