GitLab

* PR3355 + CSR conversion workaround

* Remove debug code

* Fix convention errors

* Remove wrongly added code section during merge

* Update to reflect dataloading changes

* Fix missing changes

* Remove comment

* Fix linter errors

* Fix trailing whitespace

* Add wrapper around worker init function
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com>

* add ut

* add doc link

* install dep

* fix  ci

* fix ut; more comments

* remove deprecated attributes in rdf datasets; fix label feature name

* address comments

* fix ut for other frameworks

* [Feature] add CSVDataset to load data from csv files

* add CSVDataset class file

* install pyyaml when running unit tests

* install pandas for unit tests

* utilize pydantic for YAML config check

* generate yaml and csv files during test

* make more keys as optional

* remove/rename several keys in yaml config and more tets though looks a bit clumsy

* fix test failure on mxnet

* pass /path/to/dataset instead of yaml path

* code refinement

* code refine

* change several yaml field such as feat and graph_id

* merge graph generation logic

* refine code

* Refactored_first_version

* DGLCSVDataset works for single heterograph

* add more tests

* fix test failure in mxnet

* add docstring

* use list comprehension for dict

* fix version in YAML

* refine data length assert

* use dict.pop directly

* remove ambiguous variable names

* refine graph id missing logic

* refine graph create call

* separate node/edge/graph data parser

* remove separator in DefaultDataParser

* refine validation error log for yaml field

* minor check

* refine code via dict.get()

* move load_from_csv into Node/Edge/GraphData

* move _parse_node/edge/graph_data into Node/Edge/GraphData

* refine id-related fields check

* check duplicate ntypes/etypes when load yaml

* refine docstring

* some file movements

* move some codes to deprecated

* more deprecation

* lint

* remove useless test

* tf

* add builtin support

* fiix

* pytest

* fix

* fix

* fix some bugs

* fix selecting

* fix todo

* fix test

* fix test fail in tf

* fix

* fix

* fix gather row

* fix gather row

* log backend

* fix gather row

* fix gather row

* fix for pytorch

* fix

* fix

* fix

* fix

* fix

* fix tests

* fix

* fix

* fix

* fix

* fix

* fix

* fix convert

* fix

* fix

* fix

* fix inplace

* add alignment setting

* add debug option

* Revert "add alignment setting"

This reverts commit ec63fb3506ea84fff7d447a1fbdfd1d5d1fb6110.

* tf ci

* fix lint

* fix lint

* add tfdlpack

* fix type

* add env

* fix backend

* fix

* fix tests

* remove one_hot

* remove comment

* remove comment

* fix

* use pip to install all

* fix test

* fix base

* fix

* fix

* add skip

* upgrade cmake

* change version

* change ci

* fix

* fix

* fix

* fix

* fix seg fault

* fix

* fix python version

* fix

* try fix

* fix

* fix

* tf takes longer time in ci

* change py version

* fix

* fix

* fix oom

* change kg env

* change kg env

* 啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊啊

* 我再也不搞各种乱七八糟环境了……

* use pytest

* Chang image

* try venv for win64

* update

* update

* trying another

* update

* update

* update

* trigger ci

* update

* update

* [Kernel] Minigun integration and fused kernel support (#519)

* kernel interface

* add minigun

* Add cuda build

* functors

* working on binary elewise

* binary reduce

* change kernel interface

* WIP

* wip

* fix minigun

* compile

* binary reduce kernels

* compile

* simple test passed

* more reducers

* fix thrust problem

* fix cmake

* fix cmake; add proper guard for atomic

* WIP: bcast

* WIP

* bcast kernels

* update to new minigun pass-by-value practice

* broadcasting dim

* add copy src and copy edge

* fix linking

* fix none array problem

* fix copy edge

* add device_type and device_id to backend operator

* cache csr adj, remove cache for adjmat and incmat

* custom ops in backend and pytorch impl

* change dgl-mg kernel python interface

* add id_mapping var

* clean up plus v2e spmv schedule

* spmv schedule & clean up fall back

* symbolic message and reduce func, remove bundle func

* new executors

* new backend interface for dgl kernels and pytorch impl

* minor fix

* fix

* fix docstring, comments, func names

* nodeflow

* fix message id mapping and bugs...

* pytorch test case & fix

* backward binary reduce

* fix bug

* WIP: cusparse

* change to int32 csr for cusparse workaround

* disable cusparse

* change back to int64

* broadcasting backward

* cusparse; WIP: add rev_csr

* unit test for kernels

* pytorch backward with dgl kernel

* edge softmax

* fix backward

* improve softmax

* cache edge on device

* cache mappings on device

* fix partial forward code

* cusparse done

* copy_src_sum with cusparse

* rm id getter

* reduce grad for broadcast

* copy edge reduce backward

* kernel unit test for broadcasting

* full kernel unit test

* add cpu kernels

* edge softmax unit test

* missing ref

* fix compile and small bugs

* fix bug in bcast

* Add backward both

* fix torch utests

* expose infershape

* create out tensor in python

* fix c++ lint

* [Kernel] Add GPU utest and kernel utest (#524)

* fix gpu utest

* cuda utest runnable

* temp disable test nodeflow; unified test for kernel

* cuda test kernel done

* [Kernel] Update kernel branch (#550)

* [Model] add multiprocessing training with sampling. (#484)

* reorganize sampling code.

* add multi-process training.

* speed up gcn_cv

* fix graphsage_cv.

* add new API in graph store.

* update barrier impl.

* support both local and distributed training.

* fix multiprocess train.

* fix.

* fix barrier.

* add script for loading data.

* multiprocessing sampling.

* accel training.

* replace pull with spmv for speedup.

* nodeflow copy from parent with context.

* enable GPU.

* fix a bug in graph store.

* enable multi-GPU training.

* fix lint.

* add comments.

* rename to run_store_server.py

* fix gcn_cv.

* fix a minor bug in sampler.

* handle error better in graph store.

* improve graphsage_cv for distributed mode.

* update README.

* fix.

* update.

* [Tutorial] add sampling tutorial. (#522)

* add sampling tutorial.

* add readme

* update author list.

* fix indent in the code.

* rename the file.

* update tutorial.

* fix the last API.

* update image.

* [BUGFIX] fix the problems in the sampling tutorial. (#523)

* add index.

* update.

* update tutorial.

* fix gpu utest

* cuda utest runnable

* temp disable test nodeflow; unified test for kernel

* cuda test kernel done

* Fixing typo in JTNN after interface change (#536)

* [BugFix] Fix getting src and dst id of ALL edges in NodeFlow.apply_block (#515)

* [Bug Fix] Fix inplace op at backend (#546)

* Fix inplace operation

* fix line seprator

* [Feature] Add batch and unbatch for immutable graph (#539)

* Add batch and unbatch for immutable graph

* fix line seprator

* fix lintr

* remove unnecessary include

* fix code review

* [BUGFix] Improve multi-processing training (#526)

* fix.

* add comment.

* remove.

* temp fix.

* initialize for shared memory.

* fix graphsage.

* fix gcn.

* add more unit tests.

* add more tests.

* avoid creating shared-memory exclusively.

* redefine remote initializer.

* improve initializer.

* fix unit test.

* fix lint.

* fix lint.

* initialize data in the graph store server properly.

* fix test.

* fix test.

* fix test.

* small fix.

* add comments.

* cleanup server.

* test graph store with a random port.

* print.

* print to stderr.

* test1

* test2

* remove comment.

* adjust the initializer signature.

* [API] update graph store API. (#549)

* add init_ndata and init_edata in DGLGraph.

* adjust SharedMemoryGraph API.

* print warning.

* fix comment.

* update example

* fix.

* fix examples.

* add unit tests.

* add comments.

