Model class without restraints from initial pdb failed. /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/8hkx_34862/05_2024/8hkx_34862.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/8hkx_34862/05_2024/8hkx_34862.map 3.14 Traceback (most recent call last): File "/net/marbles/raid1/dorothee/rerefine/cryoem/rerefine_script.py", line 952, in get_composition log = null_out()) File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5322/modules/cctbx_project/mmtbx/model/model.py", line 244, in __init__ self._ss_annotation = self._model_input.extract_secondary_structure() File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5322/modules/cctbx_project/iotbx/pdb/__init__.py", line 1200, in extract_secondary_structure return secondary_structure.annotation.from_records(records, log) File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5322/modules/cctbx_project/iotbx/pdb/secondary_structure.py", line 653, in from_records h = pdb_helix.from_pdb_record(line) File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5322/modules/cctbx_project/iotbx/pdb/secondary_structure.py", line 2016, in from_pdb_record helix_class=cls.helix_class_to_str(int(line[38:40])), File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5322/modules/cctbx_project/iotbx/pdb/secondary_structure.py", line 1928, in helix_class_to_str return cls._helix_class_array[h_class] IndexError: list index out of range