Francis

Francis is a friendly image analysis interface system.

Features

It allows pipeline creation with simple image analysis processes (erosion, threshold, ...).

You can import nifti data into Francis to make some basics operations and save the result.

How to use

Clone this repository

git clone git@github.com:Hboni/francis.git

Install python requirements

pip install -r ./requirements.txt

Launch the application

python ./main.py

Requirements

• PyQt5
• scikit-image
• nibabel
• pandas

How to contribute

To contribute to this project, you must clone this repository on you Windows or Ubuntu computer (other linux distros are not tested).

git clone https://github.com/Hboni/francis.git

It is recommended to use a python virtualenv to install dependencies:

cd francis
pip3 install virtualenv
python3 -m venv venv
source venv/bin/activate

pip install -r requirements.txt

To develop in this project, it is also recommended to use pre-commit.

pip instal -r tests/requirements.txt

Known issues

As Francis uses PyQt5 for its interface, it happens that on linux some library are missing, it can be needed to install them. (only tested on recent ubuntu)

For debian:

sudo apt-get install -y xvfb libxkbcommon-x11-0 libxcb-icccm4 libxcb-image0 libxcb-keysyms1 libxcb-randr0 libxcb-render-util0 libxcb-xinerama0 libxcb-xfixes0