How To Install capsule-nextflow on Ubuntu 22.04
Introduction
In this tutorial we learn how to install capsule-nextflow on Ubuntu 22.04.
What is capsule-nextflow
capsule-nextflow is:
A capsule is a single executable JAR that contains everything an application needs to run either in the form of embedded files or as declarative metadata. It can contain JAR artifacts, dependencies and resources, native libraries, the required Java Runtime Environment version, the Java Virtual Machine flags required to run the application well, Java or native agents and more. In short, a capsule is a self-contained JAR that knows everything there is to know about how to run the application the way it is meant to run.
One way of thinking about a capsule is as a fat JAR on steroids (that also allows native libraries and never interferes with your dependencies) and a declarative startup script rolled into one; another, is to see it is as the deploy-time counterpart to your build tool. Just as a build tool manages your build, Capsule manages the launching of your application.
This package contains a fork of the original capsule project. This fork is suited as a dependency of nextflow.
There are three methods to install capsule-nextflow 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 capsule-nextflow Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install capsule-nextflow using apt-get by running the following command:
sudo apt-get -y install capsule-nextflow
Install capsule-nextflow Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install capsule-nextflow using apt by running the following command:
sudo apt -y install capsule-nextflow
Install capsule-nextflow 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 capsule-nextflow using aptitude by running the following command:
sudo aptitude -y install capsule-nextflow
How To Uninstall capsule-nextflow on Ubuntu 22.04
To uninstall only the capsule-nextflow package we can use the following command:
sudo apt-get remove capsule-nextflow
Uninstall capsule-nextflow And Its Dependencies
To uninstall capsule-nextflow and its dependencies that are no longer needed by Ubuntu 22.04, we can use the command below:
sudo apt-get -y autoremove capsule-nextflow
Remove capsule-nextflow Configurations and Data
To remove capsule-nextflow configuration and data from Ubuntu 22.04 we can use the following command:
sudo apt-get -y purge capsule-nextflow
Remove capsule-nextflow configuration, data, and all of its dependencies
We can use the following command to remove capsule-nextflow configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge capsule-nextflow
References
Summary
In this tutorial we learn how to install capsule-nextflow package on Ubuntu 22.04 using different package management tools: apt, apt-get and aptitude.
