4464b9734c
Fix kg dataset len() ( #2475 )
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Co-authored-by: Ubuntu <ubuntu@ip-172-31-59-204.ec2.internal >
2020-12-31 23:33:21 +08:00
3d1f2e870a
delete shared memory when receiving signals. ( #2419 )
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* delete shared memory when receive signal.
* rename.
* fix lint.
* fix lint.
* fix compile.
* Fix.
* we need to report error if the shared memory exist.
* disable tensorflow test for shared memory.
* revert.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-202.us-west-1.compute.internal >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2020-12-26 10:41:10 -08:00
e805470101
addressing post-merge comments ( #2455 )
2020-12-26 17:58:15 +08:00
9a7235faf2
[Performance] Use allocator from PyTorch if possible ( #2328 )
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* first commit
* some thoughts
* move around
* more commit
* more fixes
* now it uses torch allocator
* fix symbol export error
* fix
* fixes
* test fix
* add script
* building separate library per version
* fix for vs2019
* more fixes
* fix on windows build
* update jenkinsfile
* auto copy built dlls for windows
* lint and installation guide update
* fix
* specify conda environment
* set environment for ci
* fix
* fix
* fix
* fix again
* revert
* fix cmake
* fix
* switch to using python interpreter path
* remove scripts
* debug
* oops sorry
* Update index.rst
* Update index.rst
* copies automatically, no need for this
* do not print message if library not found
* tiny fixes
* debug on nightly
* replace add_compile_definitions to make CMake 3.5 happy
* fix linking to wrong lib for multiple pytorch envs
* changed building strategy
* fix nightly
* fix windows
* fix windows again
* setup bugfix
* address comments
* change README
2020-12-25 13:57:51 +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
9d7bf4ea89
Fix citation data loading ( #2421 )
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Co-authored-by: Ubuntu <ubuntu@ip-172-31-57-25.ec2.internal >
2020-12-14 14:58:01 +08:00
1c976222d5
fix doc mistake in dgl/core.py ( #2404 )
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The variable name 'eid' should be 'nid'
2020-12-08 22:05:55 +08:00
013d145663
[NN] Attention Retrieval for NN Modules ( #2397 )
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* Update
* Update
2020-12-07 23:42:25 +08:00
fcf1193579
[Doc] Hidden implementations that may cause confusion to the user. ( #2378 )
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* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.
* data pipeline user guide
* remove chapter numbers
* Update data.rst
* image in dataset userguide
* update links using ref
* modify the link of save_graphs and load_graphs in dataset user guide
* move image to s3 server.
* fix links and ref
* Hide implementations that may cause confusions to the user
2020-12-03 13:09:19 +08:00
98e11533e2
[hotfix] Produce empty tensor in data frame for emtpy graphs. ( #2387 )
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* upd
* lint
* lint1
2020-12-03 12:00:29 +08:00
38077e298b
installation and doc fix ( #2379 )
2020-11-30 19:47:40 +08:00
edb978772c
[Doc, UG, Tutorial] Misc Fix ( #2376 )
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* Update
* Update
* Update
* Update
* Update
2020-11-30 13:40:10 +08:00
6b02babbad
[doc] Add docstring for segment reduce. ( #2375 )
2020-11-27 18:04:13 +08:00
00edb94982
[Performance] Accelerate batching ( #2363 )
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* speed up batching
* more fix
* lint
* fix
2020-11-24 17:39:00 +08:00
58775ada1f
Remove redundant print information in #2361 ( #2362 )
2020-11-23 03:41:58 +08:00
3adbfa1812
[Performance] Use segment operators for graph readout. ( #2361 )
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* upd
* upd
* update
* upd
* upd
* upd
* fix
* lint
* lint
* pylint
* doc
2020-11-23 01:45:33 +08:00
45e3e9af2c
[WIP] Misc Fix ( #2359 )
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* Update
* Update
* Update
2020-11-19 23:54:55 +08:00
fe4ada23f9
Update knowledge_graph.py ( #2329 )
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The l in "bool" is lost.
