GitLab

* Update

* Update

* Update

* Update

* Update

* Remove SSE

* Update env_var.rst

* remove mxnet tutorial

* remove sse

* fix docs

Co-authored-by: Ubuntu <ubuntu@ip-172-31-1-5.us-west-2.compute.internal>

* Update graph

* Fix for dgl.graph

* from_scipy

* Replace canonical_etypes with relations

* from_networkx

* Update for hetero_from_relations

* Roll back the change of canonical_etypes to relations

* heterograph

* bipartite

* Update doc

* Fix lint

* Fix lint

* Fix test cases

* Fix

* Fix

* Fix

* Fix

* Fix

* Fix

* Update

* Fix test

* Fix

* Update

* Use DGLError

* Update

* Update

* Update

* Update

* Fix

* Fix

* Fix

* Fix

* Fix

* Fix

* Fix

* Fix

* Update

* Fix

* Update

* Fix

* Fix

* Fix

* Update

* Fix

* Update

* Fix

* Update

* Update

* Update

* Update

* Update

* Update

* Update

* Fix

* Fix

* Update

* Update

* Update

* Update

* Update

* Update

* rewrite sanity checks

* delete unnecessary checks

* Update

* Update

* Update

* Update

* Update

* Update

* Update

* Update

* Fix

* Update

* Update

* Update

* Fix

* Fix

* Fix

* Update

* Fix

* Update

* Fix

* Fix

* Update

* Fix

* Update

* Fix
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com>
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
Co-authored-by: Quan Gan <coin2028@hotmail.com>

* PPIDataset

* Revert "PPIDataset"

This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.

* SSTDataset

* Update tree.py

* jtnn and fixes

* make metagraph a method

* fix test

* fix

* 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>

* Update README.md

* Update README.txt

* traversal to new framework

* add new

* Fix compile

* Pass test

* keep old version

* lint

* lint

* Fix

* Fix

* Fix compatability with new master

* Fix test and tutorials

* Update according to comments

* Fix test
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>

* Generate vocabulary from a new dataset

* CI"

* upd

* upd

* better

* Update doc and tutorials

* Fix

* Deprecate multi-graph

* Handle heterograph and edge_ids

* lint

* Fix

* Remove multigraph in C++ end

* Fix lint

* Add some test and fix something

* Fix

* Fix

* upd

* Fix some test case

* Fix

* Fix
Co-authored-by: Ubuntu <ubuntu@ip-172-31-51-214.ec2.internal>
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>

* patched 1_first

* done 2_basics

* done 4_batch

* done 1_gcn, 9_gat, 2_capsule

* 4_rgcn.py

* revert

* more fix

* upd

* upd

* upd

* lint

* fix

* fix test

* fix

* fix

* upd

* upd

* upd

* upd

* upd

* upd

* upd

* upd

* upd

* upd

* upd tutorial

* upd

* upd

* fix kg

* upd doc organization

* refresh test

* upd

* refactor doc

* fix lint
Co-authored-by: Minjie Wang <minjie.wang@nyu.edu>

* reorg tutorials and api docs

* fix

* update work with different backend section

* fix some warnings

* Update backend.rst

* Update index.rst
Co-authored-by: VoVAllen <VoVAllen@users.noreply.github.com>

* [Doc] Tree-LSTM in DGL, edit pass for readability

Edit for grammar and style. 
How about deleting the last line? "Besides, you..." It needs a transition or some context.

* Update tutorials/models/2_small_graph/3_tree-lstm.py

* Update tutorials/models/2_small_graph/3_tree-lstm.py

* Old wines new title, edit for grammar and style

new descriptive title here and an edit pass @aaronmarkham

* Update tutorials/models/4_old_wines/README.txt

* don't have activation.

* add evaluation.

* address comment.

* [Doc] Small graphs readme.txt, edit pass

Edit for grammar and style. Should this be an .rst on .txt?

* Update README.txt

* [Doc] Generative models, edit pass

Edit for grammar and style. Can you clarify "Instead of and/or"?

* Update tutorials/models/3_generative_model/5_dgmg.py

* Update tutorials/models/3_generative_model/5_dgmg.py
Co-Authored-By: Aaron Markham <markhama@amazon.com>

* Update tutorials/models/3_generative_model/5_dgmg.py
Co-Authored-By: Aaron Markham <markhama@amazon.com>

* Update tutorials/models/3_generative_model/5_dgmg.py
Co-Authored-By: Aaron Markham <markhama@amazon.com>

* Update tutorials/models/3_generative_model/5_dgmg.py
Co-Authored-By: Aaron Markham <markhama@amazon.com>

Edit pass for grammar and style

Edited for grammar and style.

