* add a learned laplacian positional encoder
* leverage black to beautify the python code
* refine according to dongyu's comments
Co-authored-by: rudongyu <ru_dongyu@outlook.com>
* [Model] Heterogeneous graph support for GNNExplainer (#1)
* add HeteroGNNExplainer
* GNNExplainer for heterogeenous graph
* fix typo
* variable name cleanup
* added HeteroGNNExplainer test
* added doc indexing for HeteroGNNExplainer
* Update python/dgl/nn/pytorch/explain/gnnexplainer.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
* Update python/dgl/nn/pytorch/explain/gnnexplainer.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
* Update python/dgl/nn/pytorch/explain/gnnexplainer.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
* Update python/dgl/nn/pytorch/explain/gnnexplainer.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
* Update python/dgl/nn/pytorch/explain/gnnexplainer.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
* Update python/dgl/nn/pytorch/explain/gnnexplainer.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
* Update python/dgl/nn/pytorch/explain/gnnexplainer.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
* Update python/dgl/nn/pytorch/explain/gnnexplainer.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
* Update python/dgl/nn/pytorch/explain/gnnexplainer.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
* Update python/dgl/nn/pytorch/explain/gnnexplainer.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
* Update python/dgl/nn/pytorch/explain/gnnexplainer.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
* Update python/dgl/nn/pytorch/explain/gnnexplainer.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
* Update python/dgl/nn/pytorch/explain/gnnexplainer.py
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
* Update gnnexplainer.py
Change DGLHeteroGraph to DGLGraph, and specified parameter inputs
* Added ntype parameter to the explainer_node call
* responding to @mufeili's comment regarding restoring empty lines at appriopiate places to be consistent with existing practices
* responding to @mufeili's comment regarding restoring empty lines at appriopiate places that were missed in the last commit
* docstring comments added based on @mufeili suggestions
* indorporated @mufeili requested changes related to docstring model declaration.
* example model and test_nn.py added for explain_graphs
* explain_nodes fixed and fixed the way hetero num nodes and edges are handled
* white spaces removed
* lint issues fixed
* explain_graph model updated
* explain nodes model updated
* minor fixes related to gpu compatability
* cuda support added
* simplify WIP
* _init_masks for ennexplainer updated to match heterographs
* Update
* model simplified and docstring comments updated
* nits: docstring udpated
* lint check issues updated
* lint check updated
* soem formatting updated
* disabling int32 testing for GNNExplainer
* Update
Co-authored-by: Kangkook Jee <kangkook.jee@gmail.com>
Co-authored-by: ahadjawaid <94938815+ahadjawaid@users.noreply.github.com>
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
Co-authored-by: kxm180046 <kxm180046@utdallas.edu>
Co-authored-by: Kunal Mukherjee <kunmukh@gmail.com>
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-26.ap-northeast-1.compute.internal>
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
* [Dist] Reduce peak memory in DistDGL: avoid validation, release memory once loaded
* remove orig_id from ndata/edata for partition_graph()
* delete orig_id from ndata/edata in dist part pipeline
* reduce dtype size and format before saving graphs
* fix lint
* ETYPE requires to be int32/64 for CSRSortByTag
* fix test failure
* refine
* refactor the function and module of laplacian_pe
* add blank lines between design doc
* 1st approving review
* update the unittest
* fix lint issues
* fix trailing space
* update by mufei's comments and fix backend bugs
* del test file
Co-authored-by: rudongyu <ru_dongyu@outlook.com>
Co-authored-by: Rhett Ying <85214957+Rhett-Ying@users.noreply.github.com>
* Creating ParMETIS wrapper script to run parmetis using one script from user perspective
* Addressed all the CI comments from PR https://github.com/dmlc/dgl/pull/4529
* Addressing CI comments.
* Isort, and black changes.
* Replaced python with python3
* Replaced single quote with double quotes per suggestion.
* Removed print statement
* Addressing CI Commets.
* Addressing CI review comments.
* Addressing CI comments as per chime discussion with Rui
* CI Comments, Black and isort changes
* Align with code refactoring, black, isort and code review comments.
* Addressing CI review comments, and fixing merge issues with the master branch
* Updated with proper unit test skip decorator
* Added support for edge features.
* Added comments and removing unnecessary print statements.
* updated data_shuffle.py to remove compile error.
* Repaled python3 with python to match CI test framework.
* Removed unrelated files from the pull request.
* Isort changes.
* black changes on this file.
* Addressing CI review comments.
* Addressing CI comments.
* Removed duplicated and resolved merge conflict code.
* Addressing CI Comments from Rui.
* Addressing CI comments, and fixing merge issues.
* Addressing CI comments, code refactoring, isort and black
* [Sparse] Add SparseMatrix unittest and fix docstring problem
* Minor fix
* Update
* check permission
* rm future annonations
* Skip create_from_csr and create_from_csc tests because Pytorch 1.9.0 does not have torch.sparse_csr_tensor
Co-authored-by: Israt Nisa <nisisrat@amazon.com>
* sddmm init
* SDDMM with N-D nonzero values
* drop support for vector shaped non zero elements
* address comments
* skip cpu test
* skip GPU test too
Co-authored-by: Israt Nisa <nisisrat@amazon.com>
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
* [Dist] enable to partition many chunks into less partitions via pipeline
* refine
* add meta file for num_parts, add more tests, refine docstring
* remove args.num_parts
* create pydantic class for partition metadata
* refine
* rename json file
* add set_stream
* add .record_stream for NDArray and HeteroGraph
* refactor dgl stream Python APIs
* test record_stream
* add unit test for record stream
* use pytorch's stream
* fix lint
* fix cpu build
* address comments
* address comments
* add record stream tests for dgl.graph
* record frames and update dataloder
* add docstring
* update frame
* add backend check for record_stream
* remove CUDAThreadEntry::stream
* record stream for newly created formats
* fix bug
* fix cpp test
* fix None c_void_p to c_handle
* [DistPart] expose timeout config for process group
* refine code
* Update tools/distpartitioning/data_proc_pipeline.py
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
Minjie Wang