csv_to_gene_db command not found

Introduction

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

csv_to_gene_db: command not found

or when using sudo you get the following error message

sudo: csv_to_gene_db: command not found

Solutions to csv_to_gene_db: command not found

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

In Ubuntu csv_to_gene_db is provided by srst2 package.

srst2 is:

This program is designed to take Illumina sequence data, a MLST database and/or a database of gene sequences (e.g. resistance genes, virulence genes, etc) and report the presence of STs and/or reference genes.

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

sudo apt-get -y install srst2

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

You can also use apt command to install srst2.

sudo apt -y install srst2

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

sudo aptitude install srst2

Summary

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