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SLEAP v1.1.2
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@arie-matsliah arie-matsliah released this 24 Mar 23:16
· 439 commits to main since this release
v1.1.2
25e8ab3

It is strongly recommended that you use SLEAP v1.1.3 instead of this version which has a bug that prevents training some types of models.

Release of SLEAP v1.1.2.

Includes several bug fixes and documentation improvements.

Full changelog

  • #498: Fix training when frames have no instances (fixes #480).
  • #503: Fix errors occurring sometimes after training (fixes part of #500)
  • #505: Add miscellaneous utilities/fixes
    • Add --open-in-gui flag to sleap-track to launch GUI on predictions
    • Add PredictedInstance.numpy() to convert predicted instances to numpy arrays
    • Fix visualization during single instance training
    • Add Skeleton.find_neighbors() to return parents and children of a node
    • Fix serialization of MediaVideo after loading from sleap.load_video() or sleap.load_file().
    • Add Instance.fill_missing() to initialize missing nodes (e.g., after importing from DLC)
  • #501/#519/#524: Fix multi-size video support in training and inference (fixes #510, #516, #517)
  • #523: Fix using sleap-track with zipped model folders
  • Revamped docs and notebooks to clarify the Colab-based workflow (especially Training and inference on your own data using Google Drive), which are now linked from the GUI as well

Installing

We recommend using Miniconda to install and manage your Python environments. This will also make GPU support work transparently without installing additional dependencies.

Using Conda (Windows/Linux)

  1. Delete any existing environment and start fresh (recommended):
conda env remove -n sleap
  1. Create new environment sleap (recommended):
conda create -n sleap -c sleap sleap=1.1.2

Or to update inside an existing environment:

conda install -c sleap sleap=1.1.2

Using PyPI (Windows/Linux/Mac)

  1. Create a new conda environment (recommended):
conda create -n sleap python=3.6
conda activate sleap
  1. Install from PyPI:
pip install sleap==1.1.2

Or to upgrade an existing installation:

pip install --upgrade --force-reinstall sleap==1.1.2

From source (development)

  1. Clone the repository at this tag:
git clone https://github.com/murthylab/sleap --branch v1.1.2 sleap_v1.1.2
cd sleap_v1.1.2
  1. Install conda environment and activate:
conda install -f environment.yml -n sleap_v1.1.2
conda activate sleap_v1.1.2
  1. Changes made in the code will be immediately reflected when running SLEAP in this environment.
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