Python kraken_dfs_report Examples

Example #1

File: test_metagenomics.py Project: tianyabeef/viral-ngs

def test_kraken_dfs_report(taxa_db):
    hits = Counter({1: 101, 3: 103, 10: 105, 12: 107})

    expected = textwrap.dedent('''\
    100.00\t416\t101\t-\t1\troot
    75.72\t315\t103\tD\t3\t  three
    50.96\t212\t0\t-\t6\t    six
    25.24\t105\t105\t-\t10\t      ten
    25.72\t107\t0\t-\t7\t      seven
    25.72\t107\t0\t-\t8\t        eight
    25.72\t107\t107\tS\t12\t          twelve
    ''')
    report = metagenomics.kraken_dfs_report(taxa_db, hits)
    text_report = '\n'.join(list(report)) + '\n'
    assert text_report == expected

Example #2

def test_kraken_dfs_report(taxa_db):
    hits = Counter({1: 101, 3: 103, 10: 105, 12: 107})

    expected = textwrap.dedent('''\
    100.00\t416\t101\t-\t1\troot
    75.72\t315\t103\tD\t3\t  three
    50.96\t212\t0\t-\t6\t    six
    25.24\t105\t105\t-\t10\t      ten
    25.72\t107\t0\t-\t7\t      seven
    25.72\t107\t0\t-\t8\t        eight
    25.72\t107\t107\tS\t12\t          twelve
    ''')
    report = metagenomics.kraken_dfs_report(taxa_db, hits)
    text_report = '\n'.join(list(report)) + '\n'
    assert text_report == expected