1453bf2ceb
update version
2022-04-15 16:37:36 +00:00
4375c2d7e4
[Doc] Fix documentation in dgl.multiprocessing namespace ( #3929 )
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* fix docs
* remove
* oh
* fix
2022-04-16 00:35:06 +08:00
f5bba284f8
[Example] Add EGES example ( #3756 )
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* add eges example
* remove csv files and add data link
* Update README.md
* Update main.py
* Update model.py
* Update sampler.py
* Update utils.py
* Update model.py
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2022-04-14 16:23:08 +08:00
a0bf5daa65
fix ( #3903 )
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Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2022-04-13 12:28:19 +08:00
c380f0b5fa
Update gatv2.py ( #3921 )
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Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2022-04-13 09:47:52 +08:00
e06e63d5d5
[Feature] Enable UVA sampling with CPU indices ( #3892 )
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* enable UVA sampling with CPU indices
* add docs
* add more docs
* lint
* fix
* fix
* better error message
* use mp.Barrier instead of queues
* revert
* revert
* oops
* revert dgl.multiprocessing.spawn
* Update pytorch.py
2022-04-12 20:56:51 +08:00
0d878ff8ef
[Example] Cleaned GraphSAGE node classification example with PyTorch Lightning ( #3863 )
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* cleaned pl node classification example
* conform to PL's method of updating the dataloader
* update
* lint
* fix test
* fix
2022-04-12 17:26:23 +08:00
baa9292899
[bugfix] Fix EdgePredictionSampler for UVA sampling ( #3904 )
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* Add failing unit test
* Fix negative sampler edge types
* fix test
* oops
* revert
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
Co-authored-by: Quan Gan <coin2028@hotmail.com >
2022-04-12 15:25:21 +08:00
f931c6ba54
[Examples] Add pure gpu mode in the GraphSAGE node classification and link prediction ( #3856 )
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Signed-off-by: Serge Panev <spanev@nvidia.com >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2022-04-12 13:03:03 +08:00
5fcd7f290f
[Feature] Enable UVA for GPU PinSAGE and RandomWalk ( #3857 )
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* enable uva for pinsage sampler
* unit test
* modify some checks on the python side
* remove legacy random walk code
* update unit test
* update unit test
* fix unit test
* adjust checks
* move some checks to c++
* move max_nodes check to cuda kernel
* fix ci for tf
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
Co-authored-by: nv-dlasalle <63612878+nv-dlasalle@users.noreply.github.com >
2022-04-11 20:01:23 +08:00
23a5e674e7
[fix] device cannot be Nonetype object. ( #3822 )
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* fix device = none to cpu.
* fix singleton-comparison
* modify device is none
* fix use uva
* add docs
* add edge dataloader
* add doc
* fix trailing-whitespace
* modify default
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2022-04-11 14:58:27 +08:00
43b9d40e5e
[Doc] Fix Doc for EGNNConv ( #3919 )
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Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2022-04-11 11:01:15 +08:00
01e50626d3
[Example] Add TorchMetrics in README ( #3913 )
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* Update README.md
* Update README.md
* Update README.md
Co-authored-by: Rhett Ying <85214957+Rhett-Ying@users.noreply.github.com >
2022-04-09 23:25:51 +08:00
adb3a7c11e
[BugFix] record/restore pin status when pickle/unpickle ( #3914 )
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* [BugFix] record/restore pin status when pickle/unpickle
* disable test on TF
* set version as expected
* unpin memory in test
2022-04-09 11:42:23 +08:00
ed15b47147
Update ( #3916 )
2022-04-08 14:29:03 +08:00
dc5035b1f3
[NN] Add EGNN & PNA ( #3901 )
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* add EGNN & PNA
* fix egnn issues
* fix pna issues
* update pna conv
* add doc strings
* update pnaconv
* fix unused args issue
* fix moment aggregation issue
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2022-04-07 17:44:57 +08:00
27a6eb564c
[Examples] Update graphsage multi-gpu example to use mutliple GPUs for validation and testing. ( #3827 )
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* Update graphsage multi-gpu example to use mutliple GPUs for validation and
testing.