Co-authored-by: Zihao Ye <expye@outlook.com >
2020-11-10 17:33:55 +08:00
812f597096
Update appnpconv.py ( #2324 )
2020-11-10 15:37:30 +08:00
4fb0241bfb
[CUDA] Add CUDA11 support ( #2308 )
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* add support for cuda 11
* fix inc bug in pytorch 1.8
* poke ci
* fix
* small fix
* try fix
* try fix
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2020-11-07 22:16:51 +08:00
6eda605ccd
[BugFix][Dataloading] Disable AsyncTransferer copying to anywhere but the GPU ( #2323 )
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* Disable copying for anywhere but the GPU
* Remove unused import and remove references to transferring from the GPU from the docs
* Skip gpu test in cpu mode
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2020-11-07 21:34:54 +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
c6890c231a
[Performance] In HeteroNodeView, build arange on target device, instead of on CPU and copying it ( #2266 )
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* Build arange on target device
* Utilize arange device in viewpy:HeteroNodeView.__call__
* Work around uint64 error in TF to_dlpack
* Restore else clause
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
2020-11-02 14:03:26 -08:00
d453d72dd1
[Doc][Dataloading] Expand documentation of AsyncTransferer ( #2313 )
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* Update docs
* Make non-default streams non-blocking
2020-11-02 12:28:30 -08:00
f673fc2553
[Dataloading] Add class for copying tensors to/from the GPU on a non-default stream ( #2284 )
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* Add async transferer class
* Add async ndarray copy interface
* Add python bindings
* Fix comment
* Add python class
* Fix linting issues
* Add python unit test
* Update python interface
* move async_transferer to cuda only directory
* Fix linting issue
* Move out of contrib
* Add doc strings
* Move test compute from backend
* Update comment
* Fix test naming
* Fix argument usage
* Wrap/unwrap backend parameters
* Move to dataloading
* Move to 'dataloading'
* Make GPU/CPU compatible
* Fix unit tests
* Add docs
* Use only backend interface for datamovement in unit test
2020-10-30 07:29:06 -07:00
269983dbcd
[Fix] typo ( #2265 )
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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
* no message
* no message
* no message
* practice
* dmlc-core
* DGLGraph
Co-authored-by: yzh119 <expye@outlook.com >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2020-10-29 23:05:36 +08:00
da9f14dff3
Fix typos ( #2285 )
2020-10-19 12:24:34 -07:00
8a4520d55a
[Bugfix][Performance] Fix Column to copy 'self.index' to location of 'self.storage' only on read, and use kwargs. ( #2267 )
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* Pass framework arguments to copy of frames
* Copy for subframe
* Fix mismatched contexts
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2020-10-09 09:58:31 -07:00
8bbc84e04f
[bugfix] Fix crash due to unfound attribute ( #2262 )
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An unexpected `AttributeError` exception is launched whenever the user defines `save_dir` on `DGLDataset` instantiation and uses `self._save_dir` within `has_cache` method.
This commit fixes the issue.
2020-10-09 09:44:38 +08:00
c341520d5b
[bugfix] Fix the behavior of min/max reducer for 1-dim dta. ( #2250 )
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* udp
* add test
* udp
* fix mxnet
2020-09-29 17:27:16 +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
25a8e3f181
Fix segment_reduce() ignoring tailing 0 segments ( #2228 )
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Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2020-09-24 15:07:45 +08:00
40caf1ab50
[HeteroGraph] Fix the failure of apply_nodes when the input function changes feature size for all nodes ( #2223 )
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* Fix
* Fix
2020-09-24 08:54:28 +08:00
49e96970e2
[Doc] fix typos in PyTorch DataLoaders ( #2216 )
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* fix doc
* fix doc
2020-09-20 13:21:05 +08:00
0b00562d1f
Update gindt.py ( #2212 )
2020-09-18 19:49:50 +08:00
f3f646bbfd
[Doc and User Guide] Minor Fix ( #2205 )
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* Fix doc and user guide
* Update heterograph.py
Co-authored-by: Ubuntu <ubuntu@ip-172-31-13-9.us-west-2.compute.internal >
2020-09-17 03:01:12 +08:00
76d66fd35d
[Bug] Fix dtype mismatch in EdgeDataLoader on Windows ( #2188 )
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* fix node and edge dataloader on windows
* fix distributed
2020-09-13 18:25:05 +08:00
877101a96b
[Doc] Update Doc for UDFs ( #2131 )
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* Update Doc for UDFs
* add degree bucketing explanation
* Update udf.rst
* Update
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2020-09-13 04:57:06 +08:00
3234189b60
Fix hdfs error when writing big data ( #2186 )
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* update dmlc-core to latest
* fix hdfs
2020-09-12 23:58:36 +08:00
4dae26a1fc
[Doc] Fix typo in dataloading.negative_sampler ( #2177 )
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* fix dataloading docs
* fix another
2020-09-11 19:39:48 +08:00
7d8522a29f
[Bug] fix cumsum on an empty array with prepend_zero returning an empty array ( #2179 )
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* fix cumsum
* udp
Co-authored-by: Zihao <expye@outlook.com >
2020-09-11 18:23:44 +08:00
8a227bfa03
[Bugfix] fix TUDataset labelling issue ( #2165 ) ( #2173 )
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* [Bugfix] fix TUDataset labelling issue (#2165 )
* [Bugfix] fix TUDataset labelling issue (dmlc#2165)
* update docstring according to discussion
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2020-09-11 17:05:24 +08:00
a102db23bf
[Dataset] CoraFull dataset remove redundant reference ( #2172 )
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* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.
* Update gnn_benckmark.py
2020-09-11 15:15:06 +08:00
8f4594074b
[Hotfix] Fix degree bucket edge ordering ( #2176 )
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* fix degree bucket edge ordering
* unit test
* fix
2020-09-11 14:16:52 +08:00
cbd55eb12f
[performance] Batch DGLGraph in C++ end. ( #2155 )
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* upd
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* fix
* upd
* upd
* upd
* upd
* fix
* upd
Co-authored-by: VoVAllen <jz1749@nyu.edu >
2020-09-11 02:54:27 +08:00
ac570c1dae
[Bugfix] Fix flatten not wrapping unit graph ( #2170 )
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* fix flatten not wrapping unit graph
* fix doc
2020-09-10 17:41:52 +08:00
5f44a4efce
Fix #1453 again ( #2169 )
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* Fix reincarnation of #1453
* fix
2020-09-10 15:43:21 +08:00
b10b541c11
fix multiple docstring inconsistencies ( #2167 )
2020-09-10 11:03:34 +08:00
45b610c49a
fix edge_softmax ( #2160 )
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Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2020-09-09 14:19:43 +08:00
xiang song(charlie.song)