GitLab

* [Feature] apply dgl.reorder() onto several node classification datasets in DGL

* rebase on latest dgl.reorder_graph()

* add user guide for gpu sampling

* Update minibatch-gpu-sampling.rst
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>

Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com>

* Update

* Update

* Update

* Update

* Update

* Update

* Update

* Fix

* Update

* Fix subgraph tests

* Capture stdout for distributed test

* Capture stdout for distributed test

* Update

* Update

* Update

* Update subgraph.cc
Co-authored-by: Ubuntu <ubuntu@ip-172-31-28-17.us-west-2.compute.internal>
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>

Co-authored-by: zhjwy9343 <6593865@qq.com>

* correct the matrix multiplication symbols

* modified dimensionality of linear
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>

Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>

Co-authored-by: Zheng <dzzhen@3c22fba32af5.ant.amazon.com>

* Fix examples on negative graph sampler

In heterogeneous graph, the old example may build a negative graph without edges. In dgl.dataloading.dataloader line637, it shows the key of neg_edges dict should be item in g.canonical_etypes.

* poke ci
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com>

* Draft for sparse emb

* add some notes

* Fix

* Add sparse optim for dist pytorch

* Update test

* Fix

* upd

* upd

* Fix

* Fix

* Fix bug

* add transductive exmpale

* Fix example

* Some fix

* Upd

* Fix lint

* lint

* lint

* lint

* upd

* Fix lint

* lint

* upd

* remove dead import

* update

* lint

* update unitest

* update example

* Add adam optimizer

* Add unitest and update data

* upd

* upd

* upd

* Fix docstring and fix some bug in example code

* Update rgcn readme
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Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-66.ec2.internal>

* update distributed training doc.

* explain data split.

* fix message passing.

* id mapping.

* fix.

* test data reshuffling.

* fix a bug.

* fix test.

* Revert "fix test."

This reverts commit 907f1dd88994894db94ffcd77b5995279f76b489.

* Revert "fix a bug."

This reverts commit ff0a4d893bbe4911a75ecb04bcbd9bc65315166b.

* Revert "test data reshuffling."

This reverts commit 99bb2f6405de67fc73652220b02e7184461c3e5e.
Co-authored-by: Zheng <dzzhen@3c22fba32af5.ant.amazon.com>

* remove num_workers.

* remove num_workers.

* remove num_workers.

* remove num-servers.

* update error message.

* update docstring.

* fix docs.

* fix tests.

* fix test.

* fix.

* print messages in test.

* fix.

* fix test.

* fix.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal>

* [Bugfix] add default value for BlockSampler

* [Doc] modify user_guide description about MultiLayerDropoutSample
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com>

* rename block to mfg

* revert

* rename

* fix doc.

* explain the schema file.

* fix.

* reorg

* change titles

* rm some stale API doc; minor fix

* fix docs

* add warning

* rm new-tutorial run in ci

* lint

* update DistGraph docstrings.

* add user guide.

* add doc string.

* fix.

* fix.

* fix.
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>

* add convert.

* fix.

* add write_mag.

* fix convert_partition.py

* write data.

* use pyarrow to read.

* update write_mag.py

* fix convert_partition.py.

* load node/edge features when necessary.

* reshuffle nodes.

* write mag correctly.

* fix a bug: inner nodes in a partition might be empty.

* fix bugs.

* add verify code.

* insert reverse edges.

* fix a bug.

* add get node/edge data.

* add instructions.

* remove unnecessary argument.

* update distributed preprocessing.

* fix readme.

* fix.

* fix.

* fix.

* fix readme.

* fix doc.

* fix.

* update readme

* update doc.

* update readme.
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* fix doc

* update docstring for transformation on batch graph

* update cn guide

* fix format

* update rst

* update

* Misc fix

* Update

[Dataset] Change the Data Type of the Node Features in GINDataset/TUDataset from Float64 to Float32 (#2592)

* Update

* Update

* Update

* update
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
Co-authored-by: Tong He <hetong007@gmail.com>

* add tvm as submodule

* compilation is ok but calling fails

* can call now

* pack multiple modules, change names

* upd

* upd

* upd

* fix cmake

* upd

* upd

* upd

* upd

* fix

* relative path

* upd

* upd

* upd

* singleton

* upd

* trigger

* fix

* upd

* count reducible

* upd

* upd

* upd

* upd

* upd

* upd

* upd

* upd

* upd

* only keep related files

* upd

* upd

* upd

* upd

* lint

* lint

* lint

* lint

* pylint

* upd

* upd

* compilation

* fix

* upd

* upd

* upd

* upd

* upd

* upd

* upd doc

* refactor

* fix

* upd number
Co-authored-by: Zhi Lin <linzhilynn@gmail.com>
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Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>

* [Doc] Add Chapter 7

* [Doc] Add CN part 7, 7.1, 7.2, and 7.3

* [Doc] Add CN part 7, 7.1, 7.2, and 7.3

* [Doc] 1st round copyediting, 7, 7.1, 7.2, and 7.3, removing EN parts.

