How To Install esearch on CentOS 8
In this tutorial, we will discuss How To Install esearch on CentOS 8
yum package managers.
Also, we will demonstrate how to uninstall and update
esearch as well.
If you are only interested in the installation command, here is a quick answer for you:
or if you use
sudo yum makecache && sudo yum -y install ncbi-entrez-direct
sudo dnf makecache && sudo dnf -y install ncbi-entrez-direct
But if you are interested in the details with step-by-step instructions, the following information will be helpful.
Short description: NCBI Entrez utilities on the command line
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 esearch 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.
First, update dnf packages database with
dnf by running the next command:
sudo dnf makecache --refresh
After updating database,
You can install esearch using
dnf by running the
sudo dnf -y install ncbi-entrez-direct
Because esearch is available in CentOS 8’s default
it is possible to install it from these repositories using the
To begin, update local packages database with
yum using the following command.
sudo yum makecache --refresh
Now can install esearch package on your server/computer by running the following command:
sudo yum -y install ncbi-entrez-direct
To update all the packages available on the system:
If you want to update a specific package like esearch in this example you should use the following command:
yum update ncbi-entrez-direct
To downgrade a package to an earlier version:
yum downgrade ncbi-entrez-direct
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 ncbi-entrez-direct
To uninstall only the
esearch package you can execute
sudo dnf remove ncbi-entrez-direct
Entrez Direct (EDirect) is an advanced method for accessing NCBI's set of interconnected databases (publication, sequence, structure, gene, variation, expression, etc.) from a terminal window or script. Functions take search terms from command-line arguments. Individual operations are combined to build multi-step queries. Record retrieval and formatting normally complete the process. EDirect also provides an argument-driven function that simplifies the extraction of data from document summaries or other results that are returned in structured XML format. This can eliminate the need for writing custom software to answer ad hoc questions. Queries can move seamlessly between EDirect commands and UNIX utilities or scripts to perform actions that cannot be accomplished entirely within Entrez.
You now have a full guide on how to install
yum package managers.
Also, we showed how to update manually as a single package and different ways to uninstall
the esearch from CentOS 8.