* [Refactor] Immutable graph index (#543)

* WIP

* header

* WIP .cc

* WIP

* transpose

* wip

* immutable graph .h and .cc

* WIP: nodeflow.cc

* compile

* remove all tmp dl managed ctx; they caused refcount issue

* one simple test

* WIP: testing

* test_graph

* fix graph index

* fix bug in sampler; pass pytorch utest

* WIP on mxnet

* fix lint

* fix mxnet unittest w/ unfortunate workaround

* fix msvc

* fix lint

* SliceRows and test_nodeflow

* resolve reviews

* resolve reviews

* try fix win ci

* try fix win ci

* poke win ci again

* poke

* lazy multigraph flag; stackoverflow error

* revert node subgraph test

* lazy object

* try fix win build

* try fix win build

* poke ci

* fix build script

* fix compile

* add a todo

* fix reviews

* fix compile

* [Kernel] Update kernel branch (#576)

* [Model] add multiprocessing training with sampling. (#484)

* reorganize sampling code.

* add multi-process training.

* speed up gcn_cv

* fix graphsage_cv.

* add new API in graph store.

* update barrier impl.

* support both local and distributed training.

* fix multiprocess train.

* fix.

* fix barrier.

* add script for loading data.

* multiprocessing sampling.

* accel training.

* replace pull with spmv for speedup.

* nodeflow copy from parent with context.

* enable GPU.

* fix a bug in graph store.

* enable multi-GPU training.

* fix lint.

* add comments.

* rename to run_store_server.py

* fix gcn_cv.

* fix a minor bug in sampler.

* handle error better in graph store.

* improve graphsage_cv for distributed mode.

* update README.

* fix.

* update.

* [Tutorial] add sampling tutorial. (#522)

* add sampling tutorial.

* add readme

* update author list.

* fix indent in the code.

* rename the file.

* update tutorial.

* fix the last API.

* update image.

* [BUGFIX] fix the problems in the sampling tutorial. (#523)

* add index.

* update.

* update tutorial.

* fix gpu utest

* cuda utest runnable

* temp disable test nodeflow; unified test for kernel

* cuda test kernel done

* Fixing typo in JTNN after interface change (#536)

* [BugFix] Fix getting src and dst id of ALL edges in NodeFlow.apply_block (#515)

* [Bug Fix] Fix inplace op at backend (#546)

* Fix inplace operation

* fix line seprator

* [Feature] Add batch and unbatch for immutable graph (#539)

* Add batch and unbatch for immutable graph

* fix line seprator

* fix lintr

* remove unnecessary include

* fix code review

* [BUGFix] Improve multi-processing training (#526)

* fix.

* add comment.

* remove.

* temp fix.

* initialize for shared memory.

* fix graphsage.

* fix gcn.

* add more unit tests.

* add more tests.

* avoid creating shared-memory exclusively.

* redefine remote initializer.

* improve initializer.

* fix unit test.

* fix lint.

* fix lint.

* initialize data in the graph store server properly.

* fix test.

* fix test.

* fix test.

* small fix.

* add comments.

* cleanup server.

* test graph store with a random port.

* print.

* print to stderr.

* test1

* test2

* remove comment.

* adjust the initializer signature.

* [API] update graph store API. (#549)

* add init_ndata and init_edata in DGLGraph.

* adjust SharedMemoryGraph API.

* print warning.

* fix comment.

* update example

* fix.

* fix examples.

* add unit tests.

* add comments.

* [Refactor] Immutable graph index (#543)

* WIP

* header

* WIP .cc

* WIP

* transpose

* wip

* immutable graph .h and .cc

* WIP: nodeflow.cc

* compile

* remove all tmp dl managed ctx; they caused refcount issue

* one simple test

* WIP: testing

* test_graph

* fix graph index

* fix bug in sampler; pass pytorch utest

* WIP on mxnet

* fix lint

* fix mxnet unittest w/ unfortunate workaround

* fix msvc

* fix lint

* SliceRows and test_nodeflow

* resolve reviews

* resolve reviews

* try fix win ci

* try fix win ci

* poke win ci again

* poke

* lazy multigraph flag; stackoverflow error

* revert node subgraph test

* lazy object

* try fix win build

* try fix win build

* poke ci

* fix build script

* fix compile

* add a todo

* fix reviews

* fix compile

* all demo use python-3 (#555)

* [DEMO] Reproduce numbers of distributed training in AMLC giant graph paper (#556)

* update

* update

* update

* update num_hops

* fix bug

* update

* report numbers of distributed training in AMLC giant graph paper

* [DEMO] Remove duplicate code for sampling (#557)

* update

* update

* re-use single-machine code

* update

* use relative path

* update

* update

* update

* add __init__.py

* add __init__.py

* import sys, os

* fix typo

* update

* [Perf] Improve performance of graph store. (#554)

* fix.

