caf2fastq command not found

Introduction

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

caf2fastq: command not found

or when using sudo you get the following error message

sudo: caf2fastq: command not found

Solutions to caf2fastq: command not found

How To Fix caf2fastq: command not found in Ubuntu / Debian / Kali Linux / Raspbian

In Ubuntu caf2fastq is provided by caftools package.

caftools is:

This package contains code from different authors that allow sequence assemblies to be converted into formats such as CAF (Common Assembly Format) or GAP4.

CAF is a text format for describing sequence assemblies. It is acedb-compliant and is an extension of the ace-file format used earlier, but with support for base quality measures and a more extensive description of the Sequence data. CAF was designed during the Sanger sequencing era. Its modern-day successor is the SAM format, or its binary equivalents BAM and CRAM.

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

sudo apt-get -y install caftools

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

You can also use apt command to install caftools.

sudo apt -y install caftools

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

sudo aptitude install caftools

Summary

In this tutorial we learn how to fix caf2fastq command not found error in Ubuntu / Debian / Kali Linux or Raspbian distribution.