talmolab / sleap

A deep learning framework for multi-animal pose tracking.
https://sleap.ai
Other
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Replace imgaug with albumentations #1623

Closed talmo closed 6 months ago

talmo commented 9 months ago

Description

This PR replaces imgaug with albumentations as our library for image augmentation. We're doing this in the hopes of getting rid of our hard dependency on a specific variant of opencv which imgaug (which is no longer maintained) depends on.

Types of changes

Does this address any currently open issues?

648

Outside contributors checklist

Thank you for contributing to SLEAP!

:heart:

Summary by CodeRabbit

coderabbitai[bot] commented 9 months ago

[!IMPORTANT]

Auto Review Skipped

Review was skipped due to path filters

Files ignored due to path filters (2) * `environment_mac.yml` is excluded by: `!**/*.yml` * `environment_no_cuda.yml` is excluded by: `!**/*.yml`

Walkthrough

The codebase has transitioned from using the imgaug library to albumentations for image augmentation. This shift involves updates to package requirements, alterations in class names, method modifications, and changes in augmentation configurations to integrate the new library across various Python files.

Changes

File Path Change Summary
.conda/meta.yaml
sleap/nn/data/pipelines.py
tests/nn/data/test_augmentation.py
Replaced imgaug with albumentations in package requirements, imports, and usage.
sleap/nn/data/augmentation.py Transitioned from imgaug to albumentations, including import updates, class renaming, and method modifications.
.conda/bld.bat
.conda/build.sh
Modified pip install commands to exclude specific binary packages during installation.
requirements.txt Added the "albumentations" package.

🐇✨ In the land of code, where the pixels play, imgaug hops out, albumentations here to stay. With a flip and a twist, images transform with glee, A rabbit's touch, now all the data's spry and free! 🌟🎩

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codecov[bot] commented 9 months ago

Codecov Report

Attention: Patch coverage is 47.36842% with 10 lines in your changes are missing coverage. Please review.

Project coverage is 73.37%. Comparing base (60a441f) to head (41c9e6d). Report is 1 commits behind head on develop.

Files Patch % Lines
sleap/nn/data/augmentation.py 23.07% 10 Missing :warning:
Additional details and impacted files ```diff @@ Coverage Diff @@ ## develop #1623 +/- ## =========================================== - Coverage 73.38% 73.37% -0.01% =========================================== Files 134 134 Lines 24064 24063 -1 =========================================== - Hits 17659 17657 -2 - Misses 6405 6406 +1 ```

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