concavity command not found

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

Introduction

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

concavity: command not found

or when using sudo you get the following error message

sudo: concavity: command not found

Solutions to concavity: command not found

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

In Ubuntu concavity is provided by concavity package.

concavity is:

ConCavity predicts protein ligand binding sites by combining evolutionary sequence conservation and 3D structure.

ConCavity takes as input a PDB format protein structure and optionally files that characterize the evolutionary sequence conservation of the chains in the structure file.

The following result files are produced by default:

  • Residue ligand binding predictions for each chain (*.scores).
  • Residue ligand binding predictions in a PDB format file (residue scores placed in the temp. factor field, *_residue.pdb).
  • Pocket prediction locations in a DX format file (*.dx).
  • PyMOL script to visualize the predictions (*.pml).

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

sudo apt-get -y install concavity

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

You can also use apt command to install concavity.

sudo apt -y install concavity

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

sudo aptitude install concavity

Summary

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