4ef01dbb05
[Example] Rgcn support ogbn-mag dataset. ( #1812 )
...
* 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
4b8eaf205b
[Distributed] move feature copy to samplers in distributed GraphSage. ( #1975 )
...
* fix example.
* move feature copy to sampler.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-1.us-west-2.compute.internal >
2020-08-08 09:19:09 -07:00
d34cbf3180
Update train_sampling_unsupervised.py ( #1973 )
2020-08-08 17:21:15 +08:00
264d96cdf5
[bugfix] Fix a bunch of examples to be compatible with dgl 0.5 ( #1957 )
...
* 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 >
2020-08-08 01:31:23 +08:00
dcf464121b
[bugfix] Fix dataloader bug in GAT PPI data example ( #1966 )
...
* 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 >
2020-08-08 00:23:32 +08:00
3611a66e06
Remove duplicate code of deepwalk ( #1965 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-87-240.ec2.internal >
2020-08-07 18:18:24 +08:00
ba110e50e6
[Bug] Fix VRGCN with new dataset ( #1955 )
2020-08-06 17:54:24 +08:00
cebf3364e2
fix ( #1950 )
2020-08-06 16:27:28 +08:00
3fa8d7552b
[Example] Remove duplicated edges in RRN Sudoku example ( #1946 )
...
* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.
* remove duplicate edges
* Update README.md
2020-08-06 12:28:11 +08:00
f9bde91fbd
[hotfix] Remove dead code ( #1942 )
...
* Remove dead code
* Fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-08-05 23:16:46 +08:00
4f499c7ffb
[Distributed] DistDataloader ( #1901 )
...
* 111
* 111
* fix
* 111
* fix
* 11
* fix
* lint
* Update __init__.py
* lint
* fix
* lint
* fix
* fix
* fix
* fix
* fix
* try fix
* try fix
* fix
* Revert "fix"
This reverts commit a0b954fd4e99b7df92b53db8334dcb583d6e1551.
* fixes.
* fix.
* fix test.
* fix exit.
* fix.
* fix
* fix
* lint
* lint
* lint
* fix
* Update .gitignore
* 111
* fix
* 111
* 111
* fff
* 1111
* 111
* 1325315
* ffff
* f???
* fff
* 1111
* 111
* fix
* 111
* asda
* 1111
* 11
* 123
* 啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊
* spawn
* 1231231
* up
* 111
* fix
* fix
* Revert "fix"
This reverts commit 7373f95312fdcaa36d2fc330bf242339e89c045d.
* fix
* fix
* 1111
* fix
* fix tests
* start kvclient as early as possible.
* lint
* fix test
* lint
* 1111
* fix
* fix
* 111
* fix
* fix
* 1
* fix
* fix
* lint
* fix
* lint
* lint
* remove quit
* fix
* lint
* fix
* fix several
* lint
* fix minor
* fix
* lint
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2020-08-05 17:43:17 +08:00
929c99ed96
[Model] Rewrite GraphSAGE example ( #1938 )
2020-08-05 16:45:17 +08:00
1232961e07
Fix timing ( #1930 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-08-04 23:41:10 +08:00
fae26dd15c
[API] remove the expand_as_pair call ( #1929 )
2020-08-04 19:28:39 +08:00
451ed6d836
[Dataset] SBMMixtureDataset ( #1920 )
...
* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.
* SBMMixture dataset
* Update sbm.py
* fix example
* Update sbm.py
* Revert "Update sbm.py"
This reverts commit 066db5c89bd5e159981ae7cad1bfb883ea5db71d.
* Update sbm.py
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2020-08-04 15:06:53 +08:00
4a8cc48981
fix bugs ( #1885 )
...
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2020-08-04 09:10:51 +08:00
ca5a13fe49
[hotfix] Replace request_format and related APIs with create_format_ ( #1924 )
...
* upd
* upd
* upd
* upd
2020-08-04 00:05:40 +08:00
2c141229d5
[Dataset] RedditDataset ( #1914 )
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* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.
* RedditDataset
* Update reddit.py
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2020-08-03 23:49:22 +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
001d793711
[Dataset] SSTDataset ( #1918 )
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* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.
* SSTDataset
* Update tree.py
2020-08-03 19:15:28 +08:00
a4c931a9bf
[Distributed] Support multiple servers ( #1886 )
...
* client init graph on the backup servers.
* fix.
* test multi-server.