Edit pass for grammar and style

* Edit for readability

* giant_graph_readme edit for grammar

* NodeFlow and Sampling edit pass for grammar

* Update tutorials/models/1_gnn/9_gat.py

* Update tutorials/models/1_gnn/9_gat.py

Revisions for grammar and style

* Edit pass

Updates for grammar and readability

* Update tutorials/models/1_gnn/6_line_graph.py

* Update tutorials/models/1_gnn/6_line_graph.py

* Update tutorials/models/1_gnn/6_line_graph.py

Grammar and style updates

* Edit for grammar and style

Improve readability

* Update tutorials/models/1_gnn/README.txt
Co-Authored-By: Aaron Markham <markhama@amazon.com>

* Update tutorials/models/1_gnn/README.txt
Co-Authored-By: Aaron Markham <markhama@amazon.com>

* Edit for grammar and style

As with other tutorials, it would help the reader if you add a paragraph in the opening section about assumptions or prerequisites.

Does this refer to SageMaker Ground Truth feature? "...assigns its ground truth label..." If yes, phrase it thus: assigns its Amazon SageMaker Ground Truth label

* Update tutorials/basics/4_batch.py

* Update tutorials/basics/4_batch.py

* Update tutorials/basics/4_batch.py

topologies

* Update tutorials/basics/4_batch.py
Co-Authored-By: Aaron Markham <markhama@amazon.com>

* Edit for readability

Edit pass for grammar and style. 
* A great value-add would be to provide assumptions and prerequisites in the opening section. This helps readers understand what they need to have in place in order to make use of your tutorial steps.
* The wikidata knowledge graph could be improved with a smaller font for the Zuckerberg circle.

* Update tutorials/hetero/1_basics.py

* Update tutorials/hetero/1_basics.py
Co-Authored-By: Aaron Markham <markhama@amazon.com>

* Update tutorials/hetero/1_basics.py
Co-Authored-By: Aaron Markham <markhama@amazon.com>

* Update tutorials/hetero/1_basics.py
Co-Authored-By: Aaron Markham <markhama@amazon.com>

* Update tutorials/hetero/1_basics.py
Co-Authored-By: Aaron Markham <markhama@amazon.com>

* Update tutorials/hetero/1_basics.py
Co-Authored-By: Aaron Markham <markhama@amazon.com>

Can you add a link for the download to this sentence: You can also `download <location?>` and run the different code examples...
As with other tutorial topics, it would be helpful to add your assumptions or information in the opening section about prerequisites.

* Edit for grammar and style

In the opening paragraph, it would be helpful to provide some overall scenario and the prerequisites you expect readers to have completed before they start here. "This tutorial assumes you have already..." Add a link to Install DGL topic perhaps and any other framework or IDE or even specialized knowledge. With this context, you help readers to succeed by setting expectations.

Better to group all tutorials (this, PageRank with, Batched Graph, Working with) at the same level in the left navigation rail and all as subsections of DGL Basics.

* Update tutorials/basics/2_basics.py

* upd

* fig edgebatch edges

* add test

* trigger

* Update README.md for pytorch PinSage example.

Add noting that the PinSage model example under
example/pytorch/recommendation only work with Python 3.6+
as its dataset loader depends on stanfordnlp package
which work only with Python 3.6+.

* Provid a frame agnostic API to test nn modules on both CPU and CUDA side.

1. make dgl.nn.xxx frame agnostic
2. make test.backend include dgl.nn modules
3. modify test_edge_softmax of test/mxnet/test_nn.py and
    test/pytorch/test_nn.py work on both CPU and GPU

* Fix style

* Delete unused code

* Make agnostic test only related to tests/backend

1. clear all agnostic related code in dgl.nn
2. make test_graph_conv agnostic to cpu/gpu

* Fix code style

* fix

* doc

* Make all test code under tests.mxnet/pytorch.test_nn.py
work on both CPU and GPU.

* Fix syntex

* Remove rand

* Add TAGCN nn.module and example

* Now tagcn can run on CPU.

* Add unitest for TGConv

* Fix style

* For pubmed dataset, using --lr=0.005 can achieve better acc

* Fix style

* Fix some descriptions

* trigger

* Fix doc

* Add nn.TGConv and example

* Fix bug

* Update data in mxnet.tagcn test acc.

* Fix some comments and code

* delete useless code

* Fix namming

* Fix bug

* Fix bug

* Add test for mxnet TAGCov

* Add test code for mxnet TAGCov

* Update some docs

* Fix some code

* Update docs dgl.nn.mxnet

* Update weight init

* Fix

* reproduce the bug

* Fix concurrency bug reported at #755.
Also make test_shared_mem_store.py more deterministic.

* Update test_shared_mem_store.py

* Update dmlc/core

* networkx >= 2.4 will break our examples

* Update tutorials/requirements

* fix selfloop edges

* upd version