How To Install murasaki-common on Ubuntu
Posted on April 1, 2023 (Last modified on May 20, 2023 )
3 minutes • 435 words
Introduction
In this tutorial we learn how to install murasaki-common on Ubuntu.
What is murasaki-common
murasaki-common 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 contains all files that are common to the single core murasaki package and the multi core murasaki-mpi package.
There are three methods to install murasaki-common on Ubuntu. 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-common 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-common using apt-get by running the following command:
sudo apt-get -y install murasaki-common
Install murasaki-common Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install murasaki-common using apt by running the following command:
sudo apt -y install murasaki-common
Install murasaki-common 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 Ubuntu. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install murasaki-common using aptitude by running the following command:
sudo aptitude -y install murasaki-common
How To Uninstall murasaki-common on Ubuntu
To uninstall only the murasaki-common package we can use the following command:
sudo apt-get remove murasaki-common
Uninstall murasaki-common And Its Dependencies
To uninstall murasaki-common and its dependencies that are no longer needed by Ubuntu, we can use the command below:
sudo apt-get -y autoremove murasaki-common
Remove murasaki-common Configurations and Data
To remove murasaki-common configuration and data from Ubuntu we can use the following command:
sudo apt-get -y purge murasaki-common
Remove murasaki-common configuration, data, and all of its dependencies
We can use the following command to remove murasaki-common configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge murasaki-common
Dependencies
murasaki-common have the following dependencies:
References
Summary
In this tutorial we learn how to install murasaki-common package on Ubuntu using different package management tools: apt, apt-get and aptitude.