yaha command not found

In this troubleshooting guide we learn how to fix yaha command not found error message

Introduction

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

yaha: command not found

or when using sudo you get the following error message

sudo: yaha: command not found

In Ubuntu yaha is provided by yaha package.

yaha is:

yaha is an open source, flexible, sensitive and accurate DNA aligner designed for single-end reads. It supports three major modes of operation:

The default “Optimal Query Coverage” (-OQC) mode reports the best set of alignments that cover the length of each query.
Using “Filter By Similarity” (-FBS), along with the best set of alignments, yaha will also output alignments that are highly similar to an alignment in the best set.
Finally, yaha can output all the alignments found for each query. The -OQC and -FBS modes are specifically tuned to form split read mappings that can be used to accurately identify structural variation events (deletions, duplications, insertions or inversions) between the subject query and the reference genome.

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

sudo apt-get -y install yaha

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

You can also use apt command to install yaha.

sudo apt -y install yaha

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

sudo aptitude install yaha

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