merge_mate_pairs command not found

Introduction

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

merge_mate_pairs: command not found

or when using sudo you get the following error message

sudo: merge_mate_pairs: command not found

Solutions to merge_mate_pairs: command not found

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

In Ubuntu merge_mate_pairs is provided by quorum package.

quorum is:

QuorUM enables to obtain trimmed and error-corrected reads that result in assemblies with longer contigs and fewer errors. QuorUM provides best performance compared to other published error correctors in several metrics. QuorUM is efficiently implemented making use of current multi- core computing architectures and it is suitable for large data sets (1 billion bases checked and corrected per day per core). The third-party assembler (SOAPdenovo) benefits significantly from using QuorUM error- corrected reads. QuorUM error corrected reads result in a factor of 1.1 to 4 improvement in N50 contig size compared to using the original reads with SOAPdenovo for the data sets investigated.

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

sudo apt-get -y install quorum

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

You can also use apt command to install quorum.

sudo apt -y install quorum

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

sudo aptitude install quorum

Summary

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