How To Install gsort on Kali Linux

Introduction

In this tutorial we learn how to install gsort on Kali Linux.

What is gsort

gsort is:

gsort is a tool to sort genomic files according to a genomefile. For example, to sort VCF to have order: X, Y, 2, 1, 3, … and the header needs to be kept at the top.

As a more likely example, if a file nneds to be sorted to match GATK order (1 … X, Y, MT) which is not possible with any other sorting tool. With gsort one can simply place MT as the last chrom in the “.genome” file.

It will also be useful for getting files ready for use in bedtools.

There are three methods to install gsort on Kali Linux. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.

Install gsort Using apt-get

Update apt database with apt-get using the following command.

sudo apt-get update

After updating apt database, We can install gsort using apt-get by running the following command:

sudo apt-get -y install gsort

Install gsort Using apt

Update apt database with apt using the following command.

sudo apt update

After updating apt database, We can install gsort using apt by running the following command:

sudo apt -y install gsort

Install gsort Using aptitude

If you want to follow this method, you might need to install aptitude on Kali Linux first since aptitude is usually not installed by default on Kali Linux. Update apt database with aptitude using the following command.

sudo aptitude update

After updating apt database, We can install gsort using aptitude by running the following command:

sudo aptitude -y install gsort

How To Uninstall gsort on Kali Linux

To uninstall only the gsort package we can use the following command:

sudo apt-get remove gsort

Uninstall gsort And Its Dependencies

To uninstall gsort and its dependencies that are no longer needed by Kali Linux, we can use the command below:

sudo apt-get -y autoremove gsort

Remove gsort Configurations and Data

To remove gsort configuration and data from Kali Linux we can use the following command:

sudo apt-get -y purge gsort

Remove gsort configuration, data, and all of its dependencies

We can use the following command to remove gsort configurations, data and all of its dependencies, we can use the following command:

sudo apt-get -y autoremove --purge gsort

Dependencies

gsort have the following dependencies:

• libc6

References

• gsort website

Summary

In this tutorial we learn how to install gsort package on Kali Linux using different package management tools: apt, apt-get and aptitude.