score_conservation command not found

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

Introduction

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

score_conservation: command not found

or when using sudo you get the following error message

sudo: score_conservation: command not found

Solutions to score_conservation: command not found

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

In Ubuntu score_conservation is provided by conservation-code package.

conservation-code is:

This package provides score_conservation(1), a tool to score protein sequence conservation.

The following conservation scoring methods are implemented:

  • sum of pairs
  • weighted sum of pairs
  • Shannon entropy
  • Shannon entropy with property groupings (Mirny and Shakhnovich 1995, Valdar and Thornton 2001)
  • relative entropy with property groupings (Williamson 1995)
  • von Neumann entropy (Caffrey et al 2004)
  • relative entropy (Samudrala and Wang 2006)
  • Jensen-Shannon divergence (Capra and Singh 2007)

A window-based extension that incorporates the estimated conservation of sequentially adjacent residues into the score for each column is also given. This window approach can be applied to any of the conservation scoring methods.

The program accepts alignments in the CLUSTAL and FASTA formats.

The sequence-specific output can be used as the conservation input for concavity.

Conservation is highly predictive in identifying catalytic sites and residues near bound ligands.

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

sudo apt-get -y install conservation-code

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

You can also use apt command to install conservation-code.

sudo apt -y install conservation-code

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

sudo aptitude install conservation-code

Summary

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