How To Install happy-clones-span-clumps on Debian 11

One-liner install command

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

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

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

What is happy-clones-span-clumps and what are the ways to install it?

Before beginning this tutorial, you will need access to a server or computer running Debian 11. This guide was written specifically with a server running Debian 11 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 happy-clones-span-clumps on Debian 11. 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 happy-clones-span-clumps 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 happy-clones-span-clumps using apt by running the following command:

sudo apt -y install atac

Install happy-clones-span-clumps using apt

Because happy-clones-span-clumps is available in Debian 11’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 happy-clones-span-clumps using apt by running the following command:

sudo apt -y install atac

Install happy-clones-span-clumps 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 11. Update apt database with aptitude using the following command.

sudo aptitude update

After updating aptitude database, You can install happy-clones-span-clumps by running the following command:

sudo aptitude -y install atac

How to upgrade (update) a single package happy-clones-span-clumps 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 happy-clones-span-clumps, e.g. single package, you should use the following format with the apt-get command/apt command:

sudo apt-get --only-upgrade install atac

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 atac

How To Uninstall happy-clones-span-clumps from Debian 11

To uninstall only the happy-clones-span-clumps package you can execute the following command:

sudo apt-get remove atac

Uninstall happy-clones-span-clumps and all its dependencies

To uninstall happy-clones-span-clumps and its dependencies that are no longer needed by Debian 11, you can use the command below:

sudo apt-get -y autoremove atac

Remove happy-clones-span-clumps with all configurations and data

To remove happy-clones-span-clumps configuration and data from your system you can run the following purge command:

sudo apt-get -y purge atac

Remove happy-clones-span-clumps completely (configurations, data and all of its dependencies)

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

sudo apt-get -y autoremove --purge atac

Extra info and code examples

atac computes a one-to-one pairwise alignment of large DNA sequences. It first finds the unique k-mers in each sequence, chains them to larger blocks, and fills in spaces between blocks. It was written primarily to transfer annotations between different assemblies of the human genome. The output is a set of ungapped 'matches', and a set of gapped 'runs' formed from the matches. Each match or run associates one sequence with the other sequence. The association is 'unique', in that there is no other (sizeable) associations for either sequence. Thus, large repeats and duplications are not present in the output - they appear as unmapped regions. Though the output is always pairwise, atac can cache intermediate results to speed a comparisons of multiple sequences. This package is part of the Kmer suite.

Conclusion

You now have a full guide on how to install happy-clones-span-clumps using apt, apt-get and aptitude tools. Also, we showed how to update as a single package and different ways to uninstall the happy-clones-span-clumps from Debian 11.

See also: