74f0140533
[Example] Rename NodeDataLoader to DataLoader in GraphSAGE example ( #3972 )
...
* rename
* Update node_classification.py
* more fixes...
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2022-05-11 09:10:54 +08:00
e06e63d5d5
[Feature] Enable UVA sampling with CPU indices ( #3892 )
...
* 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
172949d429
[Example] Fix multi-GPU RGCN example ( #3871 )
...
* 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
861666fa55
[Bugfix] Fix RGCN Example ( #3785 )
2022-02-28 18:55:06 +08:00
d41d07d0f6
[Doc and bugfix] Add docs and user guide and update tutorial for sampling pipeline ( #3774 )
...
* huuuuge update
* remove
* lint
* lint
* fix
* what happened to nccl
* update multi-gpu unsupervised graphsage example
* replace most of the dgl.mp.process with torch.mp.spawn
* update if condition for use_uva case
* update user guide
* address comments
* incorporating suggestions from @jermainewang
* oops
* fix tutorial to pass CI
* oops
* fix again
Co-authored-by: Xin Yao <xiny@nvidia.com >
2022-02-28 02:21:51 +08:00
0227ddfb66
[NN] Rework RelGraphConv and HGTConv ( #3742 )
...
* WIP: TypedLinear and new RelGraphConv
* wip
* further simplify RGCN
* a bunch of tweak for performance; add basic cpu support
* update on segmm
* wip: segment.cu
* new backward kernel works
* fix a bunch of bugs in kernel; leave idx_a for future
* add nn test for typed_linear
* rgcn nn test
* bugfix in corner case; update RGCN README
* doc
* fix cpp lint
* fix lint
* fix ut
* wip: hgtconv; presorted flag for rgcn
* hgt code and ut; WIP: some fix on reorder graph
* better typed linear init
* fix ut
* fix lint; add docstring
2022-02-23 12:10:20 +08:00
e9c3c0e8ad
[Model] Simplify RGCN
...
* Update (#5 )
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* FIx
* Try
* Update
* Update
* Update
* Fix
* Update
* Fix
* Fix
* Fix
* Fix
* Update
* Fix
* Update
* Update
* Update
* Fix
* Fix
* Update
* Update
* Update
* Update
* Fix
* Fix
* Fix
* Update
* Update
* Update
* Update
* Update
* Update README.md
* Update
* Fix
* Update
* Update
* Fix
* Fix
* Fix
* Update
* Update
* Update
Co-authored-by: Ubuntu <ubuntu@ip-172-31-6-240.us-west-2.compute.internal >
* Update
* Update
* Fix
* Update
* Update
* Update
* Fix
* Update
* Update
* Update
* Update
* Update
* Update
* CI
Co-authored-by: Ubuntu <ubuntu@ip-172-31-6-240.us-west-2.compute.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-57-123.us-west-2.compute.internal >
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2022-02-17 15:33:27 +08:00
701b4fccc2
[Sampling] New sampling pipeline plus asynchronous prefetching ( #3665 )
...
* initial update
* more
* more
* multi-gpu example
* cluster gcn, finalize homogeneous
* more explanation
* fix
* bunch of fixes
* fix
* RGAT example and more fixes
* shadow-gnn sampler and some changes in unit test
* fix
* wth
* more fixes
* remove shadow+node/edge dataloader tests for possible ux changes
* lints
* add legacy dataloading import just in case
* fix
* update pylint for f-strings
* fix
* lint
* lint
* lint again
* cherry-picking commit fa9f494
* oops
* fix
* add sample_neighbors in dist_graph
* fix
* lint
* fix
* fix
* fix
* fix tutorial
* fix
* fix
* fix
* fix warning
* remove debug
* add get_foo_storage apis
* lint
2022-01-30 16:13:00 +08:00
8d14a739bc
fix. ( #3652 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-30-164.us-west-2.compute.internal >
2022-01-15 09:12:13 +08:00
2a757d4aab
Remove self-loops and duplicate edges before ParMETIS and restore when converting to DGLGraph ( #3472 )
...
