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--- workshops:hpcprac2 [2017/07/04 17:03]
kevin
+++ workshops:hpcprac2 [2021/12/09 16:42] (current)
@@ Line 1: / Line 1: @@
-=====Practical 2: Using CHPC=====
+=====Practical 2: OpenMP & Using CHPC=====
 **Aim:** to launch a parallel job on the CHPC cluster //Lengau//.
@@ Line 68: / Line 68: @@
 Copy the //OpenMP_Tut.tar.gz// file from the student00 home directory to your home directory.
-  cp ~/../student00/OpenMP_Tut.tar.gz ~
+  cp ~/../student00/OpenMP_Tut.tar.gz ~/lustre
+  cd ~/lustre
 Then untar (unpack) it.
-  tar -zxvf ~/OpenMP_Tut.tar.gz
+  tar -zxvf OpenMP_Tut.tar.gz
 And then go into the //OpenMP/// tut directory and start the practical.  Have fun!
@@ Line 81: / Line 83: @@
 Most of the prac can be done in an interactive session.
-To execute longer running jobs you will need to submit a job script to the scheduler.  There is an example PBSPro job script on the school00 home directory called //example.sh// and which can be copied to your current directory in the usual way:
-  cp ~/../student00/example.sh .
-**example.sh**:
-<code lang=bash>
-#!/bin/bash
-#PBS -N example01
-#PBS -l select=1:ncpus=24:mpiprocs=24
-#PBS -P Wchpc
-#PBS -q R522145
-#PBS -W group_list=training
-#PBS -l walltime=4:00:00
-CWD=/mnt/lustre/users/$USER/example
-cd $CWD
-echo "Working directory is $CWD"
-nproc=`cat $PBS_NODEFILE | wc -l`
-echo "nproc is $nproc"
-echo "Nodes used by this job:"
-cat $PBS_NODEFILE
-echo "Starting run..."
-# Insert command to run here:
-echo "... done."
-</code>
-Note that the options passed to the **qsub** command appear as shell comment lines that start with ''#PBS''.
-**Note: the script uses //example/// as the working directory.** Create this before you run the script:
-  mkdir ~/lustre/example
-or edit the script file to point to the prac directory.
-**NOTE: your script will fail if you don't use the Lustre file system.**
-In the example file the command to actually run your code is missing.  Depending on which part of the prac you are attempting, this will differ.  Insert the command in the indicated place.
-To then submit the job script to the scheduler you simply use
-  qsub example.sh
-The **qsub** command will read all its option parameters from the file.
-====Job Control====
-To check the status of your jobs in the Winter School queue:
-  qstat | grep R522145
-This command lists all the jobs in the **R522145** queue.  Running jobs will have a ''R'' in the status column, a ''Q'' if the job is queued and waiting.
-Use the **qdel** command to remove a queue job from the queue.  The synatx is
-  qdel jobid
-where //jobid// is replaced by the number of the job (looks like ''557809.sched01'').

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