Install and Running Matlab CobraToolbox

This document provides the steps to install and run MATLAB CobraToolbox in the cluster.

INSTALLATION GUIDE

After logging into the cluster, load the requierd GIT module.

$ module load git/2.22

Download Cobra toolbox in your local $WORK directory by using the following command

$ git clone --depth=1 https://github.com/opencobra/cobratoolbox.git cobratoolbox

After the download been finished, a directory named “cobratoolbox” should be created in your WORK directory.

Enter the directory “cobratoolbox” using the following command

$ cd cobratoolbox

Then run the following command for uploading the required modules for cobratoolbox

$ git submodule update --init

Then run Matlab using the following command

$ matlab 

Finally run the following command to test CobraToolbox using the following Matlab command

>> initCobraToolbox

NOTE: you need to install CobraToolbox under your WORK directory NOT HOME directory. Because HOME directories are read-only from the compute nodes.