How To Install toppred on Fedora 34

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 toppred

sudo dnf makecache && sudo dnf -y install toppred

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

What is toppred and How to Install It?

First things first, you will need access to a server or computer running Fedora 34. This guide was written specifically with a server running Fedora 34 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 toppred on Fedora 34. 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 toppred on Fedora 34 using dnf

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

sudo dnf makecache --refresh

After updating database, You can install toppred using dnf by running the following command:

sudo dnf -y install toppred

Install toppred on Fedora 34 using yum

Because toppred is available in Fedora 34’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 toppred package on your server/computer by running the following command:

sudo yum -y install toppred

How to upgrade (update) a single package toppred using yum?

To update all the packages available on the system:

yum update

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

yum update toppred

To downgrade a package to an earlier version:

yum downgrade toppred

How to Upgrade toppred on Fedora 34 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 toppred

How To remove toppred from Fedora 34

To uninstall only the toppred package you can execute the following command:

sudo dnf remove toppred

Extra info and code examples

Toppred is a program to determine the topology of a transmembrane protein based on G. von Heijne algorithm. Each sequence from seq data in fasta format is processed, and toppred generate the Hydrophobycity profile of the sequence, and the corresponding hydrophobycities values in the file sequence-ID.hydro. Furthermore, the predicted topologies are represented as png images. Each topology is stored in file sequence-ID-number.png The hydrophobicity profile is computed using a window formed by a core rectangular window of size n, flanked by 2 triangular windows of size q. NB rectangular and triangular mean that the ponderation values inside those windows are respectively constant and variable. This program is a new implementation of the original toppred program, based on G. von Heijne algorithm

Conclusion

You now have a full guide on how to install toppred using dnf and yum package managers. Also, we showed how to update manually as a single package and different ways to uninstall the toppred from Fedora 34.

See also: