caf_depad command not found

Introduction

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

caf_depad: command not found

or when using sudo you get the following error message

sudo: caf_depad: command not found

Solutions to caf_depad: command not found

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

In Ubuntu caf_depad 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 caf_depad command not found error in Ubuntu / Debian / Kali Linux or Raspbian distribution.