Changes between Version 5 and Version 6 of cypress/Matlab

Timestamp:

09/22/15 16:40:21 (9 years ago)

Author:

cmaggio

Comment:

—

cypress/Matlab

@@ -211 +211 @@
 fprintf('Real Time = %f(sec)\n',realT);
 }}}
+
+== Compiled Matlab ==
+=== Compiling Matlab Scripts using mcc ===
+Start an interactive session with idev, load the intel-psxe module (if you want to use mkl and multithreading), load the matlab module
+
+{{{
+[tulaneID@cypress1 ~]$ idev
+Requesting 1 node(s)  task(s) to normal queue of defq partition
+1 task(s)/node, 20 cpu(s)/task, 2 MIC device(s)/node
+Time: 0 (hr) 60 (min).
+Submitted batch job 80102
+JOBID=80102 begin on cypress01-036
+--> Creating interactive terminal session (login) on node cypress01-036.
+--> You have 0 (hr) 60 (min).
+--> Assigned Host List : /tmp/idev_nodes_file_tulaneID
+Last login: Tue Sep 22 16:27:39 2015 from cypress1.cm.cluster
+[tulaneID@cypress01-036 ~]$ module load intel-psxe
+[tulaneID@cypress01-036 ~]$ module load matlab
+[tulaneID@cypress01-036 ~]$ 
+}}}
+
+cd to the directory containing your matlab file and compile using matlabs C compiler {{{mcc -m <your matlab .m file>}}}. If your script is spread over many files you need to specify the directories containing those files {{{mcc -m -I <source directory> <your matlab .m file>}}}. For example, to compile my_script.m which depends on other .m files located in /home/tulaneID/myMatlab I would run
+{{{
+mcc -m -I /home/tulaneID/myMatlab my_script.m
+}}}
+This will compile files that my_script.m depends upon provided they are in /home/tulaneID/myMatlab
+
+=== Executing Compiled scripts ===
+The above will create a binary executable named my_script. To run the executable as a SLRUM Job, just include the matlab module in your SLURM script. This will provide all the necessary libraries. For example,
+{{{#!bash
+#!/bin/bash
+#SBATCH --qos=normal                    # Quality of Service
+#SBATCH --job-name=my_script            # Job Name
+#SBATCH --time=1-0:00:00                # WallTime
+#SBATCH --nodes=1                       # Number of Nodes
+#SBATCH --ntasks-per-node=1             # Number of tasks (MPI processes)
+#SBATCH --cpus-per-task=1               # Number of threads per task (OMP threads)
+
+module load matlab
+
+./my_script
+}}}