文件历史

24 次代码提交

作者 SHA1 备注 提交日期
Quan (Andy) Gan 52d4535b61 [Hetero][RFC] Heterogeneous graph Python interfaces & Message Passing (#752)
* moving heterograph index to another file

* node view

* python interfaces

* heterograph init

* bug fixes

* docstring for readonly

* more docstring

* unit tests & lint

* oops

* oops x2

* removed node/edge addition

* addressed comments

* lint

* rw on frames with one node/edge type

* homograph with underlying heterograph demo

* view is not necessary

* bugfix

* replace

* scheduler, builtins not working yet

* moving bipartite.h to header

* moving back bipartite to bipartite.h

* oops

* asbits and copyto for bipartite

* tested update_all and send_and_recv

* lightweight node & edge type retrieval

* oops

* sorry

* removing obsolete code

* oops

* lint

* various bug fixes & more tests

* UDF tests

* multiple type number_of_nodes and number_of_edges

* docstring fixes

* more tests

* going for dict in initialization

* lint

* updated api as per discussions

* lint

* bug

* bugfix

* moving back bipartite impl to cc

* note on views

* fix
2019-08-23 15:45:37 -04:00
Quan (Andy) Gan e9e587b6cb [Refactor] C random number generator (#729)
* rng refactor

* fix bugs

* unit test

* remove setsize

* lint

* fix test

* use explicit instantiation instead of inlining

* stricter test

* use tvm solution

* moved python interface to dgl.random

* lint

* address comments

* make getthreadid an inline function
2019-07-31 17:54:30 +08:00
Minjie Wang 90e78c5854 [FFI] FFI container support, custom structure extension via Object (#693)
* WIP: import tvm runtime node system

* WIP: object system

* containers

* tested basic container composition

* tested custom object

* fix setattr bug

* tested object container return

* fix lint

* some comments about get/set state

* fix lint

* fix lint

* update cython

* fix cython

* ffi doc

* fix doc
2019-07-01 14:40:07 -04:00
Chao Ma 5d494c6207 [RPC] add C++ RPC infrastructure and distributed sampler (#465)
* add C++ rpc infrastructure and distributed sampler

* update

* update lint

* update lint

* update lint

* update

* update

* update

* updare

* update

* update

* update

* update serialize and unittest

* update serialize

* lint

* update

* update

* update

* update

* update

* update

* update unittest

* put Finalize() to __del__

* update unittest

* update

* delete buffer in Finalize

* update unittest

* update unittest

* update unittest

* update unittest

* update

* update

* fix small bug

* windows socket impl

* update API

* fix bug in serialize

* fix bug in serialzie

* set parent graph

* update

* update

* update

* update

* update

* update

* fix lint

* fix lint

* fix

* fix windows compilation error

* fix windows error

* change API to lower-case

* update test

* fix typo

* update

* add SamplerPool

* add SamplerPool

* update

* update test

* update

* update

* update

* update

* add example

* update

* update
2019-03-29 16:48:45 +08:00
Minjie Wang ca2a7e1ca1 [Refactor] Nodeflow, sampling, CAPI (#430)
* enable cython

* add helper function and data structure for void_p vector return

* move sampler from graph index to contrib.sampling

* WIP

* WIP

* refactor layer sampling

* pass tests

* fix lint

* fix graphsage

* remove comments

* pickle test

* fix comments

* update dev guide for cython build
2019-03-05 14:07:22 -05:00
Mufei Li 24bbdb745e [Feature] Reversed Graph and Transform Module (#331)
* reverse a graph

* Reverse a graph

* Fix

* Revert "Fix"

This reverts commit 1728826b4f3a083b76dfc0fdecd2bbf943a971b2.

* Fix

* Fix

* Delete vcs.xml

* Delete Project_Default.xml

* Fix

* Fix

* Fix

* Remove outdated test

* Reorg transform and update reverse (#2)

* Reorg transform and update reverse

* Fix doc and test

* Update test

* Resolve conflict

* CI oriented fix

* Remove outdated import

* Fix import

* Fix import

* define __all__ for wildcard imports

* Fix import

* Address circular imports

* Fix

* Fix test case

* Fix

* Fix

* Remove unused import

* Fix

* Fix

* Fix
2019-01-04 13:51:19 -05:00
Minjie Wang 4bd4d6e348 [Lint] Pylint (#330)
* fix lint for graph_index.py

