Matlab
============

Method 1: Running a ``.m`` file
---------------------------------


.. code-block:: bash


    #!/bin/bash

    #$ -cwd
    #$ -l h_rt=8:00:00,h_data=4g
    #$ -o stdout.$JOB_ID
    #$ -e stderr.$JOB_ID
    ....

    # Use system-wise modules
    source /u/local/Modules/default/init/modules.sh
    module load matlab/2020a

    # Run program
    fname_in=“/path/of/your/matlab/script.m"

    matlab -nodisplay -nodesktop -nosplash -r "run(‘$fname_in’); exit”



Method 2: Compile & Run
--------------------------

It is possible to compile the matlab code into an executable, then run the executable, in a two-step process:

1. Compile the matlab code using the Matlab compiler, ``mcc``
2. Submit the executable just like any other executable

Step 1. Compile the .m file

.. code-block:: bash


    # from the login node
    qrsh -l h_rt=1:00:00,h_data=8g

    ...

    # on the compute node
    module load matlab/2020a

    # generate executable file
    $ mcc -m -R -nodisplay,-singleCompThread test -o test_exe
    $ chmod a+x test_exe

The compiling step will also generate a shell script file, ``run_test_exe.sh``, that will run the compiled executable.


Step 2. Submit the shell script (``run_test_exe.sh``)

.. code-block:: bash

    #!/bin/bash

    #$ -cwd
    #$ -l h_rt=8:00:00,h_data=4g
    #$ -o stdout.$JOB_ID
    #$ -e stderr.$JOB_ID
    ....

    source /u/local/Modules/default/init/modules.sh
    module load matlab/2020a

    # Run program
    ./run_test_exe.sh $MATLAB_DIR