fsa_ol_filter command not found

In this troubleshooting guide we learn how to fix fsa_ol_filter command not found error message

Introduction

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

fsa_ol_filter: command not found

or when using sudo you get the following error message

sudo: fsa_ol_filter: command not found

Solutions to fsa_ol_filter: command not found

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

In Ubuntu fsa_ol_filter is provided by mecat2 package.

mecat2 is:

An improved version of MECAT. It is an ultra-fast and accurate mapping and error correcting de novo assembly tools for single molecula sequencing (SMRT) reads. MECAT2 consists of the following three modules:

  1. mecat2map: a fast and accurate alignment tool for SMRT reads.
  2. mecat2cns: correct noisy reads based on their pairwise overlaps.
  3. fsa: a string graph based assembly tool.

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

sudo apt-get -y install mecat2

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

You can also use apt command to install mecat2.

sudo apt -y install mecat2

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

sudo aptitude install mecat2

Summary

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