How To Install python-ruffus on Debian 9

In this tutorial we learn how to install python-ruffus on Debian 9. python-ruffus is Python computation pipeline library widely used in bioinformatics

Introduction

In this tutorial we learn how to install python-ruffus on Debian 9.

What is python-ruffus

python-ruffus is:

Ruffus is designed to allow scientific and other analyses to be automated with the minimum of fuss and the least effort.

  • Lightweight: Suitable for the simplest of tasks
  • Scalable: Handles even fiendishly complicated pipelines which would cause make or scons to go cross-eyed and recursive.
  • Standard Python: No “clever magic”, no pre-processing.
  • Unintrusive: Unambitious, lightweight syntax which tries to do this one small thing well.

There are three methods to install python-ruffus on Debian 9. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.

Install python-ruffus Using apt-get

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

sudo apt-get update

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

sudo apt-get -y install python-ruffus

Install python-ruffus Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install python-ruffus

Install python-ruffus 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 python-ruffus using aptitude by running the following command:

sudo aptitude -y install python-ruffus

How To Uninstall python-ruffus on Debian 9

To uninstall only the python-ruffus package we can use the following command:

sudo apt-get remove python-ruffus

Uninstall python-ruffus And Its Dependencies

To uninstall python-ruffus and its dependencies that are no longer needed by Debian 9, we can use the command below:

sudo apt-get -y autoremove python-ruffus

Remove python-ruffus Configurations and Data

To remove python-ruffus configuration and data from Debian 9 we can use the following command:

sudo apt-get -y purge python-ruffus

Remove python-ruffus configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge python-ruffus

Dependencies

python-ruffus have the following dependencies:

References

Summary

In this tutorial we learn how to install python-ruffus package on Debian 9 using different package management tools: apt, apt-get and aptitude.