How To Install pm-clean on Ubuntu 21.04

One-liner install command

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

sudo apt-get update && sudo apt -y install ncbi-entrez-direct

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

What is pm-clean and what are the ways to install it?

Before beginning this tutorial, you will need access to a server or computer running Ubuntu 21.04. This guide was written specifically with a server running Ubuntu 21.04 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 pm-clean on Ubuntu 21.04. 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 pm-clean 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 pm-clean using apt by running the following command:

sudo apt -y install ncbi-entrez-direct

Install pm-clean using apt

Because pm-clean is available in Ubuntu 21.04’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 pm-clean using apt by running the following command:

sudo apt -y install ncbi-entrez-direct

Install pm-clean 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 21.04. Update apt database with aptitude using the following command.

sudo aptitude update

After updating aptitude database, You can install pm-clean by running the following command:

sudo aptitude -y install ncbi-entrez-direct

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

sudo apt-get --only-upgrade install ncbi-entrez-direct

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 ncbi-entrez-direct

How To Uninstall pm-clean from Ubuntu 21.04

To uninstall only the pm-clean package you can execute the following command:

sudo apt-get remove ncbi-entrez-direct

Uninstall pm-clean and all its dependencies

To uninstall pm-clean and its dependencies that are no longer needed by Ubuntu 21.04, you can use the command below:

sudo apt-get -y autoremove ncbi-entrez-direct

Remove pm-clean with all configurations and data

To remove pm-clean configuration and data from your system you can run the following purge command:

sudo apt-get -y purge ncbi-entrez-direct

Remove pm-clean completely (configurations, data and all of its dependencies)

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

sudo apt-get -y autoremove --purge ncbi-entrez-direct

Extra info and code examples

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.

Conclusion

You now have a full guide on how to install pm-clean using apt, apt-get and aptitude tools. Also, we showed how to update as a single package and different ways to uninstall the pm-clean from Ubuntu 21.04.

See also: