cfe6e70b7a
RGAT baseline for OGB-LSC node classification challenge ( #2810 )
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* RGAT baseline
* update links (data.dgl.ai hasn't refreshed yet)
* nvm still use dgl.ai domain
* descriptions
* actually it took less
* address comments
* stop worrying about cache
* update links
* oops
2021-04-05 18:21:18 +08:00
03482f0a4c
[NN] tf nn for edgeConv ( #2741 )
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* tf nn for edgeConv
* Auto stash before merge of "tf_working" and "origin/tf_working"
* clean up
* added test for edge_conv
* fix
* fix
* fix
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Quan Gan <coin2028@hotmail.com >
2021-03-25 13:44:07 +08:00
edf644633d
[performance] Optimize the association order of AXW in GraphSAGE. ( #2747 )
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* upd
* lint
* upd
* upd
* compatibility
* upd
* upd
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-03-19 01:41:33 +08:00
366cc7ebf3
[Pickle] Fix HeteroGraphConv pickle problem ( #2761 )
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* fix pickle problem
* lint
* add pickle tests
* fix
* fix
* fix
* fix
* fix for windows
2021-03-18 17:56:28 +08:00
09ef2c2c3d
[Doc] Add Pseudo Code for HeteroGraphConv ( #2729 )
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* Update
* Update
* Update
* Update
Co-authored-by: Ubuntu <ubuntu@ip-172-31-15-8.us-west-2.compute.internal >
2021-03-17 20:00:15 +08:00
3c8382f6b6
Fix typos in zero-in-degree ( #2750 )
2021-03-14 19:13:59 +08:00
7380d61eb9
[NN] Support Unidirectional Bipartite Graphs in CFConv ( #2674 )
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* Update
* update
* Update
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-03-03 16:35:07 +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
174dd18905
[hotfix] A bunch of fix for SetTransformer ( #2658 )
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* upd
* lint
* upd
* fix
* fix
* upd
* upd
* fix
* warning
* upd
* upd
2021-02-23 14:19:51 +08:00
453d358d2c
[Doc] Fix docs for sparse optimizer ( #2680 )
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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
dda103d9f6
Fix bug in EdgeConv implementation ( #2669 )
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* Update edgeconv.py
* update edgeconv to builtin
* add explanation on why ReLU is not there
* remove redundant code
2021-02-19 13:07:21 +08:00
0cbaa1fbcb
[Doc] Make the docstring of nn.glob more informative. ( #2649 )
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* upd
* fix weight and sum
* upd sortpool
2021-02-12 12:29:22 +08:00
9e630101a1
fix and lots of tests ( #2650 )
2021-02-12 11:40:05 +08:00
3ca52b1e59
[Fix] Various Fix after Bug Bash ( #2620 )
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* update
* Misc fix
* Update
2021-02-05 17:34:16 +08:00
23afe911b2
[Bug Fix] Fix several sparse optimizer bugs ( #2596 )
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* Fix pytorch TCP kvstore bug
* lint
* Fix
* upd
* Fix lint
* Fix
* trigger
* fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-56-220.ec2.internal >
2021-02-05 11:49:41 +08:00
1f6eba9ed3
[Bug] Heterogeneous graph convolution bugfix ( #2578 )
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* fix heterograph conv
* remove test cases
* fix test
* fix test
* fix test
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-01-29 09:30:19 +08:00
e4ddafe951
[NN] add multihead in DotGatConv ( #2549 )
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* add multihead in DotGatConv
* Fix spacing issue
* Add Unit test for dotgat
* Modified Unit test for dotgat
* Add transformer like divisor
* Update dotgatconv.py
Co-authored-by: Chen <chesirui@3c22fbe5458c.ant.amazon.com >
Co-authored-by: Zihao Ye <expye@outlook.com >
2021-01-28 21:05:10 +08:00
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 4da87cdfb8b8c3506b7fc7376cd2385ba8045c2a.
* Fix
* upd
* upd
* Fix
* Add unitest and update impl
* fix
* Clean up rgcn example code
* upd
* upd
* update
* Fix
* update score
* sparse for sage
* remove model sparse
* upd
* upd
* remove global norm
* revert delete model_sparse.py
* update according to comments
* Fix doc
* upd
* Fix test
* upd
* lint
* lint
* lint
* upd
* upd
* clean up
Co-authored-by: Ubuntu <ubuntu@ip-172-31-56-220.ec2.internal >
2021-01-28 00:26:49 +08:00
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
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
bedccc2392
fix 2532 ( #2533 )
2021-01-14 13:40:25 +08:00
54f186bba0
Fix ( #2524 )
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Co-authored-by: Ubuntu <ubuntu@ip-172-31-59-204.ec2.internal >
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-01-13 15:09:21 +08:00
498505bafb
[Doc] fix docserver build for tutorials ( #2518 )
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* fix doc build
* hide GPU code
2021-01-12 17:55:58 +08:00
d3c1645550
[Performance][Test] New low memory implementation for RGCN and related regression tests ( #2468 )
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* WIP
* finish lowmem impl; benchmarking
* wip
* wip
* fix benchmarks
* fix bug in searchsorted
* update readme
* update
* lint and ogb dependency
* add flags to to_homogeneous
* fix docstring
* address comments
2021-01-04 22:23:59 +08:00
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
492ad9be81
[Fix] Avoid Overloading Nonzero for PyTorch Backend ( #2434 )
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* Update gatedgraphconv.py
* Update entity_classify.py
* Update data-process.rst
* Update reading_data.py
* Update data-process.rst
