Differences

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--- cluster:134 [2014/08/21 20:00] – hmeij
+++ cluster:134 [2014/08/22 13:05] (current) – [MPI] hmeij
@@ Line 173: / Line 173: @@
 ==== MPI ====
-With sbatch there is no need for a wrapper script, slurm figures it all out.
+With ''sbatch'' there is no need for a wrapper script, slurm figures it all out.
 <code>
@@ Line 196: / Line 196: @@
 which mpirun
-mpirun /share/apps/amber/9+openmpi-1.2+intel-9/exe/pmemd -O -i inp/mini.in -p 1g6r.cd.parm -c 1g6r.cd.randions.crd.1 -ref 1g6r.cd.randions.crd.1
+mpirun /share/apps/amber/9+openmpi-1.2+intel-9/exe/pmemd -O \
+-i inp/mini.in -p 1g6r.cd.parm -c 1g6r.cd.randions.crd.1 \
+-ref 1g6r.cd.randions.crd.1
 #/share/apps/lsf/slurm_epilog.pl
+</code>
+When submitted we see
+<code>
+             JOBID PARTITION     NAME     USER ST       TIME  NODES NODELIST(REASON)
+      test      MPI    hmeij  R       0:05      8 v[1-8]
+</code>
+Dumping the environment we observe some key parameters
+<code>
+SLURM_NODELIST=v[1-8]
+SLURM_JOB_NAME=MPI
+SLURMD_NODENAME=v1
+SLURM_NNODES=8
+SLURM_NTASKS=8
+SLURM_TASKS_PER_NODE=1(x8)
+SLURM_NPROCS=8
+SLURM_CPUS_ON_NODE=1
+SLURM_JOB_NODELIST=v[1-8]
+SLURM_JOB_CPUS_PER_NODE=1(x8)
+SLURM_JOB_NUM_NODES=8
+</code>
+And in the slurmjob.log file
+<code>
+JobId=902245 UserId=hmeij(8216) GroupId=its(623) \
+Name=MPI JobState=COMPLETED Partition=test TimeLimit=UNLIMITED \
+StartTime=2014-08-21T15:55:06 EndTime=2014-08-21T15:57:04 \
+NodeList=v[1-8] NodeCnt=8 ProcCnt=8 WorkDir=/home/hmeij/1g6r/cd
 </code>