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--- torque_slurm_scripts [2020/01/31 20:27]
root
+++ torque_slurm_scripts [2022/02/02 20:36] (current)
jpummil
@@ Line 1: / Line 1: @@
-====PBS and Slurm Commands and Scripts====
+====Slurm Commands and Scripts====
-Basic torque/slurm commands are:
+Basic slurm commands are:
 <csv>
-torque,                     slurm, use
+slurm, use
-qsub,                       sbatch         ,       submit <job file>
+sbatch         ,       submit <job file>
-qsub -I   ,                  srun            ,      submit interactive job
+srun            ,      submit interactive job
-qstat  ,                     squeue           ,     list all queued jobs
+squeue           ,     list all queued jobs
-qstat -u rfeynman  ,         squeue -u rfeynman  ,  list queued jobs for user rfeynman
+squeue -u rfeynman  ,  list queued jobs for user rfeynman
-qdel        ,                scancel       ,        cancel <job#>
+scancel       ,        cancel <job#>
-shownodes -l -n;qstat -q ,   sinfo         ,        node status;list of queues
+sinfo         ,        node status;list of queues
 </csv>
-A basic script in ''torque'' and ''slurm'' looks like:
+A basic script in ''slurm'' looks like:
-<code>
-#PBS -N mpi
-#PBS -j oe
-#PBS -o zzz.$PBS_JOBID
-#PBS -l nodes=2:ppn=32,walltime=06:00:00
-#PBS -q q06h32c
-cd $PBS_O_WORKDIR
-NP=$(wc<$PBS_NODEFILE)
-module purge
-module load intel/18.0.1 impi/18.0.1 mkl/18.0.1
-mpirun -np $NP -machinefile $PBS_NODEFILE ./mympiexe -inputfile MA4um.mph -outputfile MA4um-output.mph
-</code>
 <code>
@@ Line 38: / Line 26: @@
 mpirun -np $SLURM_NTASKS -machinefile /scratch/${SLURM_JOB_ID}/machinefile_${SLURM_JOB_ID} ./mympiexe -inputfile MA4um.mph -outputfile MA4um-output.mph
 </code>
 and a more complex script with file moving looks like:
-<code>
-#PBS -N espresso
-#PBS -j oe
-#PBS -o zzz.$PBS_JOBID
-#PBS -l nodes=4:ppn=32,walltime=00:00:10
-#PBS -q q06h32c
-module purge
-module load intel/14.0.3 mkl/14.0.3 fftw/3.3.6 impi/5.1.2
-cd $PBS_O_WORKDIR
-cp *.in *UPF /scratch/$PBS_JOBID
-cd /scratch/$PBS_JOBID
-sort -u $PBS_NODEFILE >hostfile
-mpirun -ppn 16 -hostfile hostfile -genv OMP_NUM_THREADS 4 -genv MKL_NUM_THREADS 4 /share/apps/espresso/qe-6.1-intel-mkl-impi/bin/pw.x -npools 1 <ausurf.in
-mv ausurf.log *mix* *wfc* *igk* $PBS_O_WORKDIR/
-</code>
 <code>
 #!/bin/bash
@@ Line 74: / Line 50: @@
 See also [ https://hprc.tamu.edu/wiki/TAMU_Supercomputing_Facility:HPRC:Batch_Translation ] [ https://slurm.schedmd.com/rosetta.pdf ] [ https://www.sdsc.edu/~hocks/FG/PBS.slurm.html ]
-We have a conversion script **/share/apps/bin/pbs2slurm.sh** which should do 95% of the script conversion. Please report errors by the script so we can improve it. Normally it should be in your path and
+We have a conversion script **/share/apps/bin/pbs2slurm.sh** which should do 95% of the script conversion from old PBS scripts to SLURM scripts. Please report errors by the script so we can improve it. Normally it should be in your path and
 <code>
 pbs2slurm.sh <pbs-script-name>

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