from modeller.automodel import *

log.verbose()
env = environ()
a = automodel(env, alnfile='1D3Z-1H8C.ali',
              knowns='1H8C', sequence='1D3Z')

# Very thorough VTFM optimization:
a.library_schedule = 1
a.max_var_iterations = 300

# Very thorough MD optimization:
#a.md_level = refine.very_slow

# Repeat the whole cycle 3-times and do not stop unless obj.func. > 1E6
#a.repeat_optimization = 3
#a.max_molpdf = 1e6

a.starting_model = 1
a.ending_model = 1
a.make()