Running InVesalius 3 in Windows

Windows (tested on Windows 10 64 bits)

Prerequisites

Python3 (We are using the version 3.7).

Visual Studio (We are using the 2019 community edition).

It's possible to install using chocolatey:

 choco install -y visualstudio2019buildtools
 choco install -y visualstudio2019-workload-vctools

Download InVesalius source code.

git clone https://github.com/invesalius/invesalius3.git

Python libs

Install InVesalius main dependencies (WXPython, numpy, scipy, scikit-image, ImageIO, H5Py, Pillow, Pyserial, PSUtil, nibabel, configparser, PyPubsub, plaidml and Cython) using pip:

pip install -r requirements.txt

When using the neuronavigation with Polaris tracking devices, install the PyPolaris library.

pip install https://github.com/invesalius/invesalius3/releases/download/v3.1.99994/pypolaris-0.0.1-py3-none-win_amd64.whl

To take advantage of the real-time tractography computation during neuronavigation, the package Trekker is required. The following command downloads and install the pre-generated wheel for Python 3.7:

pip install https://github.com/dmritrekker/trekker/raw/master/binaries/Trekker-0.7-cp37-cp37m-win_amd64.whl

Compiling InVesalius

Some algorithms of InVesalius are written in Cython for performance. It's needed to compile them. Open the command prompt of your Visual Studio and go to the InVesalius source, then compile using this command:

python setup.py build_ext --inplace