How To Install gmapl.avx2 on Ubuntu 22.04

One-liner install command

For those in a hurry, here's a one-line installation command:

sudo apt-get update && sudo apt -y install gmap

But if you are interested in the detailed steps with descriptions, the following information is for you.

What is gmapl.avx2 and what are the ways to install it?

Before beginning this tutorial, you will need access to a server or computer running Ubuntu 22.04. This guide was written specifically with a server running Ubuntu 22.04 in mind, although it should also work on older, supported versions of the operating system.

Also, make sure you are running a regular, non-root user with sudo privileges configured on your server. When you have an account available, log in as your non-root user to begin.

There are several ways to install gmapl.avx2 on Ubuntu 22.04. You can use (links are clickable):

In the following sections, we will describe each method in detail. You can choose one of them or refer to the recommended one.

Install gmapl.avx2 using apt-get

First, update apt database with apt-get using the following command.

sudo apt-get update

After updating apt-get database, You can install gmapl.avx2 using apt by running the following command:

sudo apt -y install gmap

Install gmapl.avx2 using apt

Because gmapl.avx2 is available in Ubuntu 22.04’s default repositories, it is possible to install it from these repositories using the apt packaging system.

To begin, update apt database with apt using the following command.

sudo apt update

After updating apt database, You can install gmapl.avx2 using apt by running the following command:

sudo apt -y install gmap

Install gmapl.avx2 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 22.04. Update apt database with aptitude using the following command.

sudo aptitude update

After updating aptitude database, You can install gmapl.avx2 by running the following command:

sudo aptitude -y install gmap

How to upgrade (update) a single package gmapl.avx2 using apt-get?

First, you will need to update packages index. Run update command as usual:

sudo apt-get update

Next, to upgrade only the gmapl.avx2, e.g. single package, you should use the following format with the apt-get command/apt command:

sudo apt-get --only-upgrade install gmap

Note that this command will not install any new packages! If you wish to install the package if it doesn't exist you may leave out --only-upgrade part.

sudo apt-get install gmap

How To Uninstall gmapl.avx2 from Ubuntu 22.04

To uninstall only the gmapl.avx2 package you can execute the following command:

sudo apt-get remove gmap

Uninstall gmapl.avx2 and all its dependencies

To uninstall gmapl.avx2 and its dependencies that are no longer needed by Ubuntu 22.04, you can use the command below:

sudo apt-get -y autoremove gmap

Remove gmapl.avx2 with all configurations and data

To remove gmapl.avx2 configuration and data from your system you can run the following purge command:

sudo apt-get -y purge gmap

Remove gmapl.avx2 completely (configurations, data and all of its dependencies)

And lastly, you can run the next command to remove absolutely everything related to gmapl.avx2 package, e.g.: configurations, data and all of its dependencies. Just use this command:

sudo apt-get -y autoremove --purge gmap

Extra info and code examples

This package contains the programs GMAP and GSNAP as well as utilities to manage genome databases in GMAP/GSNAP format. GMAP (Genomic Mapping and Alignment Program) is a tool for aligning EST, mRNA and cDNA sequences. GSNAP (Genomic Short-read Nucleotide Alignment Program) is a tool for aligning single-end and paired-end transcriptome reads. Both tools can use a database of * known splice sites and identify novel splice sites. * known single-nucleotide polymorphisms (SNPs). GSNAP can align bisulfite-treated DNA.

Conclusion

You now have a full guide on how to install gmapl.avx2 using apt, apt-get and aptitude tools. Also, we showed how to update as a single package and different ways to uninstall the gmapl.avx2 from Ubuntu 22.04.

See also: