def test_convert_counts(tmp_path, counts, expfile):
csvfile = str(tmp_path / "out.csv")
result = TypingResult(fromfile=data_file("prof/deep-filt-clean.json"))
result.dump_csv(csvfile, "MySample", counts=counts)
observed = pd.read_csv(csvfile)
expected = pd.read_csv(data_file(expfile))
assert observed.equals(expected)
def main(args):
result = TypingResult(fromfile=args.result)
result.dump_csv(args.out,
args.sample,
counts=args.counts,
fix_homo=args.fix_homo)