How To Install repeat-match on CentOS 8

One-liner Install Command

If you are only interested in the installation command, here is a quick answer for you:

sudo yum makecache && sudo yum -y install mummer

sudo dnf makecache && sudo dnf -y install mummer

But if you are interested in the details with step-by-step instructions, the following information will be helpful.

What is repeat-match and How to Install It?

First things first, you will need access to a server or computer running CentOS 8. This guide was written specifically with a server running CentOS 8 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 repeat-match on CentOS 8. 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 repeat-match on CentOS 8 using dnf

First, update dnf packages database with dnf by running the next command:

sudo dnf makecache --refresh

After updating database, You can install repeat-match using dnf by running the following command:

sudo dnf -y install mummer

Install repeat-match on CentOS 8 using yum

Because repeat-match is available in CentOS 8’s default repositories, it is possible to install it from these repositories using the yum packaging system.

To begin, update local packages database with yum using the following command.

sudo yum makecache --refresh

Now can install repeat-match package on your server/computer by running the following command:

sudo yum -y install mummer

How to upgrade (update) a single package repeat-match using yum?

To update all the packages available on the system:

yum update

If you want to update a specific package like repeat-match in this example you should use the following command:

yum update mummer

To downgrade a package to an earlier version:

yum downgrade mummer

How to Upgrade repeat-match on CentOS 8 with dnf?

When you run the dnf update, all system packages with available updates are updated. However, if you want to upgrade a single package, then you would have to pass the package name as the argument to the dnf update command.

dnf update mummer

How To remove repeat-match from CentOS 8

To uninstall only the repeat-match package you can execute the following command:

sudo dnf remove mummer

Extra info and code examples

MUMmer is a system for rapidly aligning entire genomes, whether in complete or draft form. For example, MUMmer 3.0 can find all 20-basepair or longer exact matches between a pair of 5-megabase genomes in 13.7 seconds, using 78 MB of memory, on a 2.4 GHz Linux desktop computer. MUMmer can also align incomplete genomes; it handles the 100s or 1000s of contigs from a shotgun sequencing project with ease, and will align them to another set of contigs or a genome using the NUCmer program included with the system. If the species are too divergent for DNA sequence alignment to detect similarity, then the PROmer program can generate alignments based upon the six-frame translations of both input sequences.

Conclusion

You now have a full guide on how to install repeat-match using dnf and yum package managers. Also, we showed how to update manually as a single package and different ways to uninstall the repeat-match from CentOS 8.

See also: