How To Install python3-freecontact on Debian 12
Introduction
In this tutorial we learn how to install python3-freecontact on Debian 12.
What is python3-freecontact
python3-freecontact is:
FreeContact is a protein residue contact predictor optimized for speed. Its input is a multiple sequence alignment. FreeContact can function as an accelerated drop-in for the published contact predictors EVfold-mfDCA of DS. Marks (2011) and PSICOV of D. Jones (2011).
FreeContact is accelerated by a combination of vector instructions, multiple threads, and faster implementation of key parts. Depending on the alignment, 8-fold or higher speedups are possible.
A sufficiently large alignment is required for meaningful results. As a minimum, an alignment with an effective (after-weighting) sequence count bigger than the length of the query sequence should be used. Alignments with tens of thousands of (effective) sequences are considered good input.
jackhmmer(1) from the hmmer package, or hhblits(1) from hhsuite can be used to generate the alignments, for example.
This package contains the Python3 binding.
There are three methods to install python3-freecontact on Debian 12. 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-freecontact 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-freecontact using apt-get by running the following command:
sudo apt-get -y install python3-freecontact
Install python3-freecontact Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install python3-freecontact using apt by running the following command:
sudo apt -y install python3-freecontact
Install python3-freecontact 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-freecontact using aptitude by running the following command:
sudo aptitude -y install python3-freecontact
How To Uninstall python3-freecontact on Debian 12
To uninstall only the python3-freecontact package we can use the following command:
sudo apt-get remove python3-freecontact
Uninstall python3-freecontact And Its Dependencies
To uninstall python3-freecontact and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove python3-freecontact
Remove python3-freecontact Configurations and Data
To remove python3-freecontact configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge python3-freecontact
Remove python3-freecontact configuration, data, and all of its dependencies
We can use the following command to remove python3-freecontact configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge python3-freecontact
Dependencies
python3-freecontact have the following dependencies:
- python3
- python3
- libboost-python1.74.0
- libboost-python1.74.0-py311
- libc6
- libfreecontact0v5
- libgcc-s1
- libstdc++6
References
Summary
In this tutorial we learn how to install python3-freecontact package on Debian 12 using different package management tools: apt, apt-get and aptitude.