* fix anonymous dist tensors.
* check #parts.
* fix init_data
* add multi-server multi-client tests.
* update tests in kvstore.
* fix.
* verify the loaded partition.
* fix a bug.
* fix lint.
* fix.
* fix example.
* fix rpc.
* fix pull/push handler for backup kvstore
* fix example readme.
* change ip.
* update docstring.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-1.us-west-2.compute.internal >
2020-08-02 19:50:34 -07:00
9bcce7bead
[Dataset] PPIDataset ( #1906 )
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* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.
* Revert "Revert "PPIDataset""
This reverts commit 6938a4cbe3ac6e38d3e0188b5699e5c952a6102e.
* update doc string
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2020-08-03 00:30:01 +08:00
4f7bd0d0fb
[Example] Cluster Sage for ogb ( #1850 )
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* Cluster-Sage
* Fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-34-186.ec2.internal >
Co-authored-by: Zihao Ye <expye@outlook.com >
2020-08-03 00:04:05 +08:00
56bbf9cb6d
[Distributed][Example] Distributed training for unsupervised graphsage ( #1853 )
...
* Standalone can run
* fix
* Add save
* Fix
* Fix
* Fix
* Fix
* debug
* test
* test
* Fix
* Fix
* log
* Fix
* fix
* Profile
* auto sync grad
* update
* add test for unsupervised dist training
* upd
* Fix lr
* Fix update
* sync
* fix
* Revert "fix"
This reverts commit d5caa7398b36125f6d6e2c742a95c6ff4298c9e9.
* Fix
* unsupervised
* Fix
* remove debug
* Add test case for dist_graph find_edges()
* Fix
* skip tensorflow test for find_edges
* Update readme
* remove some test
* upd
* Update partition_graph.py
Co-authored-by: Ubuntu <ubuntu@ip-172-31-68-185.ec2.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-24-210.ec2.internal >
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
2020-08-01 12:24:55 -07:00
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
b347590a37
[Dataset] Citation graph ( #1902 )
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* citation graph
* GCN example use new citatoin dataset
* mxnet gat
* triger
* Fix
* Fix gat
* fix
* Fix tensorflow dgi
* Fix appnp, graphsage for mxnet
* fix monet and sgc for mxnet
* Fix tagcn
* update sgc, appnp
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-08-01 19:25:50 +08:00
4be4b13424
[Distributed] add copy_partitions.py ( #1866 )
...
* fix bugs.
* eval on both vaidation and testing.
* add script.
* update.
* update launch.
* make train_dist.py independent.
* update readme.
* update readme.
* update readme.
* update readme.
* generate undirected graph.
* rename conf_file to part_config
* use rsync
* make train_dist independent.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-1.us-west-2.compute.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-115.us-west-2.compute.internal >
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2020-07-31 11:11:56 -07:00
8b64037eea
[Example] cluster-gat for ogb ( #1875 )
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* cluster-gat for ogb
* Fix new graph
* Inference using minibatch style
* update readme
* Update params
Co-authored-by: Ubuntu <ubuntu@ip-172-31-34-186.ec2.internal >
Co-authored-by: Zihao Ye <expye@outlook.com >
2020-08-01 00:09:15 +08:00
dbb028acc8
[Dataset] Builtin knowledge graph dataset ( #1881 )
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* buildin knowledge graph dataset
* upd
* docstring
* Fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
Co-authored-by: Tong He <hetong007@gmail.com >
2020-07-30 23:37:33 +08:00
68a978d4de
[Model] Fixes JTNN for 0.5 ( #1879 )
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* jtnn and fixes
* make metagraph a method
* fix test
* fix
2020-07-30 13:36:08 +08:00
aee1067941
[Dataset] RDF dataset with DGL-Dataset template ( #1869 )
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* update rdf builtin dataset
* Fix
* use new dataset
* fix
* rdf dataset using new framework
* tf work
* Fix mxnet
* Fix tensorflow
* Fix mxnet
* Update
* upd
* update some docstring
* clean some dead code
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-07-30 09:12:00 +08:00
15411d932c
[Example] Fix some example after graph refactor. ( #1884 )
...
* Update cluster GCN README
We do not need to build metis right now.
We can use builtin metis.
* Fix gcmc mxnet
* Fix graphwriter
Co-authored-by: Ubuntu <ubuntu@ip-172-31-68-185.ec2.internal >
2020-07-29 22:07:47 +08:00
44089c8b4d
[Refactor][Graph] Merge DGLGraph and DGLHeteroGraph ( #1862 )
...
