MATLAB on ERISOne Cluster

Introduction

ERIS maintains a pool of licenses for Matlab, toolboxes and the Distributed Computing Server.  This software may be used at no cost on the ERISOne Cluster, and we also offer a paid subscription service allowing use of our Matlab license and select toolboxes on your own computers connected to the Partners network.

Using MATLAB on the ERISOne Cluster

Several versions of Matlab are installed on ERIS HPC infrastructure.  Contact ERISOne Support for the latest information.

Use MATLAB on a powerful Microsoft Windows server

Matlab is installed on all the Windows Analysis Servers. Register for an account at https://rc.partners.org/eris_cluster and indicate your preference for Windows to obtain an account. 

Use MATLAB over "ssh" on the ERISOne Linux Cluster

  • Register for an account at https://rc.partners.org/eris_cluster and indicate your preference for Linux
    • Note that an X11 software must be installed on your computer for the graphical interface to work.  The Matlab command line interface can be used if no X11 display is present
    • No additional software is required for Linux, XQuartz is required on Mac. 
  • Connect to the cluster using X11 forwarding
ssh -Y username@erisone.partners.org
  • Once on the cluster, acquire an interactive session 
bsub -Is -XF /bin/bash
 Job <598645> is submitted to default queue .
<ssh X11 forwarding job>

<Waiting for dispatch ...>
<Starting on cmu053>
 
  • Take a look at the different Matlab modules available
 module avail > grep matlab
------------------------------------------------ /apps/modulefiles/base ------------------------------------------------

matlab/2009b   matlab/2013a   matlab/2014a   matlab/2015a   matlab/2016b   matlab/2017b   matlab-2011b

matlab/2012b   matlab/2013b   matlab/2014b   matlab/2015b   matlab/2017a   matlab/default
  • Select the version you want to use and on the compute node launch MATLAB  
 module load matlab/2017a
matlab

Submit batch MATLAB jobs to the ERISOne Linux Cluster

  • If you have a Matlab script that would like to submit to the cluster you can prepare an LSF script to send to the cluster. There are some examples on LSF scripts on your home folder: ~/lsf
  • Include your version selection loading the appropriate module on your LSF script.
  • Submit jobs to the "matlab" queue.
  • You can check how many resources have been allocated the Matlab queue on the terminal. 
 bqueues matlab
  • You can also check how many jobs are scheduled in the queue with:
bjobs -q matlab -u all

Use MATLAB graphically in a Linux Virtual Desktop, attached to the Linux HPC cluster

  • Obtain access to the ERISOne Remote Desktop
  • Once connected to the Linux Gnome environment, open a Terminal window (From Applications → System Tools → Terminal menu)
  • Take a look at the different Matlab modules available
 module avail > grep matlab
------------------------------------------------ /apps/modulefiles/base ------------------------------------------------

matlab/2009b   matlab/2013a   matlab/2014a   matlab/2015a   matlab/2016b   matlab/2017b   matlab-2011b

matlab/2012b   matlab/2013b   matlab/2014b   matlab/2015b   matlab/2017a   matlab/default

 

  • In the terminal, the Matlab graphical user interface can be launched 
module load matlab/2017a 
matlab 

Use the MATLAB parallel processing toolbox on either Windows or Linux

 

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