Add unified CEBRA encoder: pytorch implementation#251

Merged

stes merged 136 commits intoAdaptiveMotorControlLab:mainfrom

CeliaBenquet:unified-cebra

Jun 5, 2025

Commits on Aug 23, 2024

first proposal for batching in tranform method

gonlairo
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stes
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first running version of padding with batched inference

gonlairo
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stes
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start tests

gonlairo
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stes
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add pad_before_transform to fit function and add support for convolutional models in _transform

gonlairo
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stes
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remove print statements

gonlairo
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stes
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first passing test

gonlairo
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stes
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add support for hybrid models

gonlairo
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stes
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rewrite transform in sklearn API

gonlairo
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stes
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baseline version of a torch.Datset

gonlairo
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stes
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move batching logic outside solver

gonlairo
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stes
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move functionality to base file in solver and separate in functions

gonlairo
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stes
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add test_select_model for single session

gonlairo
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stes
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add checks and test for _process_batch

gonlairo
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stes
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add test_select_model for multisession

gonlairo
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stes
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make self.num_sessions compatible with single session training

gonlairo
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stes
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improve test_batched_transform_singlesession

gonlairo
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stes
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make it work with small batches

gonlairo
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stes
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make test with multisession work

gonlairo
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stes
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change to torch padding

gonlairo
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stes
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add argument to sklearn api

gonlairo
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stes
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add torch padding to _transform

gonlairo
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stes
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convert to torch if numpy array as inputs

gonlairo
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stes
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add distinction between pad with data and pad with zeros and modify test accordingly

gonlairo
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stes
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differentiate between data padding and zero padding

gonlairo
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stes
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remove float16

gonlairo
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stes
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change argument position

gonlairo
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stes
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clean test

gonlairo
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stes
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clean test

gonlairo
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stes
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Fix warning

CeliaBenquet
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stes
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Improve modularity remove duplicate code and todos

CeliaBenquet
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stes
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Add tests to solver

CeliaBenquet
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stes
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Remove unused import in solver/utils

CeliaBenquet
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stes
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Fix test plot

CeliaBenquet
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stes
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Add some coverage

CeliaBenquet
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stes
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Fix save/load

CeliaBenquet
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stes
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Remove duplicate configure_for in multi dataset

CeliaBenquet
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stes
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Make save/load cleaner

CeliaBenquet
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stes
committed

Commits on Sep 19, 2024

Add review updates
CeliaBenquet
committed

Commits on Oct 20, 2024

Commits on Oct 27, 2024

Commits on Jan 21, 2025

Concatenate last batches for batched inference (#200)
CeliaBenquet
authored

Commits on Apr 23, 2025

Fix linting errors in tests (#188)

stes
authored and
CeliaBenquet
committed
Fix `scikit-learn` reference in conda environment files (#195)

stes
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CeliaBenquet
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Add support for new __sklearn_tags__ (#205)

stes
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CeliaBenquet
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Update workflows to actions/setup-python@v5, actions/cache@v4 (#212)

stes
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CeliaBenquet
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Fix deprecation warning force_all_finite -> ensure_all_finite for sklearn>=1.6 (#206)

icarosadero
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CeliaBenquet
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Add tests to check legacy model loading (#214)

stes
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CeliaBenquet
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Add improved goodness of fit implementation (#190)

stes
and
CeliaBenquet
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Support numpy 2, upgrade tests to support torch 2.6 (#221)

stes
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CeliaBenquet
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Release 0.5.0rc1 (#189)

authored and
CeliaBenquet
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Fix pypi action (#222)

stes
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CeliaBenquet
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Update base.py (#224)

icarosadero
authored and
CeliaBenquet
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Change max consistency value to 100 instead of 99 (#227)

committed
Update assets.py --> force check for parent dir (#230)

MMathisLab
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CeliaBenquet
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User docs minor edit (#229)

authored and
CeliaBenquet
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General Doc refresher (#232)

authored and
CeliaBenquet
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render plotly in our docs, show code/doc version (#231)

MMathisLab
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CeliaBenquet
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Update layout.html (#233)

MMathisLab
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CeliaBenquet
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Update conf.py (#234)

MMathisLab
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CeliaBenquet
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Refactoring setup.cfg (#228)

MMathisLab
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CeliaBenquet
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Home page landing update (#235)

MMathisLab
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CeliaBenquet
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v0.5.0 (#238)

MMathisLab
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CeliaBenquet
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Upgrade docs build (#241)

stes
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CeliaBenquet
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Allow indexing of the cebra docs (#242)

stes
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CeliaBenquet
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Fix broken docs coverage workflows (#246)

stes
authored and
CeliaBenquet
committed
Add xCEBRA implementation (AISTATS 2025) (#225)

authored and
CeliaBenquet
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start tests

gonlairo
authored and
CeliaBenquet
committed
remove print statements

gonlairo
authored and
CeliaBenquet
committed
first passing test

gonlairo
authored and
CeliaBenquet
committed
move functionality to base file in solver and separate in functions

gonlairo
authored and
CeliaBenquet
committed
add test_select_model for multisession

gonlairo
authored and
CeliaBenquet
committed
remove float16

gonlairo
authored and
CeliaBenquet
committed
Improve modularity remove duplicate code and todos
CeliaBenquet
committed
Add tests to solver
CeliaBenquet
committed
Fix save/load
CeliaBenquet
committed
Fix extra docs errors
CeliaBenquet
committed
Add review updates
CeliaBenquet
committed
apply ruff auto-fixes

stes
authored and
CeliaBenquet
committed
fix linting errors

stes
authored and
CeliaBenquet
committed
Run isort, ruff, yapf
CeliaBenquet
committed
Merge remote-tracking branch 'upstream/main' into batched-inference-and-padding
CeliaBenquet
committed
Merge branch 'main' into batched-inference-and-padding
MMathisLab
authored

Commits on Apr 25, 2025

Commits on Apr 30, 2025

Fix docs error
CeliaBenquet
committed

Commits on May 23, 2025

Update mask.py
MMathisLab
authored

Commits on May 24, 2025

Merge branch 'main' into unified-cebra
MMathisLab
authored

Commits on Jun 5, 2025

minor simplification in solver
stes
authored