* pylint for base.py

* pylint for batched_graph.py

* pylint for frame.py; simplify and fix bugs in frame when index is slice type

* pylint for graph.py

* pylint for immutable_graph_index.py

* pylint for init.py

* pylint for rest files in root package

* pylint for _ffi package

* pylint for function package

* pylint for runtime package

* pylint for runtime.ir package

* add pylint to ci

* fix mx tests

* fix lint errors

* fix ci

* fix as requested

* fix lint
2019-01-01 15:15:41 -05:00
VoVAllen cd907cddfa [Tutorial] Add sse tutorial & MXNet Tutorial CI (#252)
* add sse tutorial

* add mxnet tutorial ci

* fix ci

* fix ci

* fix ci

* fix ci

* fix ci

* fix ci

* Fix ci

* Fix ci

* Fix ci

* fix ci

* fix ci

* fix ci

* fix ci

* fix ci

* fix ci

* Fix CI

Fix CI image

* permission fix

* fix a bug in the code.

* small fix

* fix doc

* fix ci

* shorten the iters

* fix

* remove extra file

* add load_backend api to dynamically switch to another backend

* try fix

* fix tutorial

* fix tutorial

* fix bug in tutorial
2018-12-05 16:21:44 -05:00
Da Zheng 2389df8155 [API] Subgraph sampling API. (#138)
* add neighbor sampler.

* fix sampler.

* handle non-existing nodes differently in MapParentIdToSubgraphId.

* fix sampling tests.

* parallelize sampling.

* add more tests.

* fix a bug in subgraph loader.

* get number of sampled nodes directly.

* load mxnet CSR to DGLGraph directly.

* create graph from mxnet csr array directly.

* use subgraph loader in SSE.

* fix a bug in sampling.

* output framework tensor.

* fix.

* remove unnecessary code.

* fix tests.

* add SSE README.

* move to contrib.

* address comments.

* add tests.
2018-11-14 13:51:27 -08:00
Minjie Wang 8ea359d125 [API] Message propagation APIs (#127)
* add examples in traversal.py

* message propagate methods

* use the new message propagation for tree-lstm

* update to the new name

* update propagate API doc

* update doc

* add propagate utest
2018-11-09 15:04:57 -05:00
Gan Quan 72efb42718 [Bugfix] fixes NLTK dependency (#125) and #126 (#131) 2018-11-09 14:16:52 -05:00
GaiYu0 2319167444 [API] Graph traversal (#103)
* bfs, dfs and topological traversal

* dfs and test cases

* Conflicts:
	python/dgl/graph.py
	src/graph/graph.cc
	src/graph/graph_op.cc

* documentation

* requested changes

* Conflicts:
	Jenkinsfile
	examples/pytorch/gcn/gcn.py
	examples/pytorch/gcn/gcn_spmv.py
	python/dgl/graph.py
	python/dgl/graph_index.py
	src/graph/graph.cc
	src/graph/graph_op.cc

* Conflicts:
	Jenkinsfile
	python/dgl/graph_index.py

* fix lint errors

* fix lint errors

* fix lint errors

* fix test cases

* requested changes

* traversal interface

* [Bug] fixed a typo that caused syntax error (#120)

* WIP

* bfs nodes generator works

* topological traversal

* WIP: dfs_edges

* dfs edges

* dfs labeled edges

* utest for traversal

* fix lint

* fix utest

* code clean

* changes as requested
2018-11-08 10:14:19 -05:00
Minjie Wang 68ec624782 [API][Doc] API change & basic tutorials (#113)
* Add SH tutorials

* setup sphinx-gallery; work on graph tutorial

* draft dglgraph tutorial

* update readme to include document url

* rm obsolete file

* Draft the message passing tutorial

* Capsule code (#102)

* add capsule example

* clean code

* better naming

* better naming

* [GCN]tutorial scaffold

* fix capsule example code

* remove previous capsule example code

* graph struc edit

* modified:   2_graph.py

* update doc of capsule

* update capsule docs

* update capsule docs

* add msg passing prime

* GCN-GAT tutorial Section 1 and 2

* comment for API improvement

* section 3

* Tutorial API change (#115)

* change the API as discusses; toy example

* enable the new set/get syntax

* fixed pytorch utest

* fixed gcn example

* fixed gat example

* fixed mx utests

* fix mx utest

* delete apply edges; add utest for update_edges

* small change on toy example

* fix utest

* fix out in degrees bug

* update pagerank example and add it to CI

* add delitem for dataview

* make edges() return form that is compatible with send/update_edges etc

* fix index bug when the given data is one-int-tensor

* fix doc
2018-11-02 17:19:14 -04:00
Lingfan Yu dce1f44d46 CI lint check (#93)
* CI for lint check

