e9c3c0e8ad
[Model] Simplify RGCN
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* Update (#5 )
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* FIx
* Try
* Update
* Update
* Update
* Fix
* Update
* Fix
* Fix
* Fix
* Fix
* Update
* Fix
* Update
* Update
* Update
* Fix
* Fix
* Update
* Update
* Update
* Update
* Fix
* Fix
* Fix
* Update
* Update
* Update
* Update
* Update
* Update README.md
* Update
* Fix
* Update
* Update
* Fix
* Fix
* Fix
* Update
* Update
* Update
Co-authored-by: Ubuntu <ubuntu@ip-172-31-6-240.us-west-2.compute.internal >
* Update
* Update
* Fix
* Update
* Update
* Update
* Fix
* Update
* Update
* Update
* Update
* Update
* Update
* CI
Co-authored-by: Ubuntu <ubuntu@ip-172-31-6-240.us-west-2.compute.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-57-123.us-west-2.compute.internal >
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2022-02-17 15:33:27 +08:00
6106a99d0a
refine
2022-02-17 02:00:10 +00:00
e0f054fb27
[Doc] add doc for DGLCSVDataset
2022-02-17 00:52:16 +00:00
39121dfdb8
[Feature] support non-numeric node_id/src_id/dst_id/graph_id and rena… ( #3740 )
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* [Feature] support non-numeric node_id/src_id/dst_id/graph_id and rename CSVDataset
* change return value when iterate dataset
* refine data_parser
* force reload
2022-02-17 08:35:39 +08:00
8b8fd2c0be
[Dataset] Add transform argument to built-in datasets ( #3733 )
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* Update
* Fix
* Update
2022-02-15 16:45:47 +08:00
dc78e11c3f
[Dataset] Adapter to convert a dataset for link prediction task ( #3699 )
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* add ut
* add doc link
* install dep
* add
* Revert "install dep"
This reverts commit e574a8377144749056c6849b655004df2771e179.
* add
* merge fix
* rm files
* fix
* fix
* fix
* fix
* fix typo
* fix tf
* fix
* fix
* fix
* fix
* fix
* fix dependency
* fix test
* fix
* fix
* add doc
* fix
* fix
* fix test
* fix test
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2022-02-11 16:59:14 +08:00
45ac57260a
[data] refine AsNodePredDataset and add tests for DGLCSVDataset ( #3722 )
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* [data] refine AsNodePredDataset and add tests for DGLCSVDataset
* fix
* remove add_self_loop
* refine
2022-02-10 17:46:39 +08:00
5152a87982
[Data] Utility function and class for converting a dataset for node prediction ( #3695 )
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* 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
2022-01-30 14:31:37 +08:00
9ec9df57ca
[Fix] check and load dependencies when needed ( #3655 )
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* [Fix] check and load dependencies when needed
* refine rdflib import
2022-01-18 16:10:47 +08:00
41124b3284
[Fix] Do not import DGLCSVDataset in default in case of dependency issue ( #3642 )
2022-01-11 15:25:03 +08:00
95c0ff6302
[Feature] add CSVDataset to load data from csv files ( #3547 )
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* [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
2022-01-10 17:21:57 +08:00
a7b5085a5d
Add a note about the order of TUDataset ( #3549 )
2021-11-28 00:12:29 +08:00
7c771d0d6c
[BugFix] fix #3429 and update results of caregnn ( #3441 )
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* squeeze node labels in FraudDataset
* fix RLModule
* update results in README.md
* fix KeyError in full graph training
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-11-10 16:00:12 +08:00
f9fd7fd7f7
[BugFix] extract gz into target dir ( #3389 )
2021-09-30 11:35:40 +08:00
fecd6f3c50
[BugFix] fix typo in fakenews dataset variable name ( #3363 )
2021-09-21 22:06:26 +08:00
8c2f8ff84a
Update citation_graph.py ( #3221 )
2021-08-06 15:57:42 +08:00
4ae13bd270
[bugfix] Fix force_reload parameter of FraudDataset ( #3210 )
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* enable force_reload of FraudDataset
* rewrite hash_key in FraudDataset
2021-08-03 13:14:17 +08:00
a107993f10
[Model] add model example CARE-GNN ( #3187 )
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* [Model] add model example CARE-GNN
* update README
* improvements based on the review feedback
* fix missing item()
Co-authored-by: zhjwy9343 <6593865@qq.com >
2021-07-29 15:24:15 +08:00
bbb6d4eed0
[Dataset] Fix the edge numbers in the GNNBenchmarkDataset doc string ( #3163 )
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* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.
