How To Install murasaki-mpi on Debian 11

In this tutorial we learn how to install murasaki-mpi on Debian 11. murasaki-mpi is homology detection tool across multiple large genomes (MPI-version)

Introduction

In this tutorial we learn how to install murasaki-mpi on Debian 11.

What is murasaki-mpi

murasaki-mpi is:

Murasaki is a scalable and fast, language theory-based homology detection tool across multiple large genomes. It enable whole-genome scale multiple genome global alignments. Supports unlimited length gapped-seed patterns and unique TF-IDF based filtering.

Murasaki is an anchor alignment software, which is

  • exteremely fast (17 CPU hours for whole Human x Mouse genome (with 40 nodes: 52 wall minutes))
  • scalable (Arbitrarily parallelizable across multiple nodes using MPI. Even a single node with 16GB of ram can handle over 1Gbp of sequence.)
  • unlimited pattern length
  • repeat tolerant
  • intelligent noise reduction

This package provides the MPI-enabled binary for murasaki. While this will speed up operation on multi-processor machines it will slow down on a single processor.

There are three methods to install murasaki-mpi 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 murasaki-mpi Using apt-get

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

sudo apt-get update

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

sudo apt-get -y install murasaki-mpi

Install murasaki-mpi Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install murasaki-mpi

Install murasaki-mpi 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 murasaki-mpi using aptitude by running the following command:

sudo aptitude -y install murasaki-mpi

How To Uninstall murasaki-mpi on Debian 11

To uninstall only the murasaki-mpi package we can use the following command:

sudo apt-get remove murasaki-mpi

Uninstall murasaki-mpi And Its Dependencies

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

sudo apt-get -y autoremove murasaki-mpi

Remove murasaki-mpi Configurations and Data

To remove murasaki-mpi configuration and data from Debian 11 we can use the following command:

sudo apt-get -y purge murasaki-mpi

Remove murasaki-mpi configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge murasaki-mpi

Dependencies

murasaki-mpi have the following dependencies:

References

Summary

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