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    yes, you are right. here is my full option, do you have any suggestion for solving this by add option to it? I think it would be more reliable if it generate the score file during the model steps.

    -nstruct 10 #number of models to build. 1000 recommended for production runs.
    -loops:input_pdb input.pdb
    -loops:loop_file input.loops
    -loops:relax fastrelax
    -loops:extended #force phi-psi angles to be set to 180 degrees independent of loop input file (recommended for production runs)
    -loops:remodel perturb_kic
    -loops:refine refine_kic
    -ex1 #Include extra chi1 rotamers
    #-out:file:silent_struct_type binary #output file type
    -out:suffix aa

    -out:file:fullatom #output file will be fullatom