INPUT
  
    Reading model from /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/8ss7_40746/05_2024/8ss7_40746.pdb
    Reading option "hydrogens=False" from command line
    Writing effective parameters to 8ss7_40746.eff

    Ligand restraint generation using eLBOW, phenix.elbow
    

  Build ligand and use monomer library to name atoms : 6ZP
  Using monomer library entry 6ZP as template

  Build ligand and use monomer library to name atoms : SPD
  Using monomer library entry SPD as template

  Build ligand and use monomer library to name atoms : ZK1
  Using monomer library entry ZK1 as template

  Build ligand and use monomer library to name atoms : CLR
Sorry: 
    Atoms in the input are supposed to be bound
     
    C8(CLR) - C14(CLR) = 1.85

    Fix the input file and retry

    EXITING