INPUT
  
    Reading model from /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6oo3_20143/03_2024/6oo3_20143.pdb
    Reading option "hydrogens=False" from command line
    Writing effective parameters to 6oo3_20143.eff

    Ligand restraint generation using eLBOW, phenix.elbow
    

  Build ligand and use monomer library to name atoms : 6EU
Sorry: 
    Atoms in the input are supposed to be bound
     
    CAJ(6EU) - OAA(6EU) = 1.76

    Fix the input file and retry

    EXITING