Back to Modeller from a long absence, I am faced by a trivial, common issue; "no module named modeller" when running "fill_resid.py", which reads:
from modeller import * from modeller.automodel import * # Load the automodel class
long.verbose() env = environ()
# directories for input atom files env.io.atom_files_directory = ['.', '../atom_files']
a = loopmodel(env, alnfile = 'alignment.ali', knowns = 'my, sequence = 'my_fill') a.starting_model= 1 a.ending_model = 1
a.loop.starting_model = 1 a.loop.ending_model = 2 a.loop.md_level = refine.fast
a.make()
fill_resid.py, my.pdb, and alignement.ali are in the same dworking directory
(My aim is to fill lacking residues in ltwo loops of a protein) The software is correctly installed in debian amd64:
francesco@gig64:~$ which mod9.10 /usr/bin/mod9.10 francesco@gig64:~$
Thanks for advice francesco pietra