* Remove argmax
* Fix rebase error
* Add more documentation to example and simplify
* Switch to name shared memory
* Add comment about how training is distributed
* Restore iteration count
* fix munmap error reporting for better error messages
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2022-04-06 00:32:37 +08:00
11e910b6f8
[Doc] Hotfix for GraphSAINT Doc ( #3898 )
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* Update graphsaint.py
* Update graphsaint.py
2022-03-31 19:22:21 +08:00
35e66f426a
[Bugfix] Fix UVA sampling with partially specified node types ( #3897 )
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* fix uva with partial node types
* lint
* skip tensorflow unit test
2022-03-31 17:07:02 +08:00
7a2f494373
[bugfix] Make source build work for systems where the default is python2 ( #3718 )
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* Make compatible for system where the default is python2
* Update cmakelists with find package
* Switch to find_program
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2022-03-30 08:27:58 -07:00
4c7bd314b4
[Feature] Radius Graph ( #3829 )
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* radius graph
* remove trailing whitespaces from docs
* disable invalid name for transform func
* disable radius graph module invalid name
* move pylint disable before init
* fix missing nodes from point set
* update docs indexing
* add compute mode as optional param
* radius graph test
* remove trailing whitespaces
* fix precision when comparing tensors
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2022-03-30 17:23:29 +08:00
290b7c25c2
[Transform] Random Walk Positional Encoding & Laplacian Positional Encoding ( #3869 )
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* [Transform] Random Walk Positional Encoding & Laplacian Positional Encoding
* Update python/dgl/transforms/module.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
* Update python/dgl/transforms/functional.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
* Update python/dgl/transforms/functional.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
* Update python/dgl/transforms/functional.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
* Update python/dgl/transforms/functional.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
* Update python/dgl/transforms/functional.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
* Update python/dgl/transforms/functional.py & python/dgl/transforms/module.py
* update python/dgl/transforms/functional.py
* update doc indexing
* update unit test
* support weighted graphs for random_walk_pe
* change reference
* fix linter errors
* fix datatype compatibility with MXNet & TF
* fix device errors
* fix result precision errors
* change tensorflow abs api
* reboost CI
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2022-03-30 15:59:28 +08:00
9fee20b91d
[Sampler] [Example] SAINTSampler and Simplify GraphSAINT Example ( #3879 )
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* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Fix
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2022-03-30 13:51:37 +08:00
0dd500e386
[BugFix] Remove redundant reference of networkx package in pagerank.py ( #3888 )
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Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2022-03-30 11:54:03 +08:00
d8375c10ec
[BugFix] involve indices_devices for other dataset object. ( #3810 )
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* involve indices_devices for other dataset object.
* modify raise error when device not found.
* remove empty line
* fix line too long
2022-03-30 11:50:03 +08:00
fbbca994b7
[Feature] METIS Partition with Communication Volume Minimization ( #3821 )
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* upd
* upd
* upd
* upd
* upd
* fix OpenMP compatibility issues
* typo
* partition
* misc
* fix typo
* num_parts=1
* import torch
* long
* print info
* print info
* print info
* upd
* remove debug code
* revert partition.py
* fix cut count
* fix cut count
* Revert "fix cut count"
This reverts commit 10926b4fd48f45c8f1ddb58be7db6c22e653effd.
* Revert "fix cut count"
This reverts commit 76465283bef093a2b4209ad70dd15d2437b2ec8a.
* type of deprecate
* typo in deprecate info
* fix typo
* use cv for partitioning
* CE
* no message
* revert
* typo
* add objtype
* no message
* fix bug
* fix bug
* fix bug
* ?
* semicolon
* drop tensors
* no message
* backward
* backward
* max op
* store X.shape
* th
* test
* Revert "test"
This reverts commit 92b3b2f64a3a1128590098fa03ce429c5466e6ce.
* test
* tolist
* debug
* to cuda
* tuple
* fix bug
* remove X
* no message
* fix bug
* workload balance
* Revert "workload balance"
This reverts commit d7f8e4a16ba2a7eabb4a9bb945523bfe6623e723.
* reverse
* Revert "reverse"
This reverts commit 8a71cf25685aa7d889b9b8881b46f7a16b7d6e6d.
* Revert "Revert "reverse""
This reverts commit 196b143932d5cf9813576ece7c990b63d322d063.
* Revert "Revert "Revert "reverse"""
This reverts commit cf9e89a07013582056e7cde235e51331aca7fa9c.
* no message
* Merge commit '5498cf051e9cf450dcb798ca09920bbde008a661'
# Conflicts:
# python/dgl/distributed/partition.py
* Revert "Merge commit '5498cf051e9cf450dcb798ca09920bbde008a661'"
This reverts commit f79be2ad777897c7025b28308454cad81ad6bb27.
* fix bug
* third party
* no message
* try to avoid memory leak
* try to avoid memory leak
* avoid memory leak with no hope
* Revert "avoid memory leak with no hope"
This reverts commit c77befe9479f46758e744642f66dd209b50eef7d.
* no message
* Revert "no message"
This reverts commit 478cb28fe25fb1002b2f1dc202bb9bdaad8b2a56.
* del
* Revert "del"
This reverts commit 1b468e45ce646b400ff3ffa61a0b2da058b3bdfd.
* no message
* no message
* Revert "no message"
This reverts commit 92e4f5561ed42da0606618b2fff9f1ad5ed439d9.
