I could not find what the following three error messages mean in the log file.
I would be grateful if you could explain what the causes are and suggest several possible solutions.
Thanks.

Message 1)
getf_______W> RTF restraint not found in the atoms list:
              residue type, indices:    17   384
              atom names           : C     +N
              atom indices         :  3127     0

getf_______W> RTF restraint not found in the atoms list:
              residue type, indices:    17   384
              atom names           : C     CA    +N    O
              atom indices         :  3127  3123     0  3128

Message 2)
iupac_m_397W> Atoms were not swapped because of the uncertainty of how to handle the H atom.
iupac_m_397W> Atoms were not swapped because of the uncertainty of how to handle the H atom.
iupac_m_484W> Dihedral still outside +-90:      -90.3341
iupac_m_397W> Atoms were not swapped because of the uncertainty of how to handle the H atom.
iupac_m_397W> Atoms were not swapped because of the uncertainty of how to handle the H atom.
iupac_m_484W> Dihedral still outside +-90:      -90.7680
iupac_m_397W> Atoms were not swapped because of the uncertainty of how to handle the H atom.

Message 3)
<< end of ENERGY.
DOPE-HR score               : -13843.593750
>> Model assessment by DOPE potential
iatmcls_286W> MODEL atom not classified:  THR:OXT  THR
iatmcls_286W> MODEL atom not classified:  THR:OXT  THR
iatmcls_286W> MODEL atom not classified:  THR:OXT  THR
iatmcls_286W> MODEL atom not classified:  THR:OXT  THR