talmolab / sleap

A deep learning framework for multi-animal pose tracking.
https://sleap.ai
Other
427 stars 97 forks source link

Fix out of bounds albumentations issues and update dependencies #1724

Closed eberrigan closed 6 months ago

eberrigan commented 6 months ago

Description

Types of changes

Does this address any currently open issues?

1722 , #1719

Outside contributors checklist

Thank you for contributing to SLEAP!

:heart:

Summary by CodeRabbit

coderabbitai[bot] commented 6 months ago

Walkthrough

The changes involve updating dependencies and enhancing data augmentation capabilities. The project transitioned from imaug to albumentations for augmentation, leading to adjustments in dependency files and testing. Updates include adding new dependencies like qudida, albumentations, and ndx-pose, revising version constraints for various packages, and introducing new parameters and tests to handle edge cases in data augmentation more effectively.

Changes

Files Change Summaries
.conda/bld.bat, .conda/build.sh Removed the --no-binary qudida,albumentations option from the pip install command.
.conda/meta.yaml Added qudida, albumentations, ndx-pose to dependencies.
pypi_requirements.txt Updated opencv-python version to <=4.7.0, added albumentations, ndx-pose.
requirements.txt Adjusted version constraints for several packages, removed albumentations, ndx-pose.
sleap/nn/data/augmentation.py Added the remove_invisible=False parameter to A.KeypointParams in the uniform_noise function.
tests/nn/data/test_augmentation.py Added tests for augmentation edge cases and albumentations augmenter configuration.

Possibly related issues

Poem

"In the realm of code, where rabbits dare,
🐇 A leap was taken, into the air.
With albumentations now in play,
Edge cases handled, come what may.
Through fields of data, we hop and parse,
Ensuring keypoints, are first-class.
A celebration, for changes vast,
In augmentation, we're unsurpassed."

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codecov[bot] commented 6 months ago

Codecov Report

All modified and coverable lines are covered by tests :white_check_mark:

Project coverage is 73.31%. Comparing base (eb14764) to head (628d2ab).

Additional details and impacted files ```diff @@ Coverage Diff @@ ## develop #1724 +/- ## ======================================== Coverage 73.31% 73.31% ======================================== Files 134 134 Lines 24087 24087 ======================================== Hits 17659 17659 Misses 6428 6428 ```

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