Pronounced water-zed. A simple watershed and region agglomeration library for affinity graphs.
Based on the watershed implementation of Aleksandar Zlateski and Chandan Singh.
Install c++ dependencies:
sudo apt install libboost-dev
Install from PyPI
pip install waterz
install from local version
pip install .
import waterz
import numpy as np
# affinities is a [3,depth,height,width] numpy array of float32
affinities = ...
thresholds = [0, 100, 200]
segmentations = waterz.agglomerate(affinities, thresholds)
We use travis to create release
upgrade the version number in the setup.py file, then
git tag v0.9.5
git push origin v0.9.5
the travis build system will get a TRAVIS_TAG variable, and triger the twine upload command.