1) Login in to lightning3 using the ssh command All PBS jobs submitted on lightning3 will run on the compute nodes of lightning3. 2) Make sure that you have the correct PATH by issuing printenv | grep PATH on lightning3. Your path should include at least one occurrence of /usr/local/bin If this is not the case, send email to email@example.com. 3) Create a PBS script using the PBS scriptwriter and save in a file named "myscript", or whatever name you like. Since the architecture of lightning3 is different from hpc1, hpc2, and hpc3, scripts for these machines should not be used on lightning3. When selecting the Time needed and Number of CPU needed refer to the current queue structure by issuing qstat -q Since each node contains 16 processors it is recommended that the Number of CPU selected be a multiple of 16. 4) qsub myscript This command submits the PBS script in the file myjob. You may submit several jobs in succession if they use different output files. Jobs will be scheduled for queues based on the resources requested. Job queues limit the number of simultaneous jobs by a single user and a single group. PBS scripts must be "visible" to the qsub command, i.e. one must either issue "qsub myscript" from the directory where "myscript" is located or issue "qsub
/myscript". Usually people keep PBS scripts in the same directory where the executable and the initial data are located. In this case the easiest would be to submit job from that directory and within the script to cd there by issuing "cd $PBS_O_WORKDIR". 5) qstat -q Gives the status of all the queues and the current queue structure. 6) qstat -a This shows all jobs in the system that are running and waiting in a queue to run. If you don't see your job, it has completed execution. The script generated by the PBS scriptwriter puts output in file BATCH_OUTPUT and the error file in BATCH_ERRORS. For more information, read the documentation produced by the PBS scriptwriter. 7) qstat -r This shows all jobs that are currently running. 8) qdel job# If your PBS job has job# 15244, then issuing qdel 15244 will delete the job from the PBS job queue and if the job is running, its execution will be terminated.