* Hide implementations that may cause confusions to the user
* fix number of classes in Amazon Cobuy datasets
* add four papers
* Fix doc string
* fix readme
* fix readme
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-07-21 17:31:32 +08:00
066bef21f0
[Doc] Fix CoraFull number of edges inconsistency in doc ( #3139 )
2021-07-14 15:06:57 +08:00
186ef59283
[Feature] apply dgl.reorder() onto several node classification datase… ( #3102 )
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* [Feature] apply dgl.reorder() onto several node classification datasets in DGL
* rebase on latest dgl.reorder_graph()
2021-07-13 08:52:17 +08:00
0ce92a86ed
[BugFix] fix problems found in bug bash ( #3116 )
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* fix breakline in fakenews.py
* fix inconsistent argument name
* modify incorrect example and deprecated graph type
* modify docstring and example in knn_graph
* fix incorrect node type
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-07-12 13:34:50 +08:00
bb89dee7ff
[BugFix] fix problems in data split ( #3082 )
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* [BugFix] fix problems in data split
* fix format problems in docstring
* modify statistics to fit in dgl nature
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
Co-authored-by: zhjwy9343 <6593865@qq.com >
2021-07-07 16:07:23 +08:00
7823ae2dbb
add TUDataset notice ( #3075 )
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Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-06-30 14:22:45 +08:00
acd21a6d60
[Feature] Support direct creation from CSR and CSC ( #3045 )
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* csr and csc creation
* fix
* fix
* fixes to adj transpose
* fine
* raise error if indptr did not match number of nodes
* fix
* huh?
* oh
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-06-25 10:05:47 +08:00
ff519f98c3
[API] Standardize Subgraph APIs ( #2929 )
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* 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 >
2021-06-21 19:53:37 +08:00
9706eaa895
[Feature] add permission information and fix import problems ( #3036 )
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* [Feature] add positive negative statistics
* [Feature] add permission information and fix import problem
* fix backend incompatible problem
* modify random split to remove sklearn usage
* modify file read to remove pandas usage
* add datasets into doc
* add random seed in data splitting
* add dataset unit test
* usage permission information update
Co-authored-by: zhjwy9343 <6593865@qq.com >
2021-06-21 11:55:15 +08:00
55e7796ac5
Revert "[Feature] add permission information and fix import problems ( #2998 )" ( #3029 )
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This reverts commit cba5b188b5VoVAllen@users.noreply.github.com >
2021-06-17 13:58:38 +08:00
cba5b188b5
[Feature] add permission information and fix import problems ( #2998 )
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* [Feature] add positive negative statistics
* [Feature] add permission information and fix import problem
* fix backend incompatible problem
* modify random split to remove sklearn usage
* modify file read to remove pandas usage
* add datasets into doc
Co-authored-by: zhjwy9343 <6593865@qq.com >
2021-06-16 18:24:17 +08:00
63aed58204
[Doc] Fix typo in DGL base dataset class ( #2977 ) #3017
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Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-06-15 16:15:52 +08:00
a303f07819
fix #2952 ( #3010 )
2021-06-14 15:09:14 +08:00
849cbec6ee
[Feature] add positive negative statistics ( #2984 )
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Co-authored-by: zhjwy9343 <6593865@qq.com >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-06-05 15:48:11 +08:00
b8b0fd22b2
[Feature] add two fraud datasets ( #2908 )
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* add two fraud dataset
* add comments and modify to heterogenous graph
* modify the node name based on datasets
* add assertion message
Co-authored-by: zhjwy9343 <6593865@qq.com >
2021-05-28 15:45:44 +08:00
64d2a2aff7
[Feature] fix #2876 , add two fake news datasets ( #2939 )
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* [Feature] fix #2876 , add two fake news datasets
* add name assertion
* add assertion message
Co-authored-by: zhjwy9343 <6593865@qq.com >
2021-05-28 14:29:26 +08:00
1fe0860750
[Bugfix] Fixes #2844 ( #2847 )
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Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-04-25 18:12:17 +08:00
b49cd0952f
[Bugfix] Fix feature type of 'ENZYMES' in TUDataset ( #2800 )
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* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.
