How To Install python3-pyfaidx on Debian 10
Introduction
In this tutorial we learn how to install python3-pyfaidx on Debian 10.
What is python3-pyfaidx
python3-pyfaidx is:
Samtools provides a function “faidx” (FAsta InDeX), which creates a small flat index file “.fai” allowing for fast random access to any subsequence in the indexed FASTA file, while loading a minimal amount of the file in to memory. This Python module implements pure Python classes for indexing, retrieval, and in-place modification of FASTA files using a samtools compatible index. The pyfaidx module is API compatible with the pygr seqdb module. A command-line script “faidx” is installed alongside the pyfaidx module, and facilitates complex manipulation of FASTA files without any programming knowledge.
This package provides the Python 3 modules to access fasta files.
There are three methods to install python3-pyfaidx on Debian 10. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install python3-pyfaidx Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install python3-pyfaidx using apt-get by running the following command:
sudo apt-get -y install python3-pyfaidx
Install python3-pyfaidx Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install python3-pyfaidx using apt by running the following command:
sudo apt -y install python3-pyfaidx
Install python3-pyfaidx 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 python3-pyfaidx using aptitude by running the following command:
sudo aptitude -y install python3-pyfaidx
How To Uninstall python3-pyfaidx on Debian 10
To uninstall only the python3-pyfaidx package we can use the following command:
sudo apt-get remove python3-pyfaidx
Uninstall python3-pyfaidx And Its Dependencies
To uninstall python3-pyfaidx and its dependencies that are no longer needed by Debian 10, we can use the command below:
sudo apt-get -y autoremove python3-pyfaidx
Remove python3-pyfaidx Configurations and Data
To remove python3-pyfaidx configuration and data from Debian 10 we can use the following command:
sudo apt-get -y purge python3-pyfaidx
Remove python3-pyfaidx configuration, data, and all of its dependencies
We can use the following command to remove python3-pyfaidx configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge python3-pyfaidx
Dependencies
python3-pyfaidx have the following dependencies:
References
Summary
In this tutorial we learn how to install python3-pyfaidx package on Debian 10 using different package management tools: apt, apt-get and aptitude.
