#!/bin/bash

# This is a simple script that cd's into scratch
# directory, copies some input files to /scr on compute node,
# copy the output file from /scr to user's directory (user or storage)

# give the job a name
#PBS -N test4

# send email notification
#PBS -m abe
#PBS -M josephs@bu.edu

# request 1 node
#PBS -l nodes=1

## join stderr and stdout and write the to a file
#PBS -j oe 
#PBS -o /fs/user2/josephs/Examples/test4.o

# cd into the scratch directory created for this job
cd /scr/$PBS_JOBID

# print out some diagnostic stuff
echo Running on host `hostname`
echo
echo Directory is `pwd`
echo
echo Start time is `date`
echo


# copy the date files to scratch
cp /fs/user2/josephs/Examples/data.txt .
 
# run my commands.
/fs/user2/josephs/Examples/dostuff2.pl data.txt > test4.out1

# copy the output files someplace permanent
cp test4.out1 /fs/user2/josephs/Examples
 
# print out some diagnostic stuff
echo Stop time is `date`
echo