I have encountered a persistent error message when using Modeller for generating initial structures with automatic loop modelling. Please find attached a copy of the alignment file etc
The error message is -
Traceback (most recent call last): File "valid.py", line 25, in ? a.make() # do homology modeling File "/usr/lib/modeller9v1/modlib/modeller/automodel/loopmodel.py", line 31, i n make automodel.make(self, exit_stage) File "/usr/lib/modeller9v1/modlib/modeller/automodel/automodel.py", line 119, in make self.multiple_models(atmsel) File "/usr/lib/modeller9v1/modlib/modeller/automodel/loopmodel.py", line 48, i n multiple_models self.build_seq(filename, num) File "/usr/lib/modeller9v1/modlib/modeller/automodel/loopmodel.py", line 115, in build_seq atmsel = self._check_select_loop_atoms() File "/usr/lib/modeller9v1/modlib/modeller/automodel/loopmodel.py", line 278, in _check_select_loop_atoms atmsel = self.select_loop_atoms() File "/usr/lib/modeller9v1/modlib/modeller/automodel/loopmodel.py", line 315, in select_loop_atoms raise ModellerError, \ _modeller.error: No loops detected for refinement: you must redefine select_loop _atoms
Does this indicate that there are no gaps in the initial model that can be refined, automatically, by loop modelling?
Regards
Mike Paterson