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
303e42367d
Hot Fix docstring ( #1907 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-08-01 23:24:24 +08:00
b347590a37
[Dataset] Citation graph ( #1902 )
...
* citation graph
* GCN example use new citatoin dataset
* mxnet gat
* triger
* Fix
* Fix gat
* fix
* Fix tensorflow dgi
* Fix appnp, graphsage for mxnet
* fix monet and sgc for mxnet
* Fix tagcn
* update sgc, appnp
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-08-01 19:25:50 +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
18c960a1b5
[Dataset] Builtin MiniGCDataset ( #1890 )
...
* add minigc
* fix
* update docstrings
* update docstring
* add hash to fix save/load
* update hash
2020-07-31 17:40:02 +08:00
f05bd4971c
[Dataset] Builtin GINDataset ( #1889 )
...
* 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
fb02aa2d85
[Dataset] Add hash function to distinguish instances from the same dataset class ( #1894 )
...
* add hash function in base data classes
* update doc
2020-07-31 15:53:32 +08:00
71c7ee0e48
[Bugfix] add DGLWarning class ( #1898 )
...
* add DGLWarning class
* docstrings
* lint
2020-07-31 13:18:36 +08:00
b9ae536ecf
[Hotfix] fix excessive warnings ( #1896 )
2020-07-31 10:32:21 +08:00
dbb028acc8
[Dataset] Builtin knowledge graph dataset ( #1881 )
...
* 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
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
faa1dc56fc
hot fix ( #1888 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-07-30 12:02:49 +08:00
aee1067941
[Dataset] RDF dataset with DGL-Dataset template ( #1869 )
...
* 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
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
05a4337901
[Doc] Introduce the relation of message passing APIs and operators in docstring. ( #1878 )
...
* upd
* fix typo
* upd
2020-07-29 00:41:47 +08:00
2fa2b4534e
[Feature] Support higher order derivative for message passing. ( #1877 )
...
* upd
* fix typo
2020-07-28 23:11:06 +08:00
2b8eb5be6f
[refactor] Move spmm and sddmm operators to operator module ( #1873 )
...
* upd
* upd
* upd
* upd
2020-07-28 18:39:12 +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
1c1bb77231
hot fix ( #1871 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-68-185.ec2.internal >
2020-07-28 14:46:27 +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
0e896a921e
update. ( #1857 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-30-164.us-west-2.compute.internal >
2020-07-24 10:47:57 -07:00
53fc639201
[Torch] Fix inter-process communication for PyTorch ( #1858 )
...
* fix
* add comment
2020-07-24 18:15:24 +08:00
62077ef33b
[Distributed] update Metis ( #1856 )
...
* fix bugs.
* improve.
* more updates.
* remove print.
* change the heterograph version.
* fix.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-1.us-west-2.compute.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-30-164.us-west-2.compute.internal >
2020-07-23 21:06:22 -07:00
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
9d853977d2
Deprecate old random walk implementations ( #1846 )
2020-07-22 15:08:54 +08:00
41b905da71
Fix #1826 ( #1835 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-07-21 16:32:54 +08:00
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
64557819d9
Basic class for dgl datasetyy ( #1809 )
...
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal >
2020-07-20 13:12:36 +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
20734637f0
[Distributed] Fix partition ( #1821 )
...
* fix partition and print timing.
* fix lint.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-19-1.us-west-2.compute.internal >
2020-07-17 16:03:37 -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
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
Zihao Ye