Run third party disambiguation script, resolving into single set of calls.

def _run_cplusplus(work_bam_a, work_bam_b, out_dir, aligner, prefix, items):
    """Run third party disambiguation script, resolving into single set of calls.
    """
    ngs_disambiguate = config_utils.get_program("ngs_disambiguate", items[0]["config"])
    cmd = [ngs_disambiguate, "--no-sort", "--prefix", prefix, "--aligner", aligner,
           "--output-dir", out_dir, work_bam_a, work_bam_b]
    do.run(cmd, "Disambiguation", items[0])