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
9d853977d2
Deprecate old random walk implementations ( #1846 )
2020-07-22 15:08:54 +08:00
dc8ca88e58
[Refactor] Explicit dtype for HeteroGraph ( #1467 )
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* 111
* 111
* lint
* lint
* lint
* lint
* fix
* lint
* try
* fix
* lint
* lint
* test
* fix
* ttt
* test
* fix
* fix
* fix
* mxnet
* 111
* fix 64bits computation
* pylint
* roll back
* fix
* lint
* fix hetero_from_relations
* remove index_dtype in to_homo and to_hetero
* fix
* fix
* fix
* fix
* remove default
* fix
* lint
* fix
* fix error message
* fix error
* lint
* macro dispatch
* try
* lint
* remove nbits
* error message
* fix
* fix
* lint
* lint
* lint
* fix
* lint
* fix
* fix random walk
* lint
* lint
* fix
* fix
* fix
* lint
* fix
* lint
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2020-05-08 14:26:28 +08:00
1c4bfb62bb
[Performance] Replace np.array with np.asarray ( #1301 )
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* replace np.array with np.asarray
* fix
Co-authored-by: Minjie Wang <minjie.wang@nyu.edu >
2020-03-03 20:45:41 +08:00
e3921d5dec
[Sampler] Metapath sampler for metapath2vec ( #861 )
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* metapath sampler
* lint & fixes
* lint x2
* lint x3
* fix windows
* remove max_cycle argument
* add todo note
2019-09-26 16:42:33 -04:00
67dc11971f
[Refactor] Use object system for all CAPIs ( #716 )
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* WIP: using object system for graph
* c++ side refactoring done; compiled
* remove stale apis
* fix bug in DGLGraphCreate; passed test_graph.py
* fix bug in python modify; passed utest for pytorch/cpu
* fix lint
* address comments
2019-07-23 12:47:05 -04:00
21e172d076
[Bugfix] fix numpy integer bug ( #580 )
2019-05-29 21:48:36 -04:00
6066fee935
[Model][Feature] PinSage & Random Walk with Restart ( #453 )
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* random walk traces generation
* remove outdated comments
* oops put in the wrong place
* explicit inline
* moving rand_r to util
* pinsage-like model on movielens
* the code runs now
* support cuda
* using readonly graph
* moving random walk to public function
* per-thread seed and openmp support
* pinsage-like model on movielens
* the code runs now
* support cuda
* using readonly graph
* using C random walk
* removing profile decorators
* param initialization
* no grad
* leaky relu fixes everything
* train and save
* WIP
* WIP
* WIP
* seems to work
* evaluation output
* swapping order of val/test and train
* debug
* hyperparam tuning
* prior/training dataset split changes
* random walk reorg
* random walk with restart
* signed comparison fix
* migrating random walk to nodeflow
* Revert "migrating random walk to nodeflow"
This reverts commit f2565347cced7c912a58a529b257c033d9f375b7.
* add README and remove dataset
* new endpoint
* lint
* lint x2
* oops forgot test
* including bpr - better for baseline
* addressing fixes
* throwing random walks out from SamplerOp class
* forgot to move RandomWalk; why did this even work?
* removing legacy garbage
* add todo
* address comments
* stupid bug fix
* call ndarrayvector converter to handle traces
2019-03-29 13:01:18 +08:00
2e1cbd5d68
[Feature] Random walk traces generation ( #392 )
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* random walk traces generation
* remove outdated comments
* oops put in the wrong place
* explicit inline
* moving rand_r to util
* moving random walk to public function
* per-thread seed and openmp support
* type cast styles
2019-02-20 10:41:59 -05:00
Minjie Wang