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Graph embedding and graph backbones#592

Merged

ethanwharris merged 205 commits intoLightning-Universe:masterfrom PabloAMC:task_a_thon

Nov 9, 2021

+360-117

Commits on Jul 12, 2021

Initial structure of GraphClassification model.py

pablo
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PabloAMC
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Improvement of model.py. Still need to debug etc

pablo
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PabloAMC
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BasicDataset Implemented

pablo
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PabloAMC
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Create __init__.py

pablo
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PabloAMC
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Implemented dataset and DataModule as for image processing

pablo
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PabloAMC
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Pipeline taken from images.

pablo
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PabloAMC
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Initial structure of GraphClassification model.py

pablo
authored and
PabloAMC
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Improvement of model.py. Still need to debug etc

pablo
authored and
PabloAMC
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BasicDataset Implemented

pablo
authored and
PabloAMC
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Implemented dataset and DataModule as for image processing

pablo
authored and
PabloAMC
committed
Pipeline taken from images.

pablo
authored and
PabloAMC
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Choice of model implemented (you can pass a model to GraphClassifier)

pablo
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PabloAMC
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[pre-commit.ci] auto fixes from pre-commit.com hooks

pre-commit-ci[bot]
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PabloAMC
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Initial readaptation of the structure
pablo
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[pre-commit.ci] auto fixes from pre-commit.com hooks

pre-commit-ci[bot]
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PabloAMC
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Minimal structure of how to structure data.py files
pablo
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pre-commit-ci[bot]
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Minor corrections
pablo
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update

tchaton
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i

tchaton
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update

tchaton
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pre-commit-ci[bot]
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PabloAMC
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Added auto_dataset.num_features
pablo
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Deleted manually included num_features so that it is extracted from GraphDatasetSource()
pablo
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Test for GraphClassification implemented
pablo
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Documentation for GraphClassification included
pablo
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PabloAMC
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Creation of from_pygdatasequence method in DataModule and GraphSequenceDataSource()
pablo
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Update graph_classification.py
PabloAMC
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Update datatype_graph.txt
PabloAMC
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Tests and docs for the from_pygdatasequence method
pablo
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[pre-commit.ci] auto fixes from pre-commit.com hooks

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PabloAMC
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Graph requirements
pablo
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Update CHANGELOG.md
pablo
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Update requirements with pytorch geometric libraries
pablo
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Simplified, version with only the DataSource
PabloAMC
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Minor tweaks
PabloAMC
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Merge branch 'master' of https://github.com/PabloAMC/lightning-flash
PabloAMC
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Update the flash_example to reflect the new template
PabloAMC
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Delete IMDB-BINARY_A.txt
PabloAMC
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Delete IMDB-BINARY_graph_indicator.txt
PabloAMC
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Delete IMDB-BINARY_graph_labels.txt
PabloAMC
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Class method from_pygdatasequence from flash/core/data/data_module.py
PabloAMC
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Merge branch 'master' of https://github.com/PabloAMC/lightning-flash
PabloAMC
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Commits on Jul 14, 2021

Creating backbones
PabloAMC
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Merge branch 'master' into master
ethanwharris
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Changing GRAPH_BACKBONES to GRAPH_CLASSIFICATION_BACKBONES
PabloAMC
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Update docs
ethanwharris
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Merge branch 'master' into master
ethanwharris
authored
fix imports.py
ethanwharris
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remove unused imports
ethanwharris
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clean init.py
ethanwharris
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updates
ethanwharris
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Minor tweaks in the docs and change from Graph_backbones to graph_classification_backbones
PabloAMC
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Updates
ethanwharris
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Updates
ethanwharris
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Updates
ethanwharris
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Graph embedding task implemented, modulo corrections
PabloAMC
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Error corrections
PabloAMC
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Merge branch 'master' into task_a_thon
PabloAMC
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Updates
ethanwharris
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Update docs
ethanwharris
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Update docs
ethanwharris
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Update docs
ethanwharris
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fix tests
ethanwharris
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fix tests
ethanwharris
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Add API reference
ethanwharris
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Try fix
ethanwharris
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Merge branch 'master' into task_a_thon
PabloAMC
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Included Networkx as requirement for graph library
PabloAMC
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Try fix
ethanwharris
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Try fix
ethanwharris
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Merge branch 'master' into task_a_thon
PabloAMC
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batch = (batch[DefaultDataKeys.INPUT], batch[DefaultDataKeys.TARGET]) to batch = (batch, batch.y)
PabloAMC
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Update flash/core/data/auto_dataset.py
ethanwharris
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Update docstring
ethanwharris
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Correction of minor errors
PabloAMC
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Updating docs
PabloAMC
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Merge branch 'master' into task_a_thon
PabloAMC
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Update graph_embedding docs
PabloAMC
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Minor tweaks
PabloAMC
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Commits on Jul 16, 2021

