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Installation

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Marwan edited this page Jun 8, 2020 · 10 revisions

Table of Contents

Prerequisites

To run the installation script, the following tools must be installed on your system:

Installation Procedure

VessMorphoVis can be installed on Linux and macOSX as follows:

  1. Download the setup.py script.

From the browser, this script can be downloaded by clicking on the link and then Save link as...

On Linux, this script can be downloaded from the terminal as follows

wget https://raw.githubusercontent.com/BlueBrain/VessMorphoVis/master/setup.py

On macOSX, this script can be downloaded from the terminal as follows

curl https://raw.githubusercontent.com/BlueBrain/VessMorphoVis/master/setup.py >setup.py .
  1. Change access permissions of the setup.py script to be able to execute it as follows
chmod +x setup.py
  1. Run the setup.py script and provide a valida or existing directory where the artifacts will be downloaded and installed.
./setup.py --prefix=VALID_DIRECTORY  --verbose

Users can select the version of Blender using the --blender-version option.

--blender-version BLENDER_VERSION
                    Blender version. 2.79, 2.80, or 2.81. By default it is 2.80.
  1. Once done, change directory to this VALID_DIRECTORY as follows
cd VALID_DIRECTORY/blender-bluebrain
  1. Run Blender from the terminal
./blender
  1. From the Edit panel, open Preferences.

  1. Go to the Add-ons panel and load VessMorphoVis from the list by checking the box: 3D View: VessMorphoVis.

  1. Once loaded without errors, close the Blender Pereferences window.

  2. If you click N, VessMorphoVis panel will appear on the right side of Blender (in Blender 2.8). In Blender 2.79 or earlier, this panel will appear on the left side of Blender.

Sample Morphologies

To test the package, a set of sample morphology files (in VMV , SWCand H5 formats) are available upon request from the Blue Brain Project. SWC morphologies are available from the brain vasculature [(BraVA) database] (http://cng.gmu.edu/brava/home.php?s=1&name_browser=false).

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