code: def _mint_trna_annotation(data):
      
      trna_lookup = op.join(dd.get_srna_mint_lookup(data))
      trna_space = op.join(dd.get_srna_mint_space(data))
      trna_other = op.join(dd.get_srna_mint_other(data))
      name = dd.get_sample_name(data)
      work_dir = utils.safe_makedir(os.path.join(dd.get_work_dir(data), "trna_mint", name))
      in_file = op.basename(data["clean_fastq"])
      mintmap = os.path.realpath(os.path.join(os.path.dirname(sys.executable), "MINTmap.pl"))
      perl_export = utils.get_perl_exports()
      if not file_exists(trna_lookup) or not file_exists(mintmap):
          logger.info("There is no tRNA annotation to run MINTmap.")
          return work_dir
      jar_folder = os.path.join(os.path.dirname(mintmap), "MINTplates")
      out_file = op.join(work_dir, name + "-MINTmap_v1-exclusive-tRFs.expression.txt")
      if not file_exists(out_file):
          with tx_tmpdir(data) as txdir:
              with utils.chdir(txdir):
                  utils.symlink_plus(data["clean_fastq"], op.join(txdir, in_file))
                  cmd = ("{perl_export} && {mintmap} -f {in_file} -p {name} "
                         "-l {trna_lookup} -s {trna_space} -j {jar_folder} "
                         "-o {trna_other}").format(**locals())
                  do.run(cmd, "tRNA for %s" % name)
                  for filename in glob.glob("*MINTmap*"):
                      shutil.move(filename, work_dir)
      return work_dir
docs: use MINTmap to quantify tRNAs