INPUT
  
    Reading model from /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/8io3_35606/06_2024/8io3_35606.pdb
    Reading option "hydrogens=False" from command line
    Writing effective parameters to 8io3_35606.eff

    Ligand restraint generation using eLBOW, phenix.elbow
    

  Build ligand and use monomer library to name atoms : VXI
Sorry: 
    Atoms in the input are supposed to be bound
     
    CAR(VXI) - CAT(VXI) = 1.85

    Fix the input file and retry

    EXITING