code: def number_pdbs(*args, **kwargs):
      
  
      format = kwargs.pop('format', "%(num)04d")
      name_format = "%(prefix)s" + format +".%(suffix)s"
  
      for f in itertools.chain.from_iterable(map(glob.glob, args)):
          m = NUMBERED_PDB.search(f)
          if m is None:
              continue
          num = int(m.group('NUMBER'))
          prefix = m.group('PREFIX')
          suffix = m.group('SUFFIX')
          newname = name_format % vars()
          logger.info("Renaming {f!r} --> {newname!r}".format(**vars()))
          try:
              os.rename(f, newname)
          except OSError:
              logger.exception("renaming failed")
docs: Rename pdbs x1.pdb ... x345.pdb --> x0001.pdb ... x0345.pdb
  
      :Arguments:
         - *args*: filenames or glob patterns (such as "pdb/md*.pdb")
         - *format*: format string including keyword *num* ["%(num)04d"]