How To Install stacks-web on Ubuntu 18.04
Introduction
In this tutorial we learn how to install stacks-web on Ubuntu 18.04.
What is stacks-web
stacks-web is:
Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform. Stacks was developed to work with restriction enzyme-based data, such as RAD-seq, for the purpose of building genetic maps and conducting population genomics and phylogeography.
This package provides the web-based viewer which you can use to examine Stacks output that has been loaded into a MySQL database.
There are three methods to install stacks-web on Ubuntu 18.04. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install stacks-web Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install stacks-web using apt-get by running the following command:
sudo apt-get -y install stacks-web
Install stacks-web Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install stacks-web using apt by running the following command:
sudo apt -y install stacks-web
Install stacks-web 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 stacks-web using aptitude by running the following command:
sudo aptitude -y install stacks-web
How To Uninstall stacks-web on Ubuntu 18.04
To uninstall only the stacks-web package we can use the following command:
sudo apt-get remove stacks-web
Uninstall stacks-web And Its Dependencies
To uninstall stacks-web and its dependencies that are no longer needed by Ubuntu 18.04, we can use the command below:
sudo apt-get -y autoremove stacks-web
Remove stacks-web Configurations and Data
To remove stacks-web configuration and data from Ubuntu 18.04 we can use the following command:
sudo apt-get -y purge stacks-web
Remove stacks-web configuration, data, and all of its dependencies
We can use the following command to remove stacks-web configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge stacks-web
References
Summary
In this tutorial we learn how to install stacks-web package on Ubuntu 18.04 using different package management tools: apt, apt-get and aptitude.
