abacas command not found

Introduction

When you run more command in linux terminal / console, you get the following error message

abacas: command not found

or when using sudo you get the following error message

sudo: abacas: command not found

Solutions to abacas: command not found

How To Fix abacas: command not found in Ubuntu / Debian / Kali Linux / Raspbian

In Ubuntu abacas is provided by abacas package.

abacas is:

ABACAS (Algorithm Based Automatic Contiguation of Assembled Sequences) intends to rapidly contiguate (align, order, orientate), visualize and design primers to close gaps on shotgun assembled contigs based on a reference sequence.

ABACAS uses MUMmer to find alignment positions and identify syntenies of assembled contigs against the reference. The output is then processed to generate a pseudomolecule taking overlapping contigs and gaps in to account. ABACAS generates a comparison file that can be used to visualize ordered and oriented contigs in ACT. Synteny is represented by red bars where colour intensity decreases with lower values of percent identity between comparable blocks. Information on contigs such as the orientation, percent identity, coverage and overlap with other contigs can also be visualized by loading the outputted feature file on ACT.

To fix this problem, we can install more using the command below.

sudo apt-get -y install abacas

This command might take some time to finish depending on your machine internet connection.

You can also use apt command to install abacas.

sudo apt -y install abacas

Or if you have aptitude installed you can use the following command.

sudo aptitude install abacas

Summary

In this tutorial we learn how to fix abacas command not found error in Ubuntu / Debian / Kali Linux or Raspbian distribution.