lumpy_filter command not found

Introduction

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

lumpy_filter: command not found

or when using sudo you get the following error message

sudo: lumpy_filter: command not found

Solutions to lumpy_filter: command not found

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

In Ubuntu lumpy_filter is provided by lumpy-sv package.

lumpy-sv is:

LUMPY, a novel SV discovery framework that naturally integrates multiple SV signals jointly across multiple samples. LUMPY yields improved sensitivity, especially when SV signal is reduced owing to either low coverage data or low intra-sample variant allele frequency.

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

sudo apt-get -y install lumpy-sv

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

You can also use apt command to install lumpy-sv.

sudo apt -y install lumpy-sv

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

sudo aptitude install lumpy-sv

Summary

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