Eeson Rajendra wrote:
I have checked the script but cannot see the problem.
...
# directories for input atom files env.io.atom_files_directory = ('1abc', '1def', '1ghi', '1jkl')
atom_files_directory should be a string containing a colon-separated set of directories in which to look for PDB files. It is not a list of PDB codes. See any of the example files, such as http://salilab.org/modeller/9v1/manual/node16.html
Ben Webb, Modeller Caretaker -- http://www.salilab.org/modeller/ Modeller mail list: http://salilab.org/mailman/listinfo/modeller_usage