* use inplace.

* move to shared memory graph store.

* fix.

* add more unit tests.

* fix.

* fix test.

* fix test.

* disable test.

* fix.

* [BUGIFX] fix a bug in edge_ids (#560)

* add test.

* fix compute.

* fix test.

* turn on test.

* fix a bug.

* add test.

* fix.

* disable test.

* [DEMO] Add Pytorch demo for distributed sampler (#562)

* update

* update

* update

* add sender

* update

* remove duplicate cpde

* [Test] Add gtest to project (#547)

* add gtest module

* add gtest

* fix

* Update CMakeLists.txt

* Update README.md

* [Perf] lazily create msg_index. (#563)

* lazily create msg_index.

* update test.

* [BUGFIX] fix bugs for running GCN on giant graphs. (#561)

* load mxnet csr.

* enable load large csr.

* fix

* fix.

* fix int overflow.

* fix test.

* [BugFix] Fix error when bfs_level = 0 in Entity Classification with RGCN (#559)

* [DEMO] Update demo of distributed sampler (#564)

* update

* update

* update demo

* add network cpp test (#565)

* Add unittest for C++ RPC (#566)

* [CI] Fix CI for cpp test (#570)

* fix CI for cpp test

* update port number

* [Docker] update docker image (#575)

* update docker image

* specify lint version

* rm torch import from unified tests

* [Kernel][Scheduler][MXNet] Scheduler for DGL kernels and MXNet backend support (#541)

* [Model] add multiprocessing training with sampling. (#484)

* reorganize sampling code.

* add multi-process training.

* speed up gcn_cv

* fix graphsage_cv.

* add new API in graph store.

* update barrier impl.

* support both local and distributed training.

* fix multiprocess train.

* fix.

* fix barrier.

* add script for loading data.

* multiprocessing sampling.

* accel training.

* replace pull with spmv for speedup.

* nodeflow copy from parent with context.

* enable GPU.

* fix a bug in graph store.

* enable multi-GPU training.

* fix lint.

* add comments.

* rename to run_store_server.py

* fix gcn_cv.

* fix a minor bug in sampler.

* handle error better in graph store.

* improve graphsage_cv for distributed mode.

* update README.

* fix.

* update.

* [Tutorial] add sampling tutorial. (#522)

* add sampling tutorial.

* add readme

* update author list.

* fix indent in the code.

* rename the file.

* update tutorial.

* fix the last API.

* update image.

* [BUGFIX] fix the problems in the sampling tutorial. (#523)

* add index.

* update.

* update tutorial.

* fix gpu utest

* cuda utest runnable

* temp disable test nodeflow; unified test for kernel

* cuda test kernel done

* edge softmax module

* WIP

* Fixing typo in JTNN after interface change (#536)

* mxnet backend support

* improve reduce grad

* add max to unittest backend

* fix kernel unittest

* [BugFix] Fix getting src and dst id of ALL edges in NodeFlow.apply_block (#515)

* lint

* lint

* win build

* [Bug Fix] Fix inplace op at backend (#546)

* Fix inplace operation

* fix line seprator

* [Feature] Add batch and unbatch for immutable graph (#539)

* Add batch and unbatch for immutable graph

* fix line seprator

* fix lintr

* remove unnecessary include

* fix code review

* [BUGFix] Improve multi-processing training (#526)

* fix.

* add comment.

* remove.

* temp fix.

* initialize for shared memory.

* fix graphsage.

* fix gcn.

* add more unit tests.

* add more tests.

* avoid creating shared-memory exclusively.

* redefine remote initializer.

* improve initializer.

* fix unit test.

* fix lint.

* fix lint.

* initialize data in the graph store server properly.

* fix test.

* fix test.

* fix test.

* small fix.

* add comments.

* cleanup server.

* test graph store with a random port.

* print.

