code: def call_copy_numbers(seg_file, work_dir, data):
      
      out_file = os.path.join(work_dir, "%s-call.seg" % dd.get_sample_name(data))
      if not utils.file_exists(out_file):
          with file_transaction(data, out_file) as tx_out_file:
              params = ["-T", "CallCopyRatioSegments",
                        "-I", seg_file, "-O", tx_out_file]
              _run_with_memory_scaling(params, tx_out_file, data)
      return out_file
docs: Call copy numbers from a normalized and segmented input file.