* init submodule before run lint

* install ubuntu core for lint docker

* remove generator import in dgl
2018-10-18 23:50:24 -04:00
Minjie Wang 3e76bcc052 remove anonymous repr 2018-10-18 21:43:40 -04:00
Minjie Wang 1b06998465 doc for batched graph 2018-10-05 15:07:42 -04:00
Minjie Wang c086d454d3 Use TVMContext 2018-09-16 16:56:29 -04:00
Minjie Wang 2694b12725 import ffi solution from TVM 2018-09-05 10:51:31 -04:00
Minjie Wang 3721822e9e Subgraph API (#39)
* subgraph

* more test cases

* WIP

* new FrameRef and test

* separate nx init code

* WIP

* subgraph code and test

* line graph code and test

* adding new test for adding new features on line graphs

* no backtracking line graph

* fix inplace relabel
2018-08-18 14:14:43 -04:00
Lingfan Yu 96179b0c96 Deep Generative Models of Graphs (#14)
* model code for generative graphs

* batched version for dynamic graph generation using padding

* renaming function train back to forward

* remove old util function for padding DGMG

* override networkx clear to reset state, add dgl.nn

* Dynamic graph without batching

* use relative import path

* load dataset, pad batch

* bug fix

* experimental batch and unbatch

* dgmg batched version

* minor tweak

* move preprocessing padding into data loading

* batch graph test code

* minor

* batched graph class and test cases

* make dgl.nn.gcn a simple layer plus minor fix

* update dgmg model

* test forward using attribute field

* use frame append, minor changes

* moving networkx operations out of forward

* revert some changes

* remove structural immutability check
2018-08-16 14:05:50 -04:00
Minjie Wang 2c489fadec SPMV specialization (#32)
* fix edge list order problem in cached graph.

* minor fix

* fix bug in edge iter

* SPMV works

* gcn spmv on CPU

* change gcn style

* fix cached graph performance; fixed gcn dataset bug

* reorg dir

* non-batch spmv; partial update problem with shape change

* fix reorder problem; finish gcn-batch impl

* pop API

* GPU context
2018-08-06 14:00:06 -04:00
Minjie Wang 11e42d1094 Batching semantics and naive frame storage (#31)
* batch message_func, reduce_func and update_func

Conflicts:
	python/dgl/backend/pytorch.py

* test cases for batching

Conflicts:
	python/dgl/graph.py

* resolve conflicts

* setter/getter

Conflicts:
	python/dgl/graph.py

* test setter/getter

Conflicts:
	python/dgl/graph.py

* merge DGLGraph and DGLBGraph

Conflicts:
	python/dgl/graph.py

Conflicts:
	python/dgl/graph.py

* batchability test

Conflicts:
	python/dgl/graph.py

Conflicts:
	python/dgl/graph.py

* New interface (draft)

Conflicts:
	_reference/gat_mx.py
	_reference/molecular-gcn.py
	_reference/molecular-gcn_mx.py
	_reference/multi-gcn.py
	_reference/multi-gcn_mx.py
	_reference/mx.py
	python/dgl/graph.py

* Batch operations on graph

Conflicts:
	.gitignore
	python/dgl/backend/__init__.py
	python/dgl/backend/numpy.py
	python/dgl/graph.py

* sendto

* storage

* NodeDict

* DGLFrame/DGLArray

* scaffold code for graph.py

* clean up files; initial frame code

* basic frame tests using pytorch

* frame autograd test passed

* fix non-batched tests

* initial code for cached graph; tested

* batch sendto

* batch recv

* update routines

* update all

* anonymous repr batching

* specialize test

* igraph dep

* fix

* fix

* fix

* fix

* fix

* clean some files

* batch setter and getter

* fix utests
2018-07-30 14:10:37 -04:00
Minjie Wang d24ccfdda6 Anonymous node/edge repr (#24)
* Remove name args in register/sendto/update_edge/recvfrom

* Support anonymous repr

* Test anonymous edge repr

* Test node states with both anonymous and explicit reprs
2018-07-11 15:15:47 -04:00
Minjie Wang 15a2c22c98 Reorg folders; basic impl of the APIs 2018-06-14 21:37:43 -04:00