Code

Persistence diagrams workflow#93

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matteocao merged 68 commits intomastergiotto-ai/giotto-deep:masterfrom persistence_diagrams_workflowgiotto-ai/giotto-deep:persistence_diagrams_workflowCopy head branch name to clipboardJun 16, 2022

+2,706-1,215

Commits

Commits on May 23, 2022

• added modules from different branches

  raphaelreinauer

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  4dffe32

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• refactored construction of persistence diagrams

  raphaelreinauer

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  82968a4

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Commits on May 24, 2022

• refactored mutag pipeline

  raphaelreinauer

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  ba53b0d

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• added functionality to OneHotEncodedPersistenceDiagram

  raphaelreinauer

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• added test for OneHotEncodedPersistenceDiagram

  raphaelreinauer

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  6ab4b31

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• fixed OneHotEncodedPersistenceDiagram.from_numpy

  raphaelreinauer

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• added plot functionality to OneHotEncodedPersistenceDiagram

  raphaelreinauer

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Commits on May 25, 2022

• added plotting histogram

  raphaelreinauer

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  dda8155

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• fixed normalizing pd

  raphaelreinauer

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  8bb1a88

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• made data a member variable of OneHotEncodedPersistenceDiagram

  raphaelreinauer

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Commits on May 27, 2022

• added kwargs dataloader

  raphaelreinauer

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Commits on Jun 1, 2022

• refactored persistence diagram preprocessing components

  raphaelreinauer

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• added various pooling layers

  raphaelreinauer

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Commits on Jun 2, 2022

• refactored dataloader builder

  raphaelreinauer

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Commits on Jun 6, 2022

• extended DataLoaderParams dataclass

  raphaelreinauer

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  065d36b

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• changed model hyperparams

  raphaelreinauer

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  c4d4deb

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• Merge branch 'master' of https://github.com/giotto-ai/giotto-deep

  raphaelreinauer

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  1d08ec0

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• Merge branch 'master' of https://github.com/giotto-ai/giotto-deep

  raphaelreinauer

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Commits on Jun 14, 2022

• changed public api persformer

  raphaelreinauer

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• Merge branch 'master' into persistence_diagrams_workflow

  raphaelreinauer

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  4d6792d

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• fixed format collate_fn

  raphaelreinauer

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  fe98955

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• Merge branch 'master' of https://github.com/giotto-ai/giotto-deep

  raphaelreinauer

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  9cb037c

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• Merge branch 'master' into persistence_diagrams_workflow

  raphaelreinauer

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  fb4b9e3

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• fixed masked error in attentions

  raphaelreinauer

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  822deb3

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• removed print statements

  raphaelreinauer

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  d97d930

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• Merge branch 'master' of https://github.com/giotto-ai/giotto-deep

  raphaelreinauer

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  5101e52

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• Merge branch 'master' into persistence_diagrams_workflow

  raphaelreinauer

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  99f633c

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Commits on Jun 15, 2022

• added test for persformer

  raphaelreinauer

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  3b26054

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• added notbook for mutag_pipeline

  raphaelreinauer

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  648f033

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• removed graph_dataloaders.py

  raphaelreinauer

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  2700e49

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• removed graph_dataloaders.py

  raphaelreinauer

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  412320c

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• added torch_geometric to requirements

  raphaelreinauer

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• added torch_sparse

  raphaelreinauer

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  9f8fbc4

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• added dependencies of torch-geomtric

  raphaelreinauer

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• torch version error

  raphaelreinauer

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  06845a6

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• updated to newest version

  raphaelreinauer

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  e6874d1

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• put url at beginning

  raphaelreinauer

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  ebfa1b5

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• without -f

  raphaelreinauer

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  b1204b4

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• removed test data

  raphaelreinauer

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  e352ecc

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• new try

  raphaelreinauer

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  12135b4

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• new

  raphaelreinauer

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• new

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• ew

  raphaelreinauer

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  3e00e41

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• --find-links

  raphaelreinauer

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  7ee4d7d

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• new try

  raphaelreinauer

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  e562326

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• removed modules

  raphaelreinauer

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  4909f6a

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• small changes

  raphaelreinauer

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  88b6351

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• changed order

  raphaelreinauer

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  3d36baf

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• changes suggested by Matteo

  raphaelreinauer

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  642a2cc

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• added torch-sparse

  raphaelreinauer

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• added torch-scatter

  raphaelreinauer

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• added gudhi

  raphaelreinauer

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• added hpo initialization from model builder

  raphaelreinauer

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• added persformer_wrapper

  raphaelreinauer

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• added additional parameters to the static from_model_builder method

  raphaelreinauer

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Commits on Jun 16, 2022

• added mutag hpo

  raphaelreinauer

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  6ff5095

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• fixed change in persformer_config

  raphaelreinauer

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  2de76b1

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• commented out old api in orbit_5k_train.py

  raphaelreinauer

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• removed all persformer benchmark notebook

  raphaelreinauer

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  19fd6eb

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• updated jupyter notebooks

  raphaelreinauer

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  f3db492

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• fixed issue with the number of heads

  raphaelreinauer

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  8aa688a

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• fixed error in persformer wrapper

  raphaelreinauer

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  0275a29

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• added

  raphaelreinauer

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  26fb45a

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• fixed error with a too big batch size

  raphaelreinauer

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  a0602d1

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• fixed typo in PersformerConfig

  raphaelreinauer

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  d292c37

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• updated orbit_5k_pipeline notebook

  raphaelreinauer

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  8862400

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• added changes requested by Matteo

  raphaelreinauer

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• added new line

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