ovary-analysis

Image processing pipeline for ultrasound images of ovaries.

Installation

First, clone the repository

git clone git@git.bsse.ethz.ch:iber/ovary-analysis.git

Then, cd to the directory you cloned the repository into

cd ovary-analysis

Create a new python environment for the ovary-analysis package. If you are using anaconda, you can do the following

conda create -n ovary-analysis python=3.7

Activate your new environment

conda activate ovary-analysis

Install the ovary-analysis package with with. If you are just using the package, install using:

pip install .

If you want to install for development, use the pip editable mode:

pip install -e .

Developer tools

We use black and flake8 for formatting assistance. To install them, run the following from the repository directory

pip install -r requirements-dev.txt

Finally, install the pre-commit hooks.

pre-commit install