How To Install openslide-tools on Ubuntu 20.04
Introduction
In this tutorial we learn how to install openslide-tools on Ubuntu 20.04.
What is openslide-tools
openslide-tools is:
OpenSlide is a C library that provides a simple interface to read whole-slide images also known as virtual slides.
Whole-slide images, also known as virtual slides, are large, high resolution images used in digital pathology. Reading these images using standard image tools or libraries is a challenge because these tools are typically designed for images that can comfortably be uncompressed into RAM or a swap file. Whole-slide images routinely exceed RAM sizes, often occupying tens of gigabytes when uncompressed. Additionally, whole-slide images are typically multi-resolution, and only a small amount of image data might be needed at a particular resolution.
This library currently supports:
- Aperio (.svs, .tif)
- Hamamatsu (.vms, .vmu, .ndpi)
- Leica (.scn)
- MIRAX (.mrxs)
- Sakura (.svslide)
- Trestle (.tif)
- Generic tiled TIFF (.tif)
This package contains command line tools for file manipulation.
There are three methods to install openslide-tools on Ubuntu 20.04. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install openslide-tools Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install openslide-tools using apt-get by running the following command:
sudo apt-get -y install openslide-tools
Install openslide-tools Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install openslide-tools using apt by running the following command:
sudo apt -y install openslide-tools
Install openslide-tools 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 openslide-tools using aptitude by running the following command:
sudo aptitude -y install openslide-tools
How To Uninstall openslide-tools on Ubuntu 20.04
To uninstall only the openslide-tools package we can use the following command:
sudo apt-get remove openslide-tools
Uninstall openslide-tools And Its Dependencies
To uninstall openslide-tools and its dependencies that are no longer needed by Ubuntu 20.04, we can use the command below:
sudo apt-get -y autoremove openslide-tools
Remove openslide-tools Configurations and Data
To remove openslide-tools configuration and data from Ubuntu 20.04 we can use the following command:
sudo apt-get -y purge openslide-tools
Remove openslide-tools configuration, data, and all of its dependencies
We can use the following command to remove openslide-tools configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge openslide-tools
References
Summary
In this tutorial we learn how to install openslide-tools package on Ubuntu 20.04 using different package management tools: apt, apt-get and aptitude.
