Installation

Diluvian requires CUDA. For help installing CUDA, follow the TensorFlow installation instructions for GPU support. Note that diluvian will only install TensorFlow CPU during setup, so you will want to install the version of tensorflow-gpu diluvian requires:

pip install 'tensorflow-gpu==1.3.0'

You should install diluvian in a virtualenv or similar isolated environment. All other documentation here assumes a a virtualenv has been created and is active.

The neuroglancer PyPI package release is out-of-date, so to avoid spurious console output and other issues you may want to install from source.

To use skeletonization you must install the skeletopyze library into the virtualenv manually. See its documentation for requirements and instructions.

Stable release

To install diluvian, run this command in your terminal:

pip install diluvian

This is the preferred method to install diluvian, as it will always install the most recent stable release.

If you don’t have pip installed, this Python installation guide can guide you through the process.

From sources

The sources for diluvian can be downloaded from the Github repo.

You can either clone the public repository:

git clone git://github.com/aschampion/diluvian

Or download the tarball:

curl  -OL https://github.com/aschampion/diluvian/tarball/master

Once you have a copy of the source, you can install it with:

python setup.py install