How To Install voronota on Ubuntu
Posted on April 1, 2023 (Last modified on May 20, 2023 )
3 minutes • 449 words
Introduction
In this tutorial we learn how to install voronota on Ubuntu.
What is voronota
voronota is:
The analysis of macromolecular structures often requires a comprehensive definition of atomic neighborhoods. Such a definition can be based on the Voronoi diagram of balls, where each ball represents an atom of some van der Waals radius. Voronota is a software tool for finding all the vertices of the Voronoi diagram of balls. Such vertices correspond to the centers of the empty tangent spheres defined by quadruples of balls. Voronota is especially suitable for processing three-dimensional structures of biological macromolecules such as proteins and RNA.
Since version 1.2 Voronota also uses the Voronoi vertices to construct inter-atom contact surfaces and solvent accessible surfaces. Voronota provides tools to query contacts, generate contacts graphics, compare contacts and evaluate quality of protein structural models using contacts.
There are three methods to install voronota on Ubuntu. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install voronota Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install voronota using apt-get by running the following command:
sudo apt-get -y install voronota
Install voronota Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install voronota using apt by running the following command:
sudo apt -y install voronota
Install voronota Using aptitude
If you want to follow this method, you might need to install aptitude first since aptitude is usually not installed by default on Ubuntu. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install voronota using aptitude by running the following command:
sudo aptitude -y install voronota
How To Uninstall voronota on Ubuntu
To uninstall only the voronota package we can use the following command:
sudo apt-get remove voronota
Uninstall voronota And Its Dependencies
To uninstall voronota and its dependencies that are no longer needed by Ubuntu, we can use the command below:
sudo apt-get -y autoremove voronota
Remove voronota Configurations and Data
To remove voronota configuration and data from Ubuntu we can use the following command:
sudo apt-get -y purge voronota
Remove voronota configuration, data, and all of its dependencies
We can use the following command to remove voronota configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge voronota
Dependencies
voronota have the following dependencies:
References
Summary
In this tutorial we learn how to install voronota package on Ubuntu using different package management tools: apt, apt-get and aptitude.