* 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
bcb988bdea
[Distributed] Small fix on launch script ( #1867 )
...
* update
* update
* update
* update
2020-07-27 13:44:14 +08:00
ec2e24be6d
[Feature] Slice dstnode features in NN modules ( #1838 )
...
* 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
0fb615b9a6
[Example] Several updates on deepwalk ( #1845 )
...
* fix bug
* fix bugs
* add args
* add args
* fix bug
* fix a typo
* results
* results
* results
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2020-07-22 23:26:30 +08:00
562871e76b
[Distributed] add distributed evaluation. ( #1810 )
...
* add eval.
* extend DistTensor.
* fix.
* add barrier.
* add more print.
* add more checks in kvstore.
* fix lint.
* get all neighbors for eval.
* reorganize.
* fix.
* fix.
* fix.
* fix test.
* add reuse_if_exist.
* add test for reuse_if_exist.
* fix lint.
* fix bugs.
* fix.
* print errors of tcp socket.
* support delete tensors.
* fix lint.
* fix
* fix example
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-1.us-west-2.compute.internal >
2020-07-22 00:40:14 -07:00
523fa4dfc2
Adding MWE-GCN for ogb/ogbn-proteins ( #1803 )
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* 07132020_cleaned
* Update README.md
* Create README.md
* Update README.md
* Update README.md
* further cleaning
* further cleaning
* Update README.md
* Update README.md
* Update README.md
* Update README.md
* Update README.md
* Update README.md
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-170.us-west-2.compute.internal >
Co-authored-by: Zihao Ye <expye@outlook.com >
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2020-07-20 22:23:13 +08:00
5c92f6c218
[RPC] Rpc exit with explicit invocation ( #1825 )
...
* exit client
* update
* update
* update
* update
* update
* update
* update
* update test
* update
* update
* update
* update
* update
* update
* update
* update
* update
2020-07-20 14:56:26 +08:00
20734637f0
[Distributed] Fix partition ( #1821 )
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* fix partition and print timing.
* fix lint.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-1.us-west-2.compute.internal >
2020-07-17 16:03:37 -07:00
df3683a234
fix ( #1817 )
2020-07-17 17:46:20 +08:00
63feb47c26
[Example] Update Links for Supervised Community Detection with Graph Neural Networks ( #1816 )
...
* Update README.md
* Update README.txt
2020-07-17 17:13:25 +08:00
ca9d3216d0
[Distributed] Distributed launching script ( #1772 )
...
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* fix launch script.
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
2020-07-16 10:20:57 -07:00
cda0abf75a
[Distributed] add the standalone mode in DistGraph ( #1800 )
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* add standalone mode
* add comments.
* add tests for sampling.
* fix.
* make the code to run the standalone mode
* fix
* fix
* fix readme.
* fix.
* fix test
Co-authored-by: Chao Ma <mctt90@gmail.com >
2020-07-14 23:46:25 -07:00
a1472bcff6
[Distributed] Run distributed graph server inside DGL ( #1801 )
...
* run dist server in dgl.
* fix bugs.
* fix example.
* check environment variables and fix lint.
* fix lint
2020-07-14 07:41:44 -07:00
7ea777e122
[Example] Fix HAN ( #1790 )
...
* Fix
* Fix
* Fix
2020-07-11 17:29:19 +08:00
ac282a5e35
[Model][Hetero] HGT ( #1778 )
...
* add HGT example
* Update README.md
* Update model.py
* Update train_acm.py
* Add comments
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2020-07-10 01:58:54 -07:00
d6b4e286b6
RGCN minibatch using homogeneous graph. ( #1745 )
...
* minibatch rgcn
* minibatch based rgcn
* remove ogb
* lint
* Add sparse emb
* Fix
* Fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-68-185.ec2.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-87-240.ec2.internal >
2020-07-07 00:26:10 +08:00
2f6ab43a1b
[Model] Pinsage example that uses sparse embedding update ( #1676 )
...
* pinsage example that uses sparse embedding update
* add difference from paper
2020-07-06 12:45:48 +08:00
4ddd477f35
[Model] GraphSAGE inductive example ( #1741 )
...
* graphsage inductive example
* fix
2020-07-03 11:32:06 +08:00
xiang song(charlie.song)