iris.py

import subprocess

# note, need to double the curly braces on bash vars in order to use .format:
template = """#!/bin/bash
#SBATCH --job-name={job_name}
#SBATCH --partition=all
#SBATCH --share
#SBATCH --time=0:10:00
#SBATCH --ntasks=1
#SBATCH --cpus-per-task=1
#SBATCH --output=/home/%u/logs/{job_name}.log
#SBATCH --mem-per-cpu=8000
module purge
module load license_intel
module load intel/15.0-2
export LD_LIBRARY_PATH=${{HOME}}/lib/hdf5/lib:$LD_LIBRARY_PATH
mkdir -p ${{HOME}}/run/${{SLURM_JOB_ID}}
cd ${{HOME}}/run/${{SLURM_JOB_ID}}

mkdir temp
mkdir output
cp ${{HOME}}/options .
echo '/fjord/jgs/patmosx/Satellite_Input/avhrr/global/n18_2009/' >> list
echo './output/' >> list
echo '{file_1b}' >> list

${{HOME}}/clavrx_trunk/clavrx_bin/clavrxorb -default options -filelist list
"""

files = ['NSS.GHRR.NN.D09001.S0728.E0859.B1864142.GC.gz',
         'NSS.GHRR.NN.D09001.S0853.E1048.B1864243.GC.gz',
         'NSS.GHRR.NN.D09001.S1043.E1232.B1864344.GC.gz',
         ]

for i in range(len(files)):
    job_name = files[i]
    script_name = job_name + '.sbatch'
    with open(script_name, 'w') as f:
        f.write(template.format(job_name=job_name, file_1b=files[i]))
    subprocess.call('sbatch ' + script_name, shell=True)

print('done writing')