How To Install bioawk on Ubuntu 22.04
Introduction
In this tutorial we learn how to install bioawk on Ubuntu 22.04.
What is bioawk
bioawk is:
Bioawk is an extension to Brian Kernighan’s awk, adding the support of several common biological data formats, including optionally gzip’ed BED, GFF, SAM, VCF, FASTA/Q and TAB-delimited formats with column names. It also adds a few built-in functions and an command line option to use TAB as the input/output delimiter. When the new functionality is not used, bioawk is intended to behave exactly the same as the original BWK awk.
There are three methods to install bioawk on Ubuntu 22.04. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install bioawk Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install bioawk using apt-get by running the following command:
sudo apt-get -y install bioawk
Install bioawk Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install bioawk using apt by running the following command:
sudo apt -y install bioawk
Install bioawk 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. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install bioawk using aptitude by running the following command:
sudo aptitude -y install bioawk
How To Uninstall bioawk on Ubuntu 22.04
To uninstall only the bioawk package we can use the following command:
sudo apt-get remove bioawk
Uninstall bioawk And Its Dependencies
To uninstall bioawk and its dependencies that are no longer needed by Ubuntu 22.04, we can use the command below:
sudo apt-get -y autoremove bioawk
Remove bioawk Configurations and Data
To remove bioawk configuration and data from Ubuntu 22.04 we can use the following command:
sudo apt-get -y purge bioawk
Remove bioawk configuration, data, and all of its dependencies
We can use the following command to remove bioawk configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge bioawk
References
Summary
In this tutorial we learn how to install bioawk package on Ubuntu 22.04 using different package management tools: apt, apt-get and aptitude.
