How To Install shovill on Debian 11

In this tutorial we learn how to install shovill on Debian 11. shovill is Assemble bacterial isolate genomes from Illumina paired-end reads

Introduction

In this tutorial we learn how to install shovill on Debian 11.

What is shovill

shovill is:

Shovill is a pipeline which uses SPAdes at its core, but alters the steps before and after the primary assembly step to get similar results in less time. Shovill also supports other assemblers like SKESA, Velvet and Megahit, so you can take advantage of the pre- and post-processing the Shovill provides with those too.

There are three methods to install shovill on Debian 11. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.

Install shovill Using apt-get

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

sudo apt-get update

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

sudo apt-get -y install shovill

Install shovill Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install shovill

Install shovill 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 Debian. Update apt database with aptitude using the following command.

sudo aptitude update

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

sudo aptitude -y install shovill

How To Uninstall shovill on Debian 11

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

sudo apt-get remove shovill

Uninstall shovill And Its Dependencies

To uninstall shovill and its dependencies that are no longer needed by Debian 11, we can use the command below:

sudo apt-get -y autoremove shovill

Remove shovill Configurations and Data

To remove shovill configuration and data from Debian 11 we can use the following command:

sudo apt-get -y purge shovill

Remove shovill configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge shovill

Dependencies

shovill have the following dependencies:

References

Summary

In this tutorial we learn how to install shovill package on Debian 11 using different package management tools: apt, apt-get and aptitude.