#!/usr/bin/env python
##During Setup

    index = 0
    while (index < 10):
        startStr = str(phase)
        subFile = "subPhase-" + str(phase) + ".sh"
        FILE = open(subFile,"w")
        FILE.write("#!/usr/bin/env sh \n")
        scrDir = "/scratch/mq" + str(time()) + "/"
        FILE.write("mkdir " + scrDir + "\n")
        FILE.write("set echo on \n")
        FILE.write("cp /u/ey/richard/pfiles/gtmktime.par " + scrDir + ".\n")
        FILE.write("cp /u/ey/richard/pfiles/gtlike.par " + scrDir + ".\n")
        FILE.write("cp /u/ey/richard/pfiles/gtltcube.par " + scrDir + ".\n")
        FILE.write("ls " + scrDir + " \n")
        FILE.write("export PFILES=" +  scrDir + ":$PFILES\n")
        
## During Cleanup
        
        FILE.write("export OWD=${PWD}\n")
        FILE.write("cd  " + scrDir + "\n")
        if (options.likeOnly == "no"):
            FILE.write(cmdMkt + " \n")
        FILE.write(cmdLike + " \n")
        FILE.write("cp  *.fits $OWD/\n")
        FILE.write("cp  *.txt $OWD/\n")
        FILE.write("rm  *.txt \n")
        FILE.write("rm  *.fits \n")
        FILE.write("rm  " + scrDir + "*.par\n")
        FILE.write("ls " + scrDir + " \n")
        FILE.write("rmdir " + scrDir + " \n")
        FILE.close()