d2ccd218cf
[hotfix] Allow creating graph from edges with restrict formats excluding coo. ( #1926 )
...
* upd
* upd
* upd
* upd
2020-08-04 00:33:36 +08:00
56339b34bf
[Fix] Update ogb examples according to new API. ( #1922 )
...
* 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
b5be4f4bbf
[Dataset] Update dataset hash with deterministic function ( #1919 )
...
* update hash with deterministic function
* update docstring
* add test on determination
2020-08-03 16:17:00 +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
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 )
...
* uipd
* upd
* upd
* upd
* upd
2020-08-02 00:59:27 +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
e5e1a99d46
[KVStore] Fix bug in barrier. ( #1904 )
...
* update
* update
* fix lint
* update
* update
2020-07-31 22:01:03 +08:00
03f251ced1
upd ( #1905 )
2020-07-31 20:13:24 +08:00
a28bfa9f5f
[hotfix] Activate kernel unittest for tensorflow ( #1895 )
...
* upd
* upd
* upd
* upd
* upd
* trigger
* simplify unittest
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2020-07-31 19:57:53 +08:00
f4608c2227
[CUDA][Kernel] A bunch of int64 kernels for COO and CSR ( #1883 )
...
* COO sort
* COOToCSR
* CSR2COO
* CSRSort; CSRTranspose
* pass all CSR tests
* lint
* remove int32 conversion
* fix tensorflow nn tests
* turn on CI
* fix
* addreess comments
2020-07-30 21:02:07 +08:00
5b515cf667
[KVStore] Support group barrier ( #1880 )
...
* udpate
* update
* update
* update
* update
* update
* update
* update
* fix lint
* update
* update
* update
* update
* udpate
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
2020-07-30 19:21:20 +08:00
444becf00a
[Misc] Move many deprecated codes to the deprecate folder ( #1893 )
...
* some file movements
* move some codes to deprecated
* more deprecation
* lint
* remove useless test
2020-07-30 18:17:33 +08:00
68a978d4de
[Model] Fixes JTNN for 0.5 ( #1879 )
...
* jtnn and fixes
* make metagraph a method
* fix test
* fix
2020-07-30 13:36:08 +08:00
3e2f94ed20
[Distributed] Refactor distributed training to new DGLGraph. ( #1874 )
...
* fix tests in partition.
* fix DistGraph.
* fix without shared memory.
* fix sampling.
* enable distributed test.
* fix tests.
* fix a bug in shared-mem heterograph.
* print better error messages.
* fix.
* don't specify formats.
* fix.
* fix
* small fix.
2020-07-28 22:07:24 -07:00
2fa2b4534e
[Feature] Support higher order derivative for message passing. ( #1877 )
...
* upd
* fix typo
2020-07-28 23:11:06 +08:00
71cf78652d
Revert "[Distributed] DistDataloader ( #1870 )" ( #1876 )
...
This reverts commit 6557291fdc
2020-07-28 17:57:57 +08:00
6557291fdc
[Distributed] DistDataloader ( #1870 )
...
* 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
Co-authored-by: Da Zheng <zhengda1936@gmail.com >
2020-07-28 16:36:37 +08:00
40950629b2
[Feature] Shared memory utilities ( #1807 )
...
* update
* update
* update
* update
* fix
* update
* fix
* update
* update
* win32
* update
* fix
* update
* update
* update
* updat
* update
* update
* fix
* update
* update
* update
* update
* update
* fix
* TODO
* 111
* fix
* minor fix
* minor fix
* fox
* Update shared_mem_manager.cc
* update
* update
* update
* update metis
* update metis
* update
Co-authored-by: VoVAllen <jz1749@nyu.edu >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2020-07-28 15:26:15 +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
015acfd2d8
[Distributed] Small fixes ( #1859 )
...
* fix node/edge_split.
* fix partition.
* support heterograph interface.
* fix test.
* fix
* fix docstring.
2020-07-27 01:39:48 -07:00
ff8f7082a3
[Distributed] turn off recording on embeddings in the inference. ( #1861 )
...
* turn on/off recording in sparse embedding.
* add test.
2020-07-27 00:42:40 -07:00
6963d796c5
[Distributed] update Embedding API ( #1847 )
...
* update.
* update Embedding.
* add comments.
* fix lint
Co-authored-by: Chao Ma <mctt90@gmail.com >
2020-07-26 11:59:41 -07:00
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
53fc639201
[Torch] Fix inter-process communication for PyTorch ( #1858 )
...
* fix
* add comment
2020-07-24 18:15:24 +08:00
33abd2757b
[HeteroGraph] Metis partition for hetero ( #1843 )
...
* metis for hetero
* fix partition
2020-07-22 16:31:10 +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
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
65e7805e22
[KVStore] Support delete_data() api on client ( #1824 )
...
* delete tensor
* update
* update
* update
* update
* update
* update
* udpate
* update
* update
* update
2020-07-20 12:24:23 +08:00
ea420c0abd
[Distributed] Reduce memory consumption in graph partitioning ( #1823 )
...
* save mem.
* save mem.
* reduce mem
* fix test
* fix lint
* fix test
* fix.
* fix.
* fix.
* fix.
* fix lint.
