How To Install python-openslide on Debian 9
Introduction
In this tutorial we learn how to install python-openslide
on Debian 9.
What is python-openslide
python-openslide 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 the Python 2 module needed to run OpenSlide applications.
There are three methods to install python-openslide
on Debian 9. We can use apt-get
, apt
and aptitude
. In the following sections we will describe each method. You can choose one of them.
Install python-openslide Using apt-get
Update apt database with apt-get
using the following command.
sudo apt-get update
After updating apt database, We can install python-openslide
using apt-get
by running the following command:
sudo apt-get -y install python-openslide
Install python-openslide Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install python-openslide
using apt
by running the following command:
sudo apt -y install python-openslide
Install python-openslide 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 Debian. Update apt database with aptitude
using the following command.
sudo aptitude update
After updating apt database, We can install python-openslide
using aptitude
by running the following command:
sudo aptitude -y install python-openslide
How To Uninstall python-openslide on Debian 9
To uninstall only the python-openslide
package we can use the following command:
sudo apt-get remove python-openslide
Uninstall python-openslide And Its Dependencies
To uninstall python-openslide
and its dependencies that are no longer needed by Debian 9, we can use the command below:
sudo apt-get -y autoremove python-openslide
Remove python-openslide Configurations and Data
To remove python-openslide
configuration and data from Debian 9 we can use the following command:
sudo apt-get -y purge python-openslide
Remove python-openslide configuration, data, and all of its dependencies
We can use the following command to remove python-openslide
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge python-openslide
Dependencies
python-openslide have the following dependencies:
References
Summary
In this tutorial we learn how to install python-openslide
package on Debian 9 using different package management tools: apt
, apt-get
and aptitude
.