Untitled

#!/bin/bash

<<EXPLAIN
run a job and save to log files with a useful name
EXPLAIN

J=$1
A=($@)
# number of args
N=${#A[*]}
# drop the first arg (job-name)
BARGS=("${A[*]:1:$N}")


if [ "x$J" == "x" ]; then
    echo "specify a job name as first argument."
    echo "usage: cat some.sh | $0 job-name"
    exit 1
fi

DATE=$(date +"%d-%m-%Y")
ERR=$J.%J.err
OUT=$J.%J.out

# save command to a script.
SH=$J.sh


if [ -d logs/ ]; then
    ERR=logs/$ERR
    OUT=logs/$OUT
    SH=logs/$SH
fi
echo "#!/bin/sh" > $SH
echo "# run on:" $DATE >> $SH


while read aline; do
    echo $aline
done >> $SH

R=$(bsub -J $1 -e "$ERR" -o "$OUT" "$BARGS" < $SH)
JOB_NUM=$(echo $R | perl -p -e 's/.+<(\d+)>.+/$1/')

if [ ! -d logs/ ]; then
    rm $J.sh
else
    mv logs/$J.sh logs/$J.$JOB_NUM.sh
fi
# parse and echo the job-number
echo $JOB_NUM || $R