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tutorial:torque [2021/06/17 08:25]
mjm519 [Running MATLAB] 		tutorial:torque [2023/12/08 13:16]
mjm519 [Hardware]
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 | polyp1--polyp15  | 16 AMD Opteron(tm) Processor 6128 | 32 GB | --- | | polyp1--polyp15  | 16 AMD Opteron(tm) Processor 6128 | 32 GB | --- |
 | polyp30 | 24 Intel(R) Xeon(R) CPU E5-2620 v3 @ 2.40GHz | 128 GB | 2x K80 (4GPUs) | | polyp30 | 24 Intel(R) Xeon(R) CPU E5-2620 v3 @ 2.40GHz | 128 GB | 2x K80 (4GPUs) |
 +
 +
 +Configured Resources as provided in the Maui scheduler. This is pulled from Torque: 
 +                        PROCS: 16  
 +                        MEM: 31G  
 +                        SWAP: 63G  
  
 ===== Submitting Jobs ===== ===== Submitting Jobs =====
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 #PBS -o /home/mat614/TEST.out #PBS -o /home/mat614/TEST.out
 #PBS -l nodes=1:ppn=4  #PBS -l nodes=1:ppn=4 
 +#PBS -l pmem=2GB:vmem=1GB
 #PBS -q batch #PBS -q batch
  
Line 123: Line 130:
  
 You can see limits using this command ''qstat -f -Q'' You can see limits using this command ''qstat -f -Q''
-^ Queue ^ Wall Time ^ +^ Queue      ^ Wall Time  ^  
-| batch  | 01:00:00  | +| batch      | 01:00:00   |  
-| short  | 02:00:00  | +| short      | 02:00:00   |  
-| medium | 04:00:00  | +| medium     | 04:00:00   |  
-| long  | 72:00:00  | +| long       | 72:00:00   |  
-| very long  | 240:00:00 |+| very long  | 240:00:00  |  
 +| AMPL       |            |  
 +| MOSEK      |            |  
  
 ===== Examples ===== ===== Examples =====
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 <code bash large.pbs>qsub  -l pmem=20gb  test.pbs</code> <code bash large.pbs>qsub  -l pmem=20gb  test.pbs</code>
  
 +To see what resources have been assigned by the batch queuing system run the ulimit command (bash) or limit comamnd:
 +<code bash pbs job submission command>qsub -I -l nodes=1:ppn=1 -l pmem=30GB:vmem=4GB -q short -N test -e TEST.err -o TEST.out -w e</code>
 +<code bash ulimit>user@polyp13:~$ ulimit -a
 +core file size          (blocks, -c) 0
 +data seg size           (kbytes, -d) 31457280
 +scheduling priority             (-e) 0
 +file size               (blocks, -f) unlimited
 +pending signals                 (-i) 128344
 +max locked memory       (kbytes, -l) unlimited
 +max memory size         (kbytes, -m) 31457280
 +open files                      (-n) 65536
 +pipe size            (512 bytes, -p) 8
 +POSIX message queues     (bytes, -q) 819200
 +real-time priority              (-r) 0
 +stack size              (kbytes, -s) unlimited
 +cpu time               (seconds, -t) unlimited
 +max user processes              (-u) 128344
 +virtual memory          (kbytes, -v) unlimited
 +file locks                      (-x) unlimited</code>
 +
 +**[[https://www.geeksforgeeks.org/ulimit-soft-limits-and-hard-limits-in-linux|For more information on the ulimit command review this link.]]**
 ==== Running MATLAB ==== ==== Running MATLAB ====
  
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 </code> </code>
 and then schedule your jobs with Torque to perform experiments on GPU 1. and then schedule your jobs with Torque to perform experiments on GPU 1.
 +
 +
 +====== MOAB Scheduler ======
 +PBS Torque is used to schedule and run jobs on our cluster. Two PBS processes are required to run jobs. On the PBS server, the pbs_server process runs to accept your job and add it to the queue. It will also dispatch the job to the nodes to run under the pbs_mom process.
 +
 +
 +==== Useful MOAB Commands ====
 +1. [[https://docs.adaptivecomputing.com/maui/commands/showq.php|showq]] - Displays information about active, eligible, blocked, and/or recently completed jobs.
 +
 +2. [[https://docs.adaptivecomputing.com/maui/commands/showstart.php|showstart]] - Displays the estimated start time of a job based a number of analysis types.
 +
 +3. [[https://docs.adaptivecomputing.com/maui/commands/checkjob.php|checkjob]] - Allows end users to view the status of their own jobs.
 +
 +====Useful External Resources====
 +[[https://www.icer.msu.edu/sites/default/files/files/understand_job_scheduler_v2.pdf|MSU -Understand job scheduler and resource manager]] - Describes the batch queuing system and has some useful diagrams explaining the interrelationship between the scheduler and the server.
 +
 +[[https://wvuhpc.github.io/2019-Intro-HPC/07-jobs/index.html|WVU - Job Submission (Torque and Moab)]] - Lists frequently used commands for Torque and Moab. Also includes information on Prologue and Epilogue scripts.
 +
 +[[http://docs.adaptivecomputing.com/mwm/7-1-3/help.htm#pbsintegration.html|Moab-TORQUE/PBS Integration Guide]] - Guide for Administrators and integrators on the deployment and integration of PBS Torque and Moab into a computer system
 +
 +[[https://silas.net.br/tech/hpc/torque.html|Torque Notes]] - Information about the processes involved in using torque and debugging information.
 +
 +
tutorial/torque.txt · Last modified: 2024/02/28 13:12 by mjm519

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