* Update utils.py
* Update knowledge_graph.py
* Update entity_classify.py
* Update rdf.py
* Update entity_classify_mb.py
* Update test_classify.py
* Update tensor.py
* Update sparse.py
* Update entity_classify_mp.py
* Update 6_line_graph.py
2020-12-20 13:12:17 +08:00
013d145663
[NN] Attention Retrieval for NN Modules ( #2397 )
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* Update
* Update
2020-12-07 23:42:25 +08:00
45e3e9af2c
[WIP] Misc Fix ( #2359 )
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* Update
* Update
* Update
2020-11-19 23:54:55 +08:00
812f597096
Update appnpconv.py ( #2324 )
2020-11-10 15:37:30 +08:00
6b0d42db15
Fix typo ( #2235 )
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Co-authored-by: Chao Ma <mctt90@gmail.com >
2020-09-25 16:40:22 +08:00
0435b74c48
[Hotfix] Fix layer norm ( #2119 )
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* hotfix
* Fix Layer Norm
Co-authored-by: Ubuntu <ubuntu@ip-172-31-87-240.ec2.internal >
2020-08-28 11:20:33 +08:00
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
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
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
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
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
b1e69105d4
[Doc] API Doc update for mxnet and tf, remove some degree check ( #2028 )
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* mx tf relconv
* use method instead of private attr
* src and dst have different fc for gat
* update edgeconv
* change sage and sgconv
* no degree check on gin
* add remainding API doc
* fix pylint
* infer fc_src and fc_dst, only one tensor for block
* fix pytest
2020-08-17 13:23:44 +08:00
2fa7f71ad5
[Doc] new nn api doc ( #2019 )
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* Add dotproduct attention
* [Feature] Add dotproduct attention
* [Feature] Add dotproduct attention
* [Feature] Add dotproduct attention
* [New] Update landing page
* [New] Update landing page
* [New] Update landing page
* [Doc] Update landing page
* [Doc] Update landing page
* [Doc] Update landing page
* [Doc] Update landing page
* [Doc] Update landing page
* [Doc] Update landing page
* [Doc] Update landing page
* [Doc] Update landing page
* [Improvement] use dgl build-in in dotgatconv
* [Doc] review API doc string bottom up
* [Doc] Add doc of input and output features
* [Doc] Update doc string for pooling and transformer.
* [Doc] Reformat doc string and change some wordings.
* [Doc] Doc string refactoring.
* [Doc] Doc string refactoring.
* [Doc] Doc string refactoring.
* [Doc] Doc string refactoring.
* [Doc] Doc string refactoring.
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2020-08-14 18:00:38 +08:00
4672c022a8
[hotfix] no in-degree check on sage ( #2014 )
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* no degre check on sage
* fix pytest
* no in degree check for heteroconv
2020-08-13 13:11:55 +08:00
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
4ef01dbb05
[Example] Rgcn support ogbn-mag dataset. ( #1812 )
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* 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 >
2020-08-09 15:56:15 +08:00
f7ce48bcd4
[NN] Fix error message of GatedGraphConv ( #1964 )
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Co-authored-by: Zihao Ye <expye@outlook.com >
2020-08-08 23:01:07 +08:00
18bfec24cf
[hotfix] Refactor edge softmax module ( #1967 )
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* upd
* upd
* upd
* upd
* upd
* upd
* upd
* upd
2020-08-07 23:50:12 +08:00
56339b34bf
[Fix] Update ogb examples according to new API. ( #1922 )
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* upd
* upd
Co-authored-by: Ubuntu <ubuntu@ip-172-31-29-3.us-east-2.compute.internal >
2020-08-03 23:08:50 +08:00
34a067eaa0
[bugfix] Fix the memory leak issue of Cluster GAT under 0.5 kernel and simplify the bipartite GAT. ( #1908 )
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* uipd
* upd
* upd
* upd
* upd
2020-08-02 00:59:27 +08:00
f4608c2227
[CUDA][Kernel] A bunch of int64 kernels for COO and CSR ( #1883 )
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* COO sort
* COOToCSR
* CSR2COO
* CSRSort; CSRTranspose
* pass all CSR tests
* lint
* remove int32 conversion
* fix tensorflow nn tests
* turn on CI
* fix
* addreess comments
2020-07-30 21:02:07 +08:00
2b8eb5be6f
[refactor] Move spmm and sddmm operators to operator module ( #1873 )
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* upd
* upd
* upd
* upd
2020-07-28 18:39:12 +08:00
44089c8b4d
[Refactor][Graph] Merge DGLGraph and DGLHeteroGraph ( #1862 )
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* 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 >
2020-07-28 14:30:41 +08:00
ec2e24be6d
[Feature] Slice dstnode features in NN modules ( #1838 )
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* slice dstdata from srcdata within nn module
* a bunch of fixes
* add comment
* fix gcmc layer
* repr for blocks
* fix
* fix context
* fix
* do not copy internal columns
* docstring
2020-07-25 21:57:49 +08:00
f25b1a064d
[Feature] Autograd of gspmm and gsddmm on PyTorch/MXNet/Tensorflow ( #1680 )
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* init
* reverse(by minjie
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* gpu
* upd
* upd
* upd
* upd
* udp
* upd
* upd
* imidiot
* fix
* upd
* upd
* upd
* udp
* upd
* upd
* fix
* udp
* upd
* upd
* upd
* upd
* upd
* fix
* remove redundency
* upd
* upd
* upd
* cache
* upd
* upd
* upd
* upd
* upd
* udp
* upd
* trigger
* upd
* fix
* upd
* unused import
* upd
* upd
2020-07-13 23:21:22 +08:00
Quan (Andy) Gan