Statistics: Creating restraints_manager  failed.

/net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6uqk_20849/09_2024/6uqk_20849.cif /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6uqk_20849/09_2024/6uqk_20849.map 3.77
Traceback (most recent call last):
  File "/net/marbles/raid1/dorothee/rerefine/cryoem/rerefine_script.py", line 391, in get_statistics
    checked_model.process(make_restraints=True)
  File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5461/modules/cctbx_project/mmtbx/model/model.py", line 2037, in process
    run_clash_guard           = run_clash_guard)
  File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5461/modules/cctbx_project/mmtbx/model/model.py", line 2114, in _setup_restraints_manager
    assume_hydrogens_all_missing = not self.has_hd())
  File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5461/modules/cctbx_project/mmtbx/monomer_library/pdb_interpretation.py", line 6013, in geometry_restraints_manager
    log=self.log)
  File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5461/modules/cctbx_project/mmtbx/monomer_library/pdb_interpretation.py", line 5712, in construct_geometry_restraints_manager
    verbose=True,
  File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5461/modules/cctbx_project/mmtbx/conformation_dependent_library/__init__.py", line 399, in update_restraints
    esd_factor=esd_factor,
  File "/net/cci-filer2/raid1/xp/phenix/phenix-dev-5461/modules/cctbx_project/mmtbx/conformation_dependent_library/multi_residue_cdl_class.py", line 278, in apply_updates
    raise Sorry(outl)
Sorry: CDL error: bond not found between "ATOM  21737  CA  ASP B1887 .*.     C  " - "ATOM  21740  CB  ASP B1887 .*.     C  "