code: def collapse_fastq(args):
      
      try:
          umi_fn = args.fastq
          if _is_umi(args.fastq):
              umis = collapse(args.fastq)
              umi_fn = os.path.join(args.out, splitext_plus(os.path.basename(args.fastq))[0] + "_umi_trimmed.fastq")
              write_output(umi_fn, umis, args.minimum)
          seqs = collapse(umi_fn)
          out_file = splitext_plus(os.path.basename(args.fastq))[0] + "_trimmed.fastq"
      except IOError as e:
          logger.error("I/O error({0}): {1}".format(e.errno, e.strerror))
          raise "Can not read file"
      out_file = os.path.join(args.out, out_file)
      write_output(out_file, seqs, args.minimum)
      return out_file
docs: collapse fasq files after adapter trimming