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
Attachment:
test.tar.gz
Description: Binary data