How To Install libncbi-vdb-dev on Ubuntu 18.04
Introduction
In this tutorial we learn how to install libncbi-vdb-dev on Ubuntu 18.04.
What is libncbi-vdb-dev
libncbi-vdb-dev is:
Much of the data submitted these days, for example in BAM, Illumina export.txt, and Complete Genomics formats, contain alignment information. With aligned data, NCBI uses Compression by Reference, which only stores the differences in base pairs between sequence data and the segment it aligns to. The process to restore original data, for example as FastQ, requires fast access to the reference sequences that the original data was aligned to. NCBI recommends that SRA users dedicate local disk space to store references downloaded from the NCBI SRA site. As of Fall 2014, the complete collection of these reference sequences is 66 GB. While it isn’t usually necessary to download the entirety of the reference sequences, this should give you an idea of the scale of the storage requirement. By default, the Toolkit will download missing reference sequences on demand and cache them in the user’s home directory. The location of this cache is configurable, as is whether the download is automatic or manual.
This is the development package.
There are three methods to install libncbi-vdb-dev on Ubuntu 18.04. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install libncbi-vdb-dev Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install libncbi-vdb-dev using apt-get by running the following command:
sudo apt-get -y install libncbi-vdb-dev
Install libncbi-vdb-dev Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install libncbi-vdb-dev using apt by running the following command:
sudo apt -y install libncbi-vdb-dev
Install libncbi-vdb-dev 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 libncbi-vdb-dev using aptitude by running the following command:
sudo aptitude -y install libncbi-vdb-dev
How To Uninstall libncbi-vdb-dev on Ubuntu 18.04
To uninstall only the libncbi-vdb-dev package we can use the following command:
sudo apt-get remove libncbi-vdb-dev
Uninstall libncbi-vdb-dev And Its Dependencies
To uninstall libncbi-vdb-dev and its dependencies that are no longer needed by Ubuntu 18.04, we can use the command below:
sudo apt-get -y autoremove libncbi-vdb-dev
Remove libncbi-vdb-dev Configurations and Data
To remove libncbi-vdb-dev configuration and data from Ubuntu 18.04 we can use the following command:
sudo apt-get -y purge libncbi-vdb-dev
Remove libncbi-vdb-dev configuration, data, and all of its dependencies
We can use the following command to remove libncbi-vdb-dev configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge libncbi-vdb-dev
References
Summary
In this tutorial we learn how to install libncbi-vdb-dev package on Ubuntu 18.04 using different package management tools: apt, apt-get and aptitude.
