#!/bin/bash if [ -z "$1" ] then echo provide the script to run exit 1 fi if [ -z "${ANDURIL_NODELIST}" ] then NODELIST=( kristel sasha ) else read -a NODELIST <<< "$ANDURIL_NODELIST" fi JOBROOT="/mnt/storage3/analysis/.srun" if [ "$1" == "-h" ] then echo -ne ' This prefix selects the highest free cpu node for slurm run. Use it with anduril: --exec-mode prefix --prefix '$( basename $0 )' To change the list of nodes (preferred order): export ANDURIL_NODELIST="vm3 vm4 vm5" Current nodelist: "'${NODELIST[@]}'"'"( ${#NODELIST[@]} nodes)\n" exit fi NODERUNS=( ) # find node with max free CPUs for e in ${NODELIST[@]} do NODERUNS+=( $(( $( scontrol show node $e | tr -d [:cntrl:] | sed 's,.*CPUAlloc=\([0-9]\+\).*CPUTot=\([0-9]\+\).*,\2-\1 ,' ) )) ) done MAX=${NODERUNS[0]} INDEX=0 for (( i=0; i<${#NODERUNS[@]}; i++ )) do (( ${NODERUNS[$i]} > MAX )) && { MAX=${NODERUNS[$i]} INDEX=$i } echo -n "${NODELIST[$i]}:${NODERUNS[$i]} " done echo sending to ${NODELIST[$INDEX]} mkdir -p "$JOBROOT" JOBNAME=job_$( date +"%y%m%d_%H%M%S" )_$( echo $@ | md5sum | cut -f1 -d" " ) JOBPATH="$JOBROOT/$JOBNAME" while [ -d "$JOBPATH" ] do echo Jobpath "$JOBPATH" exists JOBNAME=job_$( date +"%y%m%d_%H%M%S" )_$( echo $@ | md5sum | cut -f1 -d" " ) JOBPATH="$JOBROOT/$JOBNAME" done mkdir -p "$JOBPATH" JOBFILE="$JOBPATH/job" STATFILE="$JOBPATH/statistics" STRMFILE="$JOBPATH/stream" EXECPATH=$( pwd ) # create the jobfile echo '#!/bin/bash' > "$JOBFILE" chmod 755 "$JOBFILE" echo 'echo Node: $HOSTNAME'" >> \"$STATFILE\" " >> "$JOBFILE" echo "pwd >> \"$STATFILE\" " >> "$JOBFILE" echo "date +'Start: %s' >> \"$STATFILE\" " >> "$JOBFILE" echo -n "/usr/bin/time -o \"$STATFILE\" --append " >> "$JOBFILE" for (( i=1; i<=$#; i++ )) do echo -n "\"${!i}\" " >> "$JOBFILE" done #Catch the input stream (for R launcher) cat - >> "$STRMFILE" echo -n ' < "'$STRMFILE'"' >> "$JOBFILE" echo -e "\n" >> "$JOBFILE" echo "date +'Stop: %s' >> \"$STATFILE\" " >> "$JOBFILE" echo "The job file is in $JOBFILE" # send the job srun --nodelist=${NODELIST[$INDEX]} "$JOBFILE"