* save self-loops and duplicated edges separately.
* [BugFix] sort graph by dgl.ETYPE
* fix bugs in verify script
* fix verify logic
* refine README
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
2021-11-08 11:17:19 +08:00
21a4027969
Fix distributed device mapping problem. ( #3313 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-66.ec2.internal >
2021-09-02 13:52:00 +08:00
b4cd60a952
fix relgraphconv bug ( #3256 )
2021-08-23 17:29:14 +08:00
b131920066
[Feature] Add removed edges in distributed graph partitioning to handle heterogeneous graph ( #3137 )
...
* Added code for Rectifying (TypeError: unhashable type: 'slice') when copying file
* 1) added distributed preprocessing code to create ParMetis Input from CSV files
2) add code to run pm_dglpart on multiple machines
3) added support for recreating heteregenous graph from homo geneous graph based on dropped edges, as ParMetis currently only supports homogeneous graphs
* move to pandas
* Added comments and remove drop_duplicates as it was redundant
* Addressed Pr Comments
* Rename variable
* Added comment
* Added comment
* updated ReadMe
Co-authored-by: Ankit Garg <gaank@amazon.com >
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
2021-08-02 11:41:13 -07:00
ba7e7cf931
[New Feature] Per edge type sampler for to_homogeneous graphs. ( #3131 )
...
* fix.
* fix.
* fix.
* fix.
* Fix test
* Deprecate old DistEmbedding impl, use synchronized embedding impl
* Basic imple of heterogeneous on homogenenous sampling
* make pass
* Pass C++ test
* Add python test code
* lint
* lint
* Add MultiLayerEtypeNeighborSampler
* Add unitest for single machine dataloader
* Add dist dataloader test for edge type sampler
* Fix lint
* fix
* support for per etype sample
* Fix some bug and enable distributed training with per edge sample
* fix
* Now distributed training works
* turn off some mxnet
* turn off mxnet for some dist test
* fix
* upd
* upd according to the comments
* Fix
* Fix test and now distributed works.
* upd
* upd
* Fix
* Fix bug
* remove dead code.
* upd
* Fix
* upd
* Fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-71-112.ec2.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-66.ec2.internal >
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
2021-07-28 11:51:32 +08:00
34426a98e9
[Distributed] Distributed heterograph training ( #3069 )
...
* support hetero RGCN.
* fix.
* simplify code.
* sample_neighbors return heterograph directly.
* avoid using to_heterogeneous.
* compute canonical etypes in advance.
* fix tests.
* fix.
* fix distributed data loader for heterograph.
* use NodeDataLoader.
* fix bugs in partitioning on heterogeneous graphs.
* fix lint.
* fix tests.
* fix.
* fix.
* fix bugs.
* fix tests.
* fix.
* enable coo for distributed.
* fix.
* fix.
* fix.
* fix.
* fix.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-71-112.ec2.internal >
Co-authored-by: Zheng <dzzhen@3c22fba32af5.ant.amazon.com >
2021-07-17 10:57:00 +08:00
d7390763f0
[Distributed] Deprecate old DistEmbedding impl, use synchronized embedding impl ( #3111 )
...
* fix.
* fix.
* fix.
* fix.
* Fix test
* Deprecate old DistEmbedding impl, use synchronized embedding impl
* update doc
Co-authored-by: Ubuntu <ubuntu@ip-172-31-71-112.ec2.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-66.ec2.internal >
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-07-14 00:15:53 +08:00
0884d02465
[Distributed] Fix bugs in partitioning on heterogeneous graphs. ( #3085 )
...
* fix bugs in partitioning on heterogeneous graphs.
* fix.
* fix.
* fix example.
* fix.
* fix test.
* fix.
* fix.
* fix.
* fix tests.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-71-112.ec2.internal >
Co-authored-by: Zheng <dzzhen@3c22fba32af5.ant.amazon.com >
2021-07-02 21:16:14 +08:00
02e5d47d2a
[Example][Bugfix] Fix RGCN example datasplitting ( #3037 )
...