* [Doc] 2nd round copyediting.

* [Doc] 3rd round copyediting.

* [Doc] Copyedit with reviewers' comments.
Co-authored-by: Mufei Li <mufeili1996@gmail.com>

* [Doc] Add 1st CN in chapter 6

* [Doc] Add 1st CN in chapter 6

* [Doc] Add 1st CN in chapter 6.1

* [Doc] Add 1st CN in chapter 6.1

* [Doc] Add 1st CN in chapter 6.2

* [Doc] Add CN in chapter 6.2

* [Doc] Add CN in chapter 6.3

* [Doc] Fix a code bug in chapter 6.3

* [Doc] Add CN in chapter 6.4, 6.5, and 6.6.

* [Doc] Add CN in chapter 6.4, 6.5, and 6.6，then remove EN parts.

* [Doc] revised 6.4, 6.5, and 6.6.

* [Doc] 2nd round of copyediting.

* Delete syn1.bin

Remove this unrelated file to this branch

* [Doc] Update guide_cn index.rst.

* [Doc] Update guide_cn index.rst.

* [Doc] Update guide_cn index.rst.

* [Doc] Update guide_cn index.rst.

* [Doc] Add chapter 7 in index page

* [Doc] edit chapter 6 in PR

* [Doc] edit chapter 6 in PR

* [Doc] Copyediting with Murphy and Minjie's comments.

* [Doc] Fix doc line in the previous chapters.
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com>
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>

* update graphdataloader in docs

* fix

* update examples

* fix sagpool
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com>

* Update gatedgraphconv.py

* Update entity_classify.py

* Update data-process.rst

* Update reading_data.py

* Update data-process.rst

* Update utils.py

* Update knowledge_graph.py

* Update entity_classify.py

* Update rdf.py

* Update entity_classify_mb.py

* Update test_classify.py

* Update tensor.py

* Update sparse.py

* Update entity_classify_mp.py

* Update 6_line_graph.py

* remove details about message passing optimization

* address comments

* modify the wrong code in initialize the hetero_graph negative sampler

the etype in hetero graph should be name of edges
self.weights = {
            etype: g.in_degrees(etype=etype).float() ** 0.75
            for _, etype, _ in g.canonical_etypes
        }
the original code will give etype a Tuple format, it cannot apply to the next processing:
self.weights[etype].multinomial(len(src), replacement=True)
and I add the part which confusing me to generate eid_dict

* fix
Co-authored-by: Quan Gan <coin2028@hotmail.com>
Co-authored-by: Shaow <coco11563@yeah.net>

* [Doc] Add CN chapter 5

* [Doc] Add CN 5.1

* [Doc] Add CN 5.2, 5.3, and 5.4 raw text

* [Doc] Add CN 5.2, 5.3, and 5.4 raw text

* [Doc] Put 5.1 CN parts

* [Doc] Put 5.2，5.3, and 5.4 raw CN parts

* [Doc] Fix linkage bugs.

* [Doc] 1st round of copyediting, Chapter5, 5.1, and part of 5.2

* [Doc] 2nd round of copyediting, removing EN parts.

* [Doc] 2nd round of copyediting, removing EN parts.

* [Doc] 2nd round of copyediting, removing EN parts.

* [Doc] 2nd round of copyediting, removing EN parts.

* [Doc] 3rd round of copyediting.

* [Doc] 4th round of copyediting to Minjie's comments.

* [Doc] 4th round of copyediting to Minjie's comments.

* [Doc] 4th round of copyediting to Minjie's comments.

* [Doc] 4th round of copyediting to Minjie's comments.

* [Doc] 4th round of copyediting to Minjie's comments.

* [Doc] 4th round of copyediting to Minjie's comments.

* [Doc] 5th round of copyediting to Murphy's comments.

* add example code to user guide

* improvement
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>

* PPIDataset

* Revert "PPIDataset"

This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.

* data pipeline user guide

* remove chapter numbers

* Update data.rst

* image in dataset userguide

* update links using ref

* modify the link of save_graphs and load_graphs in dataset user guide

* move image to s3 server.

* fix links and ref

* Hide implementations that may cause confusions to the user

* Update

* Update

* Update

* Update

* Update

Co-authored-by: Hongyu Cai <h.tsai@hotmail.com>

* Update

* Update

* Update

* [Feature] Add full graph training with dgl built-in dataset.