* Hide implementations that may cause confusions to the user
* fix number of classes in Amazon Cobuy datasets
* add four papers
* fix feature type of TU dataset
* fix readme
* remove commented codes
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-04-01 14:36:55 +08:00
1f4c0b7193
Fix processing of QM9EdgeDataset ( #2801 )
2021-04-01 10:13:51 +08:00
bcffdb82c9
[Example] Add implementation of mvgrl ( #2739 )
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* [Example ]add mvgrl
* [Doc] add mvgrl to readme
* add more comments
* fix typos
* replace tab with space
* [doc] replace tab with space
* [Doc] fix a typo
* fix minor typos
* fix typos
* fix typos
* fix typos
* fix typos
* fix
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2021-03-22 21:20:21 +08:00
0b47e86803
[Example] Add DimeNet(++) for Molecular Graph Property Prediction ( #2706 )
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* [example] arma
* update
* update
* update
* update
* update
* [example] dimenet
* [docs] update dimenet
* [docs] update tf results
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
* update
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2021-03-09 17:08:59 +08:00
a1f59c3b68
[Feature] QM9Edge Dataset Support ( #2704 )
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* [Feature] Support QM9Edge Datset
* Update qm9_edge.py
* disable tqdm
* Update qm9_edge.py
* Update qm9_edge.py
* Update qm9_edge.py
* Update qm9_edge.py
* Update qm9_edge.py
* Update qm9_edge.py
* Update qm9_edge.py
* remove preprocessing part
* add comparisons in qm9.py
* [docs] add qm9edge dataset
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2021-03-09 14:51:21 +08:00
7298173ac1
[Doc]Improve docstring for GINDataset ( #2676 )
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* add docstring for gin
* update doc
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2021-02-23 15:14:10 +08:00
b1840f49fa
[Dataset] Change the Data Type of the Node Features in GINDataset/TUDataset from Float64 to Float32 ( #2592 )
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* Update
* Update
* Update
* update
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Tong He <hetong007@gmail.com >
2021-02-03 21:00:45 +08:00
20d49771df
[Feature] Add reverse edges in CitationGraphDataset ( #2588 )
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* [Feature] Add reverse edges in CitationGraphDataset
* fix bug
* fix bug
* fix bug
* Update python/dgl/data/citation_graph.py
Co-authored-by: Xiangkun Hu <huxk_hit@qq.com >
* fix notes
* fix notes
* fix bugs
* solve requested changes
* fix bug
* fix bug
Co-authored-by: Xiangkun Hu <huxk_hit@qq.com >
2021-02-02 15:52:43 +08:00
12f6429616
remove hash_func from dataset object ( #2572 )
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Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-01-27 18:49:40 +08:00
c45f6eb575
[Bugfix] Fix duplicate edges in Coauthor Dataset #2553 ( #2569 )
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* fix
* address comment
2021-01-26 15:30:27 +08:00
25ac334403
[Distributed] Heterogeneous graph support ( #2457 )
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* Distributed heterograph (#3 )
* heterogeneous graph partition.
* fix graph partition book for heterograph.
* load heterograph partitions.
* update DistGraphServer to support heterograph.
* make DistGraph runnable for heterograph.
* partition a graph and store parts with homogeneous graph structure.
* update DistGraph server&client to use homogeneous graph.
* shuffle node Ids based on node types.
* load mag in heterograph.
* fix per-node-type mapping.
* balance node types.
* fix for homogeneous graph
* store etype for now.
* fix data name.
* fix a bug in example.
* add profiler in rgcn.
* heterogeneous RGCN.
* map homogeneous node ids to hetero node ids.
* fix graph partition book.
* fix DistGraph.
* shuffle eids.
* verify eids and their mappings when loading a partition.
* Id map from homogneous Ids to per-type Ids.
* verify partitioned results.
* add test for distributed sampler.
* add mapping from per-type Ids to homogeneous Ids.
* update example.
* fix DistGraph.
* Revert "add profiler in rgcn."
This reverts commit 36daaed8b660933dac8f61a39faec3da2467d676.
* add tests for homogeneous graphs.
* fix a bug.
* fix test.
* fix for one partition.
* fix for standalone training and evaluation.