* Fix example datasplitting
* Remove left-over split parameter
* Remove unused parameter
* Set epoch when using multiple GPUs
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2021-06-29 10:16:28 +08:00
8b64ae59b8
[Performance] Perform to_block on the GPU when the dataloader is created with a GPU device. ( #3016 )
...
* add output device for dataloading
* Update dataloader
* Get sampler device from dataloader
* Fix line length
* Update examples
* Fix to_block GPU for empty relation types
* Handle the case where the DistGraph has None for the underlying graph
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
2021-06-13 18:51:00 +08:00
79b057f0cf
Fix example to test_acc is always computed at last epoch ( #3014 )
2021-06-12 18:02:00 -07:00
17d604b5c7
[Feature] Allow using NCCL for communication in dgl.NodeEmbedding and dgl.SparseOptimizer ( #2824 )
...
* Split from NCCL PR
* Fix type in comment
* Expand documentation for sparse_all_to_all_push
* Restore previous behavior in example
* Re-work optimizer to use NCCL based on gradient location
* Allow for running with embedding on CPU but using NCCL for gradient exchange
* Optimize single partition case
* Fix pylint errors
* Add missing include
* fix gradient indexing
* Fix line continuation
* Migrate 'first_step'
* Skip tests without enough GPUs to run NCCL
* Improve empty tensor handling for pytorch 1.5
* Fix indentation
* Allow multiple NCCL communicator to coexist
* Improve handling of empty message
* Update python/dgl/nn/pytorch/sparse_emb.py
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
* Update python/dgl/nn/pytorch/sparse_emb.py
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
* Keepy empty tensor dimensionaless
* th.empty -> th.tensor
* Preserve shape for empty non-zero dimension tensors
* Use shared state, when embedding is shared
* Add support for gathering an embedding
* Fix typo
* Fix more typos
* Fix backend call
* Use NodeDataLoader to take advantage of ddp
* Update training script to share memory
* Only squeeze last dimension
* Better handle empty message
* Keep embedding on the target device GPU if dgl_sparse if false in RGCN example
* Fix typo in comment
* Add asserts
* Improve documentation in example
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2021-06-10 21:19:00 -07:00
22d0df8b6a
[Doc] Update link_predict.py docstring ( #2960 )
...
corrected docstring, the model uses two R-GCN layers
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-06-02 12:08:28 +08:00
caa6d6072c
[Feature] Replacing thread_wrapped_func with minimal mp.Process wrapper ( #2905 )
...
* standardizing thread_wrapped_func
* lints
* Update __init__.py
2021-05-14 11:34:49 +08:00
975eb8fc5d
[Distributed] Distributed node embedding and sparse optimizer ( #2733 )
...
* Draft for sparse emb
* add some notes
* Fix
* Add sparse optim for dist pytorch
* Update test
* Fix
* upd
* upd
* Fix
* Fix
* Fix bug
* add transductive exmpale
* Fix example
* Some fix
* Upd
* Fix lint
* lint
* lint
* lint
* upd
* Fix lint
* lint
* upd
* remove dead import
* update
* lint
* update unitest
* update example
* Add adam optimizer
* Add unitest and update data
* upd
* upd
* upd
* Fix docstring and fix some bug in example code
* Update rgcn readme
Co-authored-by: Ubuntu <ubuntu@ip-172-31-57-25.ec2.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-24-210.ec2.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-66.ec2.internal >
2021-05-03 08:37:40 +08:00
bfbbefa793
[Distributed] Fix a bug in multiprocessing sampling. ( #2826 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-73-81.ec2.internal >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-04-08 01:29:33 -07:00
e36c5db614
[Distributed] Simplify distributed API ( #2775 )
...
* remove num_workers.
* remove num_workers.
* remove num_workers.
* remove num-servers.
* update error message.
* update docstring.
* fix docs.
* fix tests.
* fix test.
* fix.
* print messages in test.
* fix.
* fix test.
