9711d75fda
[Misc] Simplify the data path's assignment in python utils ( #6058 )
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Co-authored-by: Hongzhi (Steve), Chen <chenhongzhi.nkcs@gmail.com >
2023-08-02 12:43:13 +08:00
89b321b847
[Misc] Rename number_of_edges and number_of_nodes to num_edges and num_nodes. ( #5488 )
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* nn-only
* data-only
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Co-authored-by: Ubuntu <ubuntu@ip-172-31-28-63.ap-northeast-1.compute.internal >
2023-03-28 12:58:54 +08:00
ab812179a3
[Misc] Auto reformat data/. ( #5318 )
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* data
* lintrunner
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Co-authored-by: Ubuntu <ubuntu@ip-172-31-28-63.ap-northeast-1.compute.internal >
2023-02-19 22:50:55 +08:00
a208e8868b
[Misc] Black auto fix. ( #4680 )
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* [Misc] Black auto fix.
* fix pylint disable
Co-authored-by: Steve <ubuntu@ip-172-31-34-29.ap-northeast-1.compute.internal >
2022-10-08 14:15:56 +08:00
d9c25521bc
[Data] AsGraphPredDataset ( #4073 )
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* Update
* CI
* Update
* Update
* Fix
* Fix
2022-06-02 16:18:48 +08:00
8b8fd2c0be
[Dataset] Add transform argument to built-in datasets ( #3733 )
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* Update
* Fix
* Update
2022-02-15 16:45:47 +08:00
7298173ac1
[Doc]Improve docstring for GINDataset ( #2676 )
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* add docstring for gin
* update doc
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2021-02-23 15:14:10 +08:00
b1840f49fa
[Dataset] Change the Data Type of the Node Features in GINDataset/TUDataset from Float64 to Float32 ( #2592 )
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* Update
* Update
* Update
* update
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Tong He <hetong007@gmail.com >
2021-02-03 21:00:45 +08:00
5f19876358
[Bugfix] GINDataset check whether labels are all valid ( #2319 )
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* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.
* check whether the original labels are valid
* add unit test for gin dataset
* bug of asscalar in mxnet<=1.6
* mxnet<=1.6 asscalar requires ndarray to be shaped (1,)
* skip gpu while testing datasets
* Update test_data.py
* test of gin dataset takes too much time
2020-11-05 09:35:10 +08:00
0b00562d1f
Update gindt.py ( #2212 )
2020-09-18 19:49:50 +08:00
51ba662169
Fix GINDT and #2087 ( #2103 )
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* fix gindt
* ff
* fix
* minor fix
* fix
2020-08-26 15:53:45 +08:00
3d65484323
Fix mxnet gin ( #2048 )
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Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-08-19 00:05:15 +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
967ecb8064
[Dataset] Fix the docstring format for dgl.data section ( #1941 )
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* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.
* update data rst
* update data doc and docstring
* API doc rst for dataset
* docstring
* update api doc
* add url format
* update docstring
* update citation graph
* update knowledge graph
* update gc datasets
* fix index
* Rst fix (#3 )
* Fix syntax
* syntax
* update docstring
* update doc (#4 )
* final update
* fix rdflib
* fix rdf
Co-authored-by: HuXiangkun <huxk_hit@qq.com >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2020-08-06 14:47:49 +08:00
f05bd4971c
[Dataset] Builtin GINDataset ( #1889 )
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* update GINDataset
* update
* update docstring
* update
* update docstrings
* add hash to fix save/load
* fix some stupid bugs
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2020-07-31 17:12:14 +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
2b9d06b6e2
[Data] Retry downloading once if dataset initialization fails ( #1520 )
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* dataloader guard
* more fixes
* sets overwrite to true by default
* Update utils.py
* fix
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2020-06-03 17:21:05 +08:00
0285021235
Fix bug in GIN Dataset degree OHE logic ( #1498 )
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In the previous code, the same vector was being assigned to all the nodes in each graph.
`:` was used incorrectly assuming that only one row will be selected for each column but all rows were selected for each column.
2020-05-09 15:11:41 +08:00
f1e4f3786d
Fix bug in using degree_as_nlabel for GIN dataset ( #1451 )
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In order to make the `label2idx` dictionary, tensor values should be used and not the tensor itself.
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2020-04-29 17:42:45 +08:00
1c4bfb62bb
[Performance] Replace np.array with np.asarray ( #1301 )
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* replace np.array with np.asarray
* fix
Co-authored-by: Minjie Wang <minjie.wang@nyu.edu >
2020-03-03 20:45:41 +08:00
9a0511c8e9
[NN] nn modules & examples update ( #890 )
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* upd
* damn it
* fuck
* fuck pylint
* fudge
* remove some comments about MXNet
* upd
* upd
* damn it
* damn it
* fuck
* fuck
* upd
* upd
* pylint bastard
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* upd
2019-11-03 17:29:42 -05:00
a3febc061b
[Model] Add GIN Model ( #471 )
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* add gin model
* convert dataset.py to data_ont_the_fly way and put it into dgl.data module
* convert dataset.py to data_ont_the_fly way and put it into dgl.data module
python code checked
* modified document and reference TUDataset; checked python part and bypass cpp part due to error
* change tensor to numpy in dataset and transform in collate@Dataloader
* Change minor format issue
Change minor format issue
* moved logging; adjusted tqdm etc
2019-04-17 14:57:07 +08:00
Songqing Zhang