* third party
* document
* Update metis_partition.cc
* Update metis_partition_hetero.cc
* Update metis_partition_hetero.cc
* Update partition.py
* Update partition.py
* Update partition.py
Co-authored-by: yzh119 <expye@outlook.com >
Co-authored-by: chwan-rice <54331508+chwan-rice@users.noreply.github.com >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
2022-03-27 14:22:01 -07:00
ae3316c846
[Doc] Update doc of dataloading package. ( #3886 )
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* wip: dataloading doc
* update dataloading package doc and many others
* lint
2022-03-26 21:59:02 +08:00
6752bd4515
[Example] layers number fix in GAT example ( #3872 )
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* gat layers fix
* minor bug
Co-authored-by: decoherencer <decoherencer@users.noreply.github.com >
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2022-03-26 15:02:16 +08:00
f758db386f
[Bug] Fix dtype mismatch in heterogeneous DataLoader ( #3878 )
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* fix
* unit test
2022-03-26 13:56:21 +08:00
e963256882
[Doc] Update message-api.rst ( #3844 )
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fix #3812
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2022-03-25 23:22:20 +08:00
f73c7a648b
[bugfix] Set stacklevel=2 for dgl_warning ( #3816 )
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Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2022-03-25 23:21:05 +08:00
7d4160869c
[Bug] Fix multiple issues in distributed multi-GPU GraphSAGE example ( #3870 )
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* fix distributed multi-GPU example device
* try Join
* update version requirement in README
* use model.join
* fix docs
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2022-03-25 22:04:02 +08:00
16409ff852
[Doc] fix display issue of node/edge_split ( #3858 )
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Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2022-03-25 09:18:08 +08:00
a0e8cf0d3e
[Bugfix] Fix UVA sampling with lazy feature slicing ( #3862 )
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* fix uva sampling with features
* fix
* add is_listlike function to distinguish strings from sequence
* fix
Co-authored-by: nv-dlasalle <63612878+nv-dlasalle@users.noreply.github.com >
2022-03-24 20:13:01 +08:00
223a3da5ae
[Bugfix] Fix multiple bugs and code refactor ( #3841 )
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* fix
* remove setcxx methods
* move pin flag to CSR and COO matrix
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2022-03-24 18:24:49 +08:00
12e97c54ac
[Feature] get_attention parameter in GlobalAttentionPooling ( #3837 )
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* get_attention parameter in GlobalAttentionPooling
* removed trailing whitespace
* lint fix
Co-authored-by: decoherencer <decoherencer@users.noreply.github.com >
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2022-03-24 12:49:40 +08:00
e9fd65e9c9
[BugFix] send rpc messages blockingly in case of congestion ( #3867 )
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Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2022-03-24 09:51:45 +08:00
172949d429
[Example] Fix multi-GPU RGCN example ( #3871 )
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* fix multi-gpu rgcn example
* remove dgl.multiprocessing in turorials
* add a comment
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2022-03-23 09:28:36 -07:00
61edb7980a
[NN] Update GNNExplainer ( #3848 )
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* Update
* Update
* Update
2022-03-23 18:40:49 +08:00
8005978e1e
[NN] Grouped reversible residual connections for GNNs ( #3842 )
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* Update
* Fix
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
2022-03-23 16:58:39 +08:00
a3fd059537
Fix jenkins ( #3875 )
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* try fix
* try fix
* try fix
* try fix
* Revert "try fix"
This reverts commit a3fa0b1e9c0ab892cc3a22acf3770903db8b14a7.
* try fix shared memory
* try fix shared memory
* try fix image version
* fix
2022-03-23 14:13:45 +08:00
480a4ae35c
[BugFix] pass ntype/etype into partition book when node/edge_split ( #3828 )
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* [BugFix] pass ntype/etype into partition book when node/edge_split
* fix test failure
* fix test failue on mxnet
* fix test failure
2022-03-14 15:11:01 -07:00
57d2f31f20
[Examples] Add pure gpu example of graphsage ( #3796 )
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* Add pure_gpu example of graphsage
* move to advanced directory
Co-authored-by: Quan Gan <coin2028@hotmail.com >
2022-03-10 17:33:23 -08:00
f908f35c38
[Example]Add P-GNN example ( #3823 )
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* [Model]P-GNN
* updata
* [Example]P-GNN
* Update README.md
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2022-03-10 17:39:32 +08:00
eec219abbc
Change the parameter of curand_init ( #3794 )
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* Change the curand_init parameter
* Change the curand_init parameter
* commit
* commit
Co-authored-by: nv-dlasalle <63612878+nv-dlasalle@users.noreply.github.com >
2022-03-10 16:31:09 +08:00
520cef88df
[Feature] Compatibility to DLPack 0.6 in tensoradapter ( #3803 )
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* compatibility to DLPack 0.6 in tensoradapter
* fix
* oops
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2022-03-10 10:32:52 +08:00
27d3af01fb
Fix benchmark problem ( #3762 )
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* fix
* fix bench
* fix
* Update bench_rgcn.py
* try fix
* fix wrong fix
* Update bench_rgcn.py
2022-03-08 19:27:00 +08:00
44638b9336
fix ddp dataloader in heterogeneous cases ( #3801 )
2022-03-07 16:56:43 +08:00
bb6cec23b4
[BugFix] fix incorrect name when fetch data in sparse optim ( #3808 )
2022-03-06 10:43:43 -08:00
8f0136b0e3
Remove unnecessary jenkins part ( #3806 )
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* fix
* try mount
* what's happening
* fix
* ci
2022-03-04 17:21:19 +08:00
Quan Gan