* fix.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal >
2021-03-29 19:19:23 -07:00
bb54206620
remove pyinstrument. ( #2772 )
...
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2021-03-21 20:27:12 -07:00
93074dd358
Bug fix for RGCN Link Prediction Example Exceeding Specified Epochs ( #2757 )
...
* Address bug where epochs exceed specified limit
* fix spacing
2021-03-17 14:29:45 +08:00
d0638b1ea9
[Example] Update the example of distributed GNN training of RGCN ( #2709 )
...
* support gpu training.
* remove unnecessary arguments.
* update README.
* update time measurement.
* add zero_grad.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-03-01 12:00:15 -08:00
28b0a76618
[Example] Provide instructions of setting up passwordless SSH login. ( #2707 )
2021-02-27 18:34:46 -08:00
6568d0aaf6
[Example] Recommend NFS over copy files ( #2689 )
...
* Update README to use NFS, rather than copying files
* Update README.md
* Update README.md
* Update README.md
* Add ParMetis
* Update README.md
* fix directory.
* fix
* redo.
* fix.
* update.
* add more descriptions
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
Co-authored-by: Quan Gan <coin2028@hotmail.com >
2021-02-25 20:20:52 +08:00
0526b885ee
[Distributed] Fix the path for distributed partitioning. ( #2700 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal >
2021-02-24 20:41:41 -08:00
ff64bd0de8
add warning for a bug in README ( #2665 )
2021-02-16 00:16:40 -08:00
e4ff484494
[Distributed] Distributed METIS partition ( #2576 )
...
* add convert.
* fix.
* add write_mag.
* fix convert_partition.py
* write data.
* use pyarrow to read.
* update write_mag.py
* fix convert_partition.py.
* load node/edge features when necessary.
* reshuffle nodes.
* write mag correctly.
* fix a bug: inner nodes in a partition might be empty.
* fix bugs.
* add verify code.
* insert reverse edges.
* fix a bug.
* add get node/edge data.
* add instructions.
* remove unnecessary argument.
* update distributed preprocessing.
* fix readme.
* fix.
* fix.
* fix.
* fix readme.
* fix doc.
* fix.
* update readme
* update doc.
* update readme.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-202.us-west-1.compute.internal >
2021-02-08 17:19:18 -08:00
48d357b8f6
Fix numbers ( #2641 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-56-220.ec2.internal >
2021-02-08 14:05:30 +08:00
23afe911b2
[Bug Fix] Fix several sparse optimizer bugs ( #2596 )
...
* 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
a7e941c379
[Feature] Add support for sparse embedding ( #2451 )
...
* 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
25ac334403
[Distributed] Heterogeneous graph support ( #2457 )
...
* Distributed heterograph (#3 )
* heterogeneous graph partition.
* fix graph partition book for heterograph.
* load heterograph partitions.
* update DistGraphServer to support heterograph.
* make DistGraph runnable for heterograph.
* partition a graph and store parts with homogeneous graph structure.
* update DistGraph server&client to use homogeneous graph.
* shuffle node Ids based on node types.
* load mag in heterograph.
* fix per-node-type mapping.
* balance node types.
* fix for homogeneous graph
* store etype for now.
* fix data name.
* fix a bug in example.
* add profiler in rgcn.
* heterogeneous RGCN.
* map homogeneous node ids to hetero node ids.
* fix graph partition book.
* fix DistGraph.
* shuffle eids.
* verify eids and their mappings when loading a partition.
* Id map from homogneous Ids to per-type Ids.
* verify partitioned results.
* add test for distributed sampler.
* add mapping from per-type Ids to homogeneous Ids.
* update example.
* fix DistGraph.
* Revert "add profiler in rgcn."
This reverts commit 36daaed8b660933dac8f61a39faec3da2467d676.
* add tests for homogeneous graphs.
* fix a bug.
* fix test.
* fix for one partition.
* fix for standalone training and evaluation.
* small fix.
* fix two bugs.
* initialize projection matrix.
* small fix on RGCN.
