GitLab

* [Misc] clang-format auto fix.

* manual
Co-authored-by: Steve <ubuntu@ip-172-31-34-29.ap-northeast-1.compute.internal>

* rename `DLContext` to `DGLContext`

* rename `kDLGPU` to `kDLCUDA`

* replace DLTensor with DGLArray

* fix linting

* Unify DGLType and DLDataType to DGLDataType

* Fix FFI

* rename DLDeviceType to DGLDeviceType

* decouple dlpack from the core library

* fix bug

* fix lint

* fix merge

* fix build

* address comments

* rename dl_converter to dlpack_convert

* remove redundant comments

* [Performance] improve coo2csr space complexity when row is not sorted

* [Perf] replace std::vector<> by NDArray

* keep both impl of unsorted coo to csr and choose according to graph density dynamically

* refine criteria to choose btw Unsorted algos
Co-authored-by: Ubuntu <ubuntu@ip-172-31-34-27.us-west-2.compute.internal>

* COO sort

* COOToCSR

* CSR2COO

* CSRSort; CSRTranspose

* pass all CSR tests

* lint

* remove int32 conversion

* fix tensorflow nn tests

* turn on CI

* fix

* addreess comments

* 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>

* add cub; array cumsum

* CSRSliceRows

* fix warning

* operator << for ndarray; CSRSliceRows

* add CSRIsSorted

* add csr_sort

* inplace coosort and outplace csrsort

* WIP: coo is sorted

* mv cuda_utils

* add AllTrue utility

* csr sort

* coo sort

* coo2csr for sorted coo arrays

* CSRToCOO from sorted

* pass tests for the new kernel changes

* cannot use inplace sort

* lint

* try fix msvc error

* Fix g.copy_to and g.asnumbits; ToBlock no longer uses CSC

* stash

* revert some hack

* revert some changes

* address comments

* fix

* fix to_block unittest

* add todo note

* add cuda utils; change g.to; add g.device

* split array.h into several headers

* cuda index select

* file

* three cuda kernels

* add cuda elementwise arith and several others

* cuda CSRIsNonZero

* fix lint

* lint

* lint

* fix bug in changing ctx to property

* address comments

* remove unused codes

* address comments

* add reorder immutable graph.

* add python API.

* add reorder for csr.

* remove gk version.

* fix

* add cpp test.

* bug fixes

* fix tests.

* fix bugs and add check

* fix test.

* add omp.

* add comments.

* add coo reorder.

* fix a bug.

* handle reorder for different graph structues.

* fix lint.

* fix.

* add original ids.

* reshuffle nodes before metis partition.

* inner nodes are in contiguous Id range.

* reshuffle nodes/edges when partitioning.

* load partition return graph partition book.

* use inner_node/inner_edges

* add and test range partition book.

* count inner_edge correctly.

* fix lint.

* fix lint.

* fix lint.

* fix errors.

* fix errors.

* fix for TF.

* fix.

* fix.

* change docstring.

* support logical and.

* add comments.

* avoid copy.

* fix

* update docstring.

* fix a bug.

* add range search.

* fix

* fix a bug.

* add more tests.

* load graph partition book.

* support shared memory for range partition book.

* fix a bug.

* fix.

* fix lint.

* remove check

* fix test.

* remove num_nodes and num_edges

* fix lint.

* fix graph partition book.

* address comments.

* use makedirs.

* fix compile
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com>
Co-authored-by: Chao Ma <mctt90@gmail.com>

* add cuda source

* moving codes from kernel2 branch

* operator overloading

* Better error message for unsupported device

* fix c tests

* coo sort using cusparse

* move test_rpc to distributed

* lint

* address comments and add utests
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
Co-authored-by: Chao Ma <mctt90@gmail.com>
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com>

* Fix coo_sort

* Add COOSort test

* Fix

* omp

* coo2csr can benefit from sorted coo

* Add more test code

* Add LIBCXX_ENABLE_PARALLEL_ALGORITHMS to Makefile

* upd

* Turn off LIBCXX_ENABLE_PARALLEL_ALGORITHMS by default
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>

* improve performance of sample_neighbors

* some more improve

* test script

* benchmarks

* multi process

* update more tests

* WIP

* adding two API for state saving

* add create from state

* upd test

* missing file

* wip: pickle/unpickle

* more c apis

* find the problem of empty data array

* add null array; pickling speed is bad

* still bad perf

* still bad perf

* wip

* fix the pickle speed test; now everything looks good

* minor fix

* bugfix

* some lint fix

* address comments

* more fix

* fix lint

* add utest for random.choice

* add utest for dgl.rand_graph

* fix cpp utests

* try fix ci

* fix bug in TF backend

* upd choice docstring

* address comments

* upd

* try fix compile

* add comment

* sort

* sort in parallel.

* fix a bug in sorting adj

* rename.

* add more comments.

* accelerate GetData

* fix tests.

* avoid sorting multiple times.

* add test.

* change back.

* sort.

* add sort_csr.

* Fix a bug.

* fix.

* revert modifcation.

* rename

* speed up EdgeIds.

* WIP: array refactoring

* WIP: implementation

* wip

* most csr part

* WIP: on coo

* WIP: coo

* finish refactoring immutable graph

* compiled

* fix undefined ndarray copy bug; add COOToCSR when coo has no data array

* fix bug in COOToCSR

* fix bug in CSR constructor

* fix bug in in_edges(vid)

* fix OutEdges bug

* pass test_graph

* pass test_graph

* fix bug in CSR constructor

* fix bug in CSR constructor

* fix bug in CSR constructor

* fix stupid bug

* pass gpu test

* remove debug printout

* fix lint

* rm biparate grpah

* fix lint

* address comments

* fix bug in Clone

* cpp utests