* small fix.
* fix two bugs.
* initialize projection matrix.
* small fix on RGCN.
* Fix rgcn performance (#17 )
Co-authored-by: Ubuntu <ubuntu@ip-172-31-62-171.ec2.internal >
* fix lint.
* fix lint.
* fix lint.
* fix lint.
* fix lint.
* fix lint.
* fix.
* fix test.
* fix lint.
* test partitions.
* remove redundant test for partitioning.
* remove commented code.
* fix partition.
* fix tests.
* fix RGCN.
* fix test.
* fix test.
* fix test.
* fix.
* fix a bug.
* update dmlc-core.
* fix.
* fix rgcn.
* update readme.
* add comments.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-202.us-west-1.compute.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal >
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-62-171.ec2.internal >
* fix.
* fix.
* add div_int.
* fix.
* fix.
* fix lint.
* fix.
* fix.
* fix.
* adjust.
* move code.
* handle heterograph.
* return pytorch tensor in GPB.
* remove some tests in example.
* add to_block for distributed training.
* use distributed to_block.
* remove unnecessary function in DistGraph.
* remove distributed to_block.
* use pytorch tensor.
* fix a bug in ntypes and etypes.
* enable norm.
* make the data loader compatible with the old format.
* fix.
* add comments.
* fix a bug.
* add test for heterograph.
* support partition without reshuffle.
* add test.
* support partition without reshuffle.
* fix.
* add test.
* fix bugs.
* fix lint.
* fix dataset.
* fix for mxnet.
* update docstring.
* rename to floor_div
* avoid exposing NodePartitionPolicy and EdgePartitionPolicy.
* fix docstring.
* fix error.
* fixes.
* fix comments.
* rename.
* rename.
* explain IdMap.
* fix docstring.
* fix docstring.
* update docstring.
* remove the code of returning heterograph.
* remove argument.
* fix example.
* make GraphPartitionBook an abstract class.
* fix.
* fix.
* fix a bug.
* fix a bug in example
* fix a bug
* reverse heterograph sampling.
* temp fix.
* fix lint.
* Revert "temp fix."
This reverts commit c450717b9f578b8c48769c675f2a19d6c1e64381.
* compute norm.
* Revert "reverse heterograph sampling."
This reverts commit bd6deb7f52998de76508f800441ff518e2fadcb9.
* fix.
* move id_map.py
* remove check
* add more comments.
* update docstring.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-202.us-west-1.compute.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal >
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-62-171.ec2.internal >
2021-01-24 19:18:00 -08:00
2c6d071617
[Feature] QM9 Dataset Support ( #2521 )
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* [Model] MixHop for Node Classification task
* [docs] update
* [docs] update
* [fix] remove seed option
* [fix] update readme
* [feature] support qm9 dataset
* [style] update
* [docs] fix the details
* [fix] indexing only support int
* [style] update
* [fix] multiple backends support
* [docs] add qm9
* [fix] Z type: float32 -> int32
* [fix] Z type: int32 -> long
* [docs] add ref
* [docs] fix
* [docs] update
* [docs] update
* [fix] test eval
* [docs] fix example
Co-authored-by: xnuohz@126.com <ubuntu@ip-172-31-44-184.us-east-2.compute.internal >
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-01-21 01:33:30 +08:00
9a9a06eb2f
[Bug Fix] Fix undefined var bug in LegacyTUDataset ( #2543 )
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* [Bug Fix] Fix undefined var bug in LegacyTUDataset
* upt
* [Bug Fix] Fix cache file name bug in TUDataset
Co-authored-by: Tong He <hetong007@gmail.com >
2021-01-19 13:58:01 +08:00
21e90cbf48
[Doc] Fix number of classes in Amazon Cobuy datasets ( #2488 )
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* PPIDataset
* Revert "PPIDataset"
This reverts commit 264bd0c960cfa698a7bb946dad132bf52c2d0c8a.
* Update gnn_benckmark.py
* Hide implementations that may cause confusions to the user
* fix number of classes in Amazon Cobuy datasets
2021-01-05 13:08:05 +08:00
4464b9734c
Fix kg dataset len() ( #2475 )
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Co-authored-by: Ubuntu <ubuntu@ip-172-31-59-204.ec2.internal >
2020-12-31 23:33:21 +08:00
Mufei Li