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Installation Guide

Requirements

Saber runs on Python 3.10 and above on Linux or Windows with CUDA12.

Quick Installation

Saber is available on PyPI and can be installed using pip:

pip install saber-em

⚠️ Note By default, the GUI is not included in the base installation. To enable the graphical interface for manual annotation, install with: 

pip install saber-em[gui]

Development Installation

If you want to contribute to saber or need the latest development version, you can install from source:

git clone https://github.com/czi-ai/saber.git
cd saber
pip install -e .

Download Pre-trained Models

After installation, download the required SAM2 model weights:

saber download sam2-weights
This downloads the model weights to path/to/site-packages/saber/checkpoints/

Verification

To verify your installation, run:

python -c "import saber; print(saber.__version__)"

Next Steps