* [Feature] Add full graph training with dgl built-in dataset.

* [Feature] Add full graph training with dgl built-in dataset.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Feature] Add test loss and accuracy

* [Feature] Add test loss and accuracy

* [Feature] Add test loss and accuracy

* [Feature] Add test loss and accuracy

* [Feature] Add test loss and accuracy

* [Feature] Add test loss and accuracy

* [Fix] Add random

* [Bug] Fix batch norm error

* [Doc] Test with CN in Sphinx

* [Doc] Test with CN in Sphinx

* [Doc] Remove the test CN docs.

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Doc] fill readme with new performance results

* [Doc] Add Chinese User Guide, graph and 1.5

* [Doc] Add Chinese User Guide, graph and 1.5

* Update README.md

* [Fix] Temporary remove compgcn

* [Doc] Add CN user guide chapter2

* [Test] Tunning format

* [Test] Tunning format

* [Test] Tunning format

* [Test] Tunning format

* [Test] Tunning format

* [Test] Section headers

* [Fix] Fix format errors

* [Fix] Fix format errors

* [Fix] Fix format errors

* [Doc] Add CN-EN EN-CN links

* [Doc] Add CN-EN EN-CN links

* [Doc] Copyedit chapter2

* [Doc] Copyedit chapter2

* [Doc] Remove EN in 2.1

* [Doc] Remove EN in chapter 2

* [Doc] Copyedit first 2 sections

* [Doc] Copyedit first 2 sections

* [Doc] copyedited chapter 2 CN

* [Doc] Add chapter 3 raw texts

* [Doc] Add chapter 3 preface and 3.1

* [Doc] Add chapter 3.2 and 3.3

* [Doc] Add chapter 3.2 and 3.3

* [Doc] Add chapter 3.2 and 3.3

* [Doc] Remove EN parts

* [Doc] Copyediting 3.1

* [Doc] Copyediting 3.2 and 3.3

* [Doc] Proofreading 3.1 and 3.2

* [Doc] Proofreading 3.2 and 3.3

* [Doc] Add chapter 4 CN raw text.

* [Clean] Remove codes in other branches

* [Doc] Start to copyedit chapter 4 preface

* [Doc] copyedit CN section 4.1

* [Doc] Remove EN in User Guide Chapter 4

* [Doc] Copyedit chapter 4.1

* [Doc] copyedit cn chapter 4.2, 4.3, 4.4, and 4.5.

* [Doc] Fix errors in EN user guide graph feature and heterograph

* [Doc] 2nd round copyediting with Murph's comments

* [Doc] 3rd round copyediting with Murph's comments

* [Doc] 3rd round copyediting with Murph's comments

* [Doc] 3rd round copyediting with Murph's comments

* [Sync] syncronize with the dgl master

* [Doc] edited after Minjie's comments, 1st round

* update cub
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>

Some of SAGEGraph equation has typos.

* [Feature] Add full graph training with dgl built-in dataset.

* [Feature] Add full graph training with dgl built-in dataset.

* [Feature] Add full graph training with dgl built-in dataset.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Bug] fix model to cuda.

* [Feature] Add test loss and accuracy

* [Feature] Add test loss and accuracy

* [Feature] Add test loss and accuracy

* [Feature] Add test loss and accuracy

* [Feature] Add test loss and accuracy

* [Feature] Add test loss and accuracy

* [Fix] Add random

* [Bug] Fix batch norm error

* [Doc] Test with CN in Sphinx

* [Doc] Test with CN in Sphinx

* [Doc] Remove the test CN docs.

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Feature] Add input embedding layer

* [Doc] fill readme with new performance results

* [Doc] Add Chinese User Guide, graph and 1.5

* [Doc] Add Chinese User Guide, graph and 1.5

* [Doc] Add Chines User Guide

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* Update README.md

* [Doc] Finalize CN user guide chapter 1

* [Doc] Finalize CN user guide chapter 1

* [Doc] Finalize CN user guide chapter 1

* [Doc] Add CN link in user guide chapter 1

* [Doc] Add CN link in user guide chapter 1

* [Fix] Temporary remove compgcn

* [Doc] Add Chines User Guide

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] user guide cn chapter 1

* [Doc] Finalize CN user guide chapter 1

* [Doc] Finalize CN user guide chapter 1

* [Doc] Finalize CN user guide chapter 1

* [Doc] Add CN link in user guide chapter 1

* update hash in 3rd party

* [Fix] copyedit some errors

* [Fix] copyedit some errors

* [Fix] copyedit some errors

* [Fix] copyedit some errors

* [Fix] copyedit some errors

* Update
Co-authored-by: Mufei Li <mufeili1996@gmail.com>