$$ \newcommand{\uex}{{u_{\small\mbox{e}}}} \newcommand{\tp}{\thinspace .} $$

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Script code

Typical script (small administering program) for running the experiments:

import os, sys

def run_experiments(I=1, a=2, T=5):
    # The command line must contain dt values
    if len(sys.argv) > 1:
        dt_values = [float(arg) for arg in sys.argv[1:]]
    else:
        print 'Usage: %s dt1 dt2 dt3 ...' %  sys.argv[0]
        sys.exit(1)  # abort

    # Run module file as a stand-alone application
    cmd = 'python decay_mod.py --I %g --a %g --makeplot --T %g' % \
          (I, a, T)
    dt_values_str = ' '.join([str(v) for v in dt_values])
    cmd += ' --dt %s' % dt_values_str
    print cmd
    failure = os.system(cmd)
    if failure:
        print 'Command failed:', cmd; sys.exit(1)

    # Combine images into rows with 2 plots in each row
    image_commands = []
    for method in 'BE', 'CN', 'FE':
        pdf_files = ' '.join(['%s_%g.pdf' % (method, dt)
                              for dt in dt_values])
        png_files = ' '.join(['%s_%g.png' % (method, dt)
                              for dt in dt_values])
        image_commands.append(
            'montage -background white -geometry 100%' +
            ' -tile 2x %s %s.png' % (png_files, method))
        image_commands.append(
            'convert -trim %s.png %s.png' % (method, method))
        image_commands.append(
            'convert %s.png -transparent white %s.png' %
            (method, method))
        image_commands.append(
            'pdftk %s output tmp.pdf' % pdf_files)
        num_rows = int(round(len(dt_values)/2.0))
        image_commands.append(
            'pdfnup --nup 2x%d tmp.pdf' % num_rows)
        image_commands.append(
            'pdfcrop tmp-nup.pdf %s.pdf' % method)

    for cmd in image_commands:
        print cmd
        failure = os.system(cmd)
        if failure:
            print 'Command failed:', cmd; sys.exit(1)

    # Remove the files generated above and by decay_mod.py
    from glob import glob
    filenames = glob('*_*.png') + glob('*_*.pdf') + \
                glob('*_*.eps') + glob('tmp*.pdf')
    for filename in filenames:
        os.remove(filename)

if __name__ == '__main__':
    run_experiments()

Complete program: experiments/decay_exper0.py.

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