* Fix rgcn performance (#17 )
Co-authored-by: Ubuntu <ubuntu@ip-172-31-62-171.ec2.internal >
* fix lint.
* fix lint.
* fix lint.
* fix lint.
* fix lint.
* fix lint.
* fix.
* fix test.
* fix lint.
* test partitions.
* remove redundant test for partitioning.
* remove commented code.
* fix partition.
* fix tests.
* fix RGCN.
* fix test.
* fix test.
* fix test.
* fix.
* fix a bug.
* update dmlc-core.
* fix.
* fix rgcn.
* update readme.
* add comments.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-202.us-west-1.compute.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal >
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-62-171.ec2.internal >
* fix.
* fix.
* add div_int.
* fix.
* fix.
* fix lint.
* fix.
* fix.
* fix.
* adjust.
* move code.
* handle heterograph.
* return pytorch tensor in GPB.
* remove some tests in example.
* add to_block for distributed training.
* use distributed to_block.
* remove unnecessary function in DistGraph.
* remove distributed to_block.
* use pytorch tensor.
* fix a bug in ntypes and etypes.
* enable norm.
* make the data loader compatible with the old format.
* fix.
* add comments.
* fix a bug.
* add test for heterograph.
* support partition without reshuffle.
* add test.
* support partition without reshuffle.
* fix.
* add test.
* fix bugs.
* fix lint.
* fix dataset.
* fix for mxnet.
* update docstring.
* rename to floor_div
* avoid exposing NodePartitionPolicy and EdgePartitionPolicy.
* fix docstring.
* fix error.
* fixes.
* fix comments.
* rename.
* rename.
* explain IdMap.
* fix docstring.
* fix docstring.
* update docstring.
* remove the code of returning heterograph.
* remove argument.
* fix example.
* make GraphPartitionBook an abstract class.
* fix.
* fix.
* fix a bug.
* fix a bug in example
* fix a bug
* reverse heterograph sampling.
* temp fix.
* fix lint.
* Revert "temp fix."
This reverts commit c450717b9f578b8c48769c675f2a19d6c1e64381.
* compute norm.
* Revert "reverse heterograph sampling."
This reverts commit bd6deb7f52998de76508f800441ff518e2fadcb9.
* fix.
* move id_map.py
* remove check
* add more comments.
* update docstring.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-202.us-west-1.compute.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal >
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-62-171.ec2.internal >
2021-01-24 19:18:00 -08:00
492ad9be81
[Fix] Avoid Overloading Nonzero for PyTorch Backend ( #2434 )
...
* 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
62b4bbb494
[Fix] Enable mini-batch rgcn for CPU ( #2345 )
2020-11-16 17:27:54 +08:00
782527d481
Fix partition for 0.5.1 ( #2187 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-24-210.ec2.internal >
2020-09-13 16:25:51 +08:00
e8273a8510
update README.md ( #2138 )
2020-09-02 15:42:28 +08:00
1e3fcc7c53
update comments ( #2132 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-08-31 13:23:43 +08:00
0435b74c48
[Hotfix] Fix layer norm ( #2119 )
...
* hotfix
* Fix Layer Norm
Co-authored-by: Ubuntu <ubuntu@ip-172-31-87-240.ec2.internal >
2020-08-28 11:20:33 +08:00
0052f1212b
[Example] Rgcn distributed training ( #1999 )
...
* add entity_classify_dist
* upd
* update
* Fix
* Fix
* upd
* upd
* upd
* upd
* global eval
* Fix
* Fix
* Fix
* Fix
* FIx
* upd
* upd
* update
* support pytorch sparse embedding
* Fix
* Fix
* update Readme
* update with new API
* Fix
* update Readme
* add fanout for validation neighbor sampling
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-24-210.ec2.internal >
Co-authored-by: Chao Ma <mctt90@gmail.com >
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
2020-08-18 12:12:21 -07:00
be444e52d9
[Doc/Feature] Refactor, doc update and behavior fix for graphs ( #1983 )
...
* 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
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
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
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
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
Quan (Andy) Gan