Model class without restraints from initial pdb failed. /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/8b3o_15831/05_2024/8b3o_15831.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/8b3o_15831/05_2024/8b3o_15831.map 2.97 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 660, in from_records sh = pdb_sheet.from_pdb_records(sh_lines) File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5322/modules/cctbx_project/iotbx/pdb/secondary_structure.py", line 2628, in from_pdb_records s = pdb_strand.from_pdb_record(r) File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5322/modules/cctbx_project/iotbx/pdb/secondary_structure.py", line 2323, in from_pdb_record sense=int(line[38:40])) File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5322/modules/cctbx_project/iotbx/pdb/secondary_structure.py", line 2299, in __init__ raise Sorry("Bad sense in SHEET record: '%s'" % sense) Sorry: Bad sense in SHEET record: '3'