diff --git a/content/applications/app_specific/running_matlab_cobratoolbox.md b/content/applications/app_specific/running_matlab_cobratoolbox.md new file mode 100644 index 0000000000000000000000000000000000000000..71356bc78b1744d6361d00028d642a62be166529 --- /dev/null +++ b/content/applications/app_specific/running_matlab_cobratoolbox.md @@ -0,0 +1,43 @@ ++++ +title = "Install and Running Matlab CobraToolbox" +description = "How to install and run 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. + +{{< highlight bash >}} +$ module load git/2.22 +{{< /highlight >}} + +Download Cobra toolbox in your local $WORK directory by using the following command + +{{< highlight bash >}} +$ git clone --depth=1 https://github.com/opencobra/cobratoolbox.git cobratoolbox +{{< /highlight >}} + +After the download been finished, a directory named "cobratoolbox" should be created in your WORK directory. + +Enter the directory "cobratoolbox" using the following command +{{< highlight bash >}} +$ cd cobratoolbox +{{< /highlight >}} + +Then run the following command for uploading the required modules for cobratoolbox +{{< highlight bash >}} +$ git submodule update --init +{{< /highlight >}} + +Then run Matlab using the following command +{{< highlight bash >}} +$ matlab +{{< /highlight >}} + +Finally run the following command to test CobraToolbox using the following Matlab command +```Matlab +>> initCobraToolbox +``` + +NOTE: you need to install CobraToolbox under your WORK directory NOT HOME directory. Because HOME directories are read-only from the compute nodes.