* fix backend operator.
* fix tensorflow operators.
* fix.
* revert change in mxnet operator.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-1.us-west-2.compute.internal >
2020-07-18 06:53:48 -07:00
0e92dad69a
[Transfom] Add support for to_bidirected of heterogeneous graphs ( #1793 )
...
* code
* joint_union
* joint union pass all test
* test case for test_transform
* upd
* lint
* lint
* Fix
* list
* Fix
* Fix
* update to_bidirected impl
* Fix
* Fix
* upd
* remove joint_union
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-07-15 18:01:02 +08:00
cda0abf75a
[Distributed] add the standalone mode in DistGraph ( #1800 )
...
* 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
a5722d02a4
[Transform] New ToSimple API ( #1789 )
...
* To simple
* lint
* upd
* more test
* fix
* Fix
* Fix
* add share edata
* doc
* Fix
* Fix
* Fix
* Fix
* lint
* lint
* Fix
* Fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2020-07-15 13:45:32 +08:00
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
be53add4d1
relax ( #1802 )
2020-07-14 09:44:42 +08:00
bc209bff94
[bugfix] Fix the deterministic of kernel test and add documentation. ( #1799 )
...
* upd
* upd
* upd
* relax
* relax too
* upd
2020-07-14 04:22:31 +08:00
f25b1a064d
[Feature] Autograd of gspmm and gsddmm on PyTorch/MXNet/Tensorflow ( #1680 )
...
* init
* reverse(by minjie
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* gpu
* upd
* upd
* upd
* upd
* udp
* upd
* upd
* imidiot
* fix
* upd
* upd
* upd
* udp
* upd
* upd
* fix
* udp
* upd
* upd
* upd
* upd
* upd
* fix
* remove redundency
* upd
* upd
* upd
* cache
* upd
* upd
* upd
* upd
* upd
* udp
* upd
* trigger
* upd
* fix
* upd
* unused import
* upd
* upd
2020-07-13 23:21:22 +08:00
c13903bf64
fix batched heterograph serializations ( #1794 )
2020-07-13 19:43:56 +08:00
200340ab38
[Transform] Reverse for heterogenous graph ( #1784 )
...
* reverse
* Add more test
* Fix lint
* Fix
* move to transform
* upd
* upd
* upd
* Add more test
* lint
* Fix
* Fix doc
* Fix
* test
* doc
* Fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-07-13 18:05:44 +08:00
fb9d213848
Fix SAGEConv ( #1792 )
2020-07-12 13:32:14 +08:00
8a183e3fcb
[BugFix] Fix #1779 ( #1781 )
...
* Fix bug #1779
* Fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-07-10 17:35:23 +08:00
33330fcb2d
[Kernel] Line graph with new Kernel ( #1744 )
...
* line graph
* update docstring
* Add test and compile OK
* Add python API
* Fix linty
* Fix
* Fix
* upd
* upd
* Fix
* merge
* Fix
* fix
* upd
* lint
* Fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2020-07-10 12:24:01 +08:00
27cad329db
[Kernel] Matrix Union ( #1752 )
...
* Matrix union
* Pass test
* Fix lint
* return map for unionCOO/unionCSR
* Revert "return map for unionCOO/unionCSR"
This reverts commit 28e96c40f0659f02b33d88bcf528af6a6267726d.
* Update
* lint
* lint
* Fix doc
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-07-09 14:22:49 +08:00
29e6c93fba
[Kernel] Matrix toSimple ( #1756 )
...
* Matrix to simple
* Pass test
* new impl
* Fix test
* Fix lint
* trigger
* upd
* Fix comments
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-07-09 13:50:41 +08:00
167216afc8
[Distributed] add in_subgraph on DistGraph. ( #1755 )
...
* add in_subgraph on DistGraph.
* check in more.
* fix test.
* add comments.
* fix test.
* update test.
* update.
* rename.
* update comment
* fix test
2020-07-08 14:39:21 -07:00
bdc1e649e0
[RPC] Client will retry connection until the server starts. ( #1758 )
...
* update
* update
* update
2020-07-07 13:34:41 +08:00
afb7f5b839
[Distributed] fix init_data in kvstore. ( #1750 )
...
* fix
* fix.
* update.
* fix
* add assert
Co-authored-by: Chao Ma <mctt90@gmail.com >
2020-07-06 23:02:00 +08:00
9cd0d3f80d
[Aten] Add nonzero op ( #1746 )
...
* add nonzero op
* 111
* fix doc
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2020-07-05 22:20:59 +08:00
cc73c60cbc
[Bug Fix] Fix Heterogenous graph save crash when some edge type names are identical. ( #1751 )
...
* Fix hetero serialize
* Add test case
y
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2020-07-04 21:44:53 +08:00
feabcabd97
[Kernel]GraphOp::Reverse ( #1730 )
...
* Compile OK
* Fix compile
* Explore reverse to heterograph_indx and add python test code
* lint
* Fix some bug
* Fix bug
* upd
* Fix
* fix lint
* Fix
* Fix
* test
* triger
* Fix
* upd
* add TODO
* upd
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
Co-authored-by: Zihao Ye <expye@outlook.com >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2020-07-04 13:52:47 +08:00
Zihao Ye