Commits on Jul 17, 2021

Update CHANGELOG.md
PabloAMC
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Merge remote-tracking branch 'upstream/master' into task_a_thon
PabloAMC
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Update graph requirements
PabloAMC
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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Update test_model.py
PabloAMC
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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Update data_module.py
PabloAMC
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Update data_module.py
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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Update test_model.py
PabloAMC
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Merge branch 'task_a_thon' of https://github.com/PabloAMC/lightning-flash into task_a_thon
PabloAMC
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_TORCH_GEOMETRIC_AVAILABLE to _GRAPH_AVAILABLE
PabloAMC
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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Adding num_features to uses of backbones
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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Update graph_classification.py
PabloAMC
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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committed
Update test_model.py
PabloAMC
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Merge branch 'task_a_thon' of https://github.com/PabloAMC/lightning-flash into task_a_thon
PabloAMC
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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Backbone kwargs default changed from None to {}
PabloAMC
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Merge branch 'task_a_thon' of https://github.com/PabloAMC/lightning-flash into task_a_thon
PabloAMC
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error correction in graph/embedding/test_model.py: num_classes -> embedding_dimension
PabloAMC
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Pretrained option not implemented for backbones error
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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Update model.py
PabloAMC
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Small error correction
PabloAMC
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Commits on Sep 20, 2021

Commits on Sep 23, 2021

Update CHANGELOG.md

PabloAMC
and
ethanwharris
authored
Update flash/graph/embedding/__init__.py

PabloAMC
and
ethanwharris
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Update flash_examples/graph_classification.py

PabloAMC
and
ethanwharris
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Update docs/source/reference/graph_embedding.rst

PabloAMC
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ethanwharris
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Updates based on ethan comments
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Importing partial
PabloAMC
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Merge branch 'task_a_thon' of https://github.com/PabloAMC/lightning-flash into task_a_thon
PabloAMC
committed
[pre-commit.ci] auto fixes from pre-commit.com hooks
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Update backbones.py
PabloAMC
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Merge branch 'task_a_thon' of https://github.com/PabloAMC/lightning-flash into task_a_thon
PabloAMC
committed
Update backbones.py
PabloAMC
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Update model.py
PabloAMC
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Eliminating pretrained option
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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Update backbones.py
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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Update backbones.py
PabloAMC
committed
Merge branch 'task_a_thon' of https://github.com/PabloAMC/lightning-flash into task_a_thon
PabloAMC
committed
Update backbones.py
PabloAMC
committed
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot]
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Update backbones.py
PabloAMC
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Merge branch 'task_a_thon' of https://github.com/PabloAMC/lightning-flash into task_a_thon
PabloAMC
committed
[pre-commit.ci] auto fixes from pre-commit.com hooks
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Update backbones.py
PabloAMC
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Merge branch 'task_a_thon' of https://github.com/PabloAMC/lightning-flash into task_a_thon
PabloAMC
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Merge branch 'master' into task_a_thon
PabloAMC
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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committed
Update backbones.py
PabloAMC
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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Update backbones.py
PabloAMC
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Merge branch 'task_a_thon' of https://github.com/PabloAMC/lightning-flash into task_a_thon
PabloAMC
committed
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot]
committed
Update backbones.py
PabloAMC
committed
Merge branch 'task_a_thon' of https://github.com/PabloAMC/lightning-flash into task_a_thon
PabloAMC
committed
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot]
committed
Update backbones.py
PabloAMC
committed
Merge branch 'task_a_thon' of https://github.com/PabloAMC/lightning-flash into task_a_thon
PabloAMC
committed
Update backbones.py
PabloAMC
committed
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot]
committed
Update backbones.py
PabloAMC
committed
Merge branch 'task_a_thon' of https://github.com/PabloAMC/lightning-flash into task_a_thon
PabloAMC
committed
[pre-commit.ci] auto fixes from pre-commit.com hooks
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Commits on Sep 24, 2021

Commits on Sep 27, 2021

update
tchaton
committed

Commits on Oct 16, 2021

Merge branch 'master' into task_a_thon
PabloAMC
authored

Commits on Nov 9, 2021