* print to stderr.

* test1

* test2

* remove comment.

* adjust the initializer signature.

* try

* fix

* fix

* fix

* fix

* fix

* try

* test

* test

* test

* try

* try

* try

* test

* fix

* try gen_target

* fix gen_target

* fix msvc var_args expand issue

* fix

* [API] update graph store API. (#549)

* add init_ndata and init_edata in DGLGraph.

* adjust SharedMemoryGraph API.

* print warning.

* fix comment.

* update example

* fix.

* fix examples.

* add unit tests.

* add comments.

* [Refactor] Immutable graph index (#543)

* WIP

* header

* WIP .cc

* WIP

* transpose

* wip

* immutable graph .h and .cc

* WIP: nodeflow.cc

* compile

* remove all tmp dl managed ctx; they caused refcount issue

* one simple test

* WIP: testing

* test_graph

* fix graph index

* fix bug in sampler; pass pytorch utest

* WIP on mxnet

* fix lint

* fix mxnet unittest w/ unfortunate workaround

* fix msvc

* fix lint

* SliceRows and test_nodeflow

* resolve reviews

* resolve reviews

* try fix win ci

* try fix win ci

* poke win ci again

* poke

* lazy multigraph flag; stackoverflow error

* revert node subgraph test

* lazy object

* try fix win build

* try fix win build

* poke ci

* fix build script

* fix compile

* add a todo

* fix reviews

* fix compile

* WIP

* WIP

* all demo use python-3 (#555)

* ToImmutable and CopyTo

* [DEMO] Reproduce numbers of distributed training in AMLC giant graph paper (#556)

* update

* update

* update

* update num_hops

* fix bug

* update

* report numbers of distributed training in AMLC giant graph paper

* [DEMO] Remove duplicate code for sampling (#557)

* update

* update

* re-use single-machine code

* update

* use relative path

* update

* update

* update

* add __init__.py

* add __init__.py

* import sys, os

* fix typo

* update

* [Perf] Improve performance of graph store. (#554)

* fix.

* use inplace.

* move to shared memory graph store.

* fix.

* add more unit tests.

* fix.

* fix test.

* fix test.

* disable test.

* fix.

* [BUGIFX] fix a bug in edge_ids (#560)

* add test.

* fix compute.

* fix test.

* turn on test.

* fix a bug.

* add test.

* fix.

* disable test.

* DGLRetValue DGLContext conversion

* [DEMO] Add Pytorch demo for distributed sampler (#562)

* update

* update

* update

* add sender

* update

* remove duplicate cpde

* [Test] Add gtest to project (#547)

* add gtest module

* add gtest

* fix

* Update CMakeLists.txt

* Update README.md

* Add support to convert immutable graph to 32 bits

* [Perf] lazily create msg_index. (#563)

* lazily create msg_index.

* update test.

* fix binary reduce following new minigun template

* enable both int64 and int32 kernels

* [BUGFIX] fix bugs for running GCN on giant graphs. (#561)

* load mxnet csr.

* enable load large csr.

* fix

* fix.

* fix int overflow.

* fix test.

* new kernel interface done for CPU

* docstring

* rename & docstring

* copy reduce and backward

* [BugFix] Fix error when bfs_level = 0 in Entity Classification with RGCN (#559)

* [DEMO] Update demo of distributed sampler (#564)

* update

* update

* update demo

* adapt cuda kernels to the new interface

* add network cpp test (#565)

* fix bug

* Add unittest for C++ RPC (#566)

* [CI] Fix CI for cpp test (#570)

* fix CI for cpp test

* update port number

* [Docker] update docker image (#575)

* update docker image

* specify lint version

* rm torch import from unified tests

* remove pytorch-specific test_function

* fix unittest

* fix

* fix unittest backend bug in converting tensor to numpy array

* fix

* mxnet version

* [BUGFIX] fix for MXNet 1.5. (#552)

* remove clone.

* turn on numpy compatible.

* Revert "remove clone."

This reverts commit 17bbf76ed72ff178df6b3f35addc428048672457.

* revert format changes

* fix mxnet api name

* revert mistakes in previous revert

* roll back CI to 20190523 build

* fix unittest

* disable test_shared_mem_store.py for now

* remove mxnet/test_specialization.py

* sync win64 test script

* fix lowercase

* missing backend in gpu unit test

* transpose to get forward graph

* pass update all

* add sanity check

* passing test_specialization.py

* fix and pass test_function

* fix check

* fix pytorch softmax

* mxnet kernels

* c++ lint

* pylint

* try

* win build

* fix

* win

* ci enable gpu build

* init submodule recursively

* backend docstring

* try

* test win dev

* doc string

* disable pytorch test_nn

* try to fix windows issue

* bug fixed, revert changes

* [Test] fix CI. (#586)

* disable unit test in mxnet tutorial.

* retry socket connection.

* roll back to set_np_compat

* try to fix multi-processing test hangs when it fails.

* fix test.

* fix.

* doc string

* doc string and clean up

* missing field in ctypes

* fix node flow schedule and unit test

* rename

* pylint

* copy from parent default context

* fix unit test script

* fix

* demo bug in nodeflow gpu test

* [Kernel][Bugfix] fix nodeflow bug (#604)

* fix nodeflow bug

* remove debug code

* add build gtest option

* fix cmake; fix graph index bug in spmv.py

* remove clone

* fix div rhs grad bug

* [Kernel] Support full builtin method, edge softmax and unit tests (#605)

* add full builtin support

* unit test

* unit test backend

* edge softmax

* apply edge with builtin

* fix kernel unit test

* disable mxnet test_shared_mem_store

* gen builtin reduce

* enable mxnet gpu unittest

* revert some changes

* docstring

* add note for the hack

* [Kernel][Unittest][CI] Fix MXNet GPU CI (#607)

* update docker image for MXNet GPU CI

* force all dgl graph input and output on CPU

* fix gpu unittest

* speedup compilation

* add some comments

* lint

* add more comments

* fix as requested

* add some comments

* comment

* lint

* lint

* update pylint

* fix as requested

* lint

* lint

* lint

* docstrings of python DGL kernel entries

* disable lint warnings on arguments in kernel.py

* fix docstring in scheduler

* fix some bug in unittest; try again

* Revert "Merge branch 'kernel' of github.com:zzhang-cn/dgl into kernel"

This reverts commit 1d2299e68b004182ea6130b088de1f1122b18a49, reversing
changes made to ddc97fbf1bec2b7815c0da7c74f7ecb2f428889b.

* Revert "fix some bug in unittest; try again"

This reverts commit ddc97fbf1bec2b7815c0da7c74f7ecb2f428889b.

* more comprehensive kernel test

* remove shape check in test_specialization

* new jenkins script

* fix ci

* poke ci

* new config

* new config

* new config

* poke ci

* poke ci

* poke ci

* poke ci

* poke ci

* poke ci

* poke ci

* update docker image; poke ci

* poke ci

* poke ci

* poke ci

* poke ci

* poke ci

* poke ci

* poke ci

* poke ci

* poke ci

* poke ci

* poke ci

* update image

* update image

* fix

* Windows CI support

* typo

* typo*2

* missed sh

* typo*3

* missed dir

* test basics

* batched graph & filter, mxnet filter fix

* frame and function; bugfix

* test graph adj and inc matrices

* fixing start = 0 for mxnet

* test index

* inplace update & line graph

* multi send recv

* more tests

* oops

* more tests

* removing old test files; readonly graphs for mxnet still kept

* modifying test scripts

* adding a placeholder for pytorch to reserve directory

* torch 0.4.1 compat fixes

* moving backend out of compute to avoid nose detection

* tests guide

* mx sparse-to-dense/sparse-to-numpy is buggy

* oops

* contribution guide for unit tests

* printing incmat

* printing dlpack

* small push

* typo

* fixing duplicate entries that causes undefined behavior

* move equal comparison to backend

* Jenkins build & test on Windows

* oops

* still running nohup on Windows slaves

* ooops again

* squishing vcvars and cmake

* another try

* reverting back

* --user

* switching to msbuild

* made the graph size in cache testing bigger

* put commands into script files

* oooops