本文整理汇总了Python中qiime2.metadata.Metadata.save方法的典型用法代码示例。如果您正苦于以下问题：Python Metadata.save方法的具体用法？Python Metadata.save怎么用？Python Metadata.save使用的例子？那么恭喜您, 这里精选的方法代码示例或许可以为您提供帮助。您也可以进一步了解该方法所在类qiime2.metadata.Metadata的用法示例。
在下文中一共展示了Metadata.save方法的12个代码示例，这些例子默认根据受欢迎程度排序。您可以为喜欢或者感觉有用的代码点赞，您的评价将有助于系统推荐出更棒的Python代码示例。
示例1: test_ids_and_column_names_as_numeric_strings
# 需要导入模块: from qiime2.metadata import Metadata [as 别名]
# 或者: from qiime2.metadata.Metadata import save [as 别名]
def test_ids_and_column_names_as_numeric_strings(self):
index = pd.Index(['0.000001', '0.004000', '0.000000'],
dtype=object, name='id')
columns = ['42.0', '1000', '-4.2']
data = [
[2.0, 'b', 2.5],
[1.0, 'b', 4.2],
[3.0, 'c', -9.999]
]
df = pd.DataFrame(data, index=index, columns=columns)
md = Metadata(df)
md.save(self.filepath)
with open(self.filepath, 'r') as fh:
obs = fh.read()
exp = (
"id\t42.0\t1000\t-4.2\n"
"#q2:types\tnumeric\tcategorical\tnumeric\n"
"0.000001\t2\tb\t2.5\n"
"0.004000\t1\tb\t4.2\n"
"0.000000\t3\tc\t-9.999\n"
)
self.assertEqual(obs, exp)示例2: test_various_numbers
# 需要导入模块: from qiime2.metadata import Metadata [as 别名]
# 或者: from qiime2.metadata.Metadata import save [as 别名]
def test_various_numbers(self):
numbers = [
0.0, -0.0, np.nan, 1.0, 42.0, -33.0, 1e-10, 1.5e15, 0.0003, -4.234,
# This last number should be rounded because it exceeds 15 digits
# of precision.
12.34567891234567
]
index = pd.Index(['id1', 'id2', 'id3', 'id4', 'id5', 'id6', 'id7',
'id8', 'id9', 'id10', 'id11'], name='ID')
md = Metadata(pd.DataFrame({'numbers': numbers}, index=index))
md.save(self.filepath)
with open(self.filepath, 'r') as fh:
obs = fh.read()
exp = (
"ID\tnumbers\n"
"#q2:types\tnumeric\n"
"id1\t0\n"
"id2\t-0\n"
"id3\t\n"
"id4\t1\n"
"id5\t42\n"
"id6\t-33\n"
"id7\t1e-10\n"
"id8\t1.5e+15\n"
"id9\t0.0003\n"
"id10\t-4.234\n"
"id11\t12.3456789123457\n"
)
self.assertEqual(obs, exp)示例3: test_no_bom
# 需要导入模块: from qiime2.metadata import Metadata [as 别名]
# 或者: from qiime2.metadata.Metadata import save [as 别名]
def test_no_bom(self):
md = Metadata(pd.DataFrame(
{'col1': [1.0, 2.0, 3.0],
'col2': ['a', 'b', 'c'],
'col3': ['foo', 'bar', '42']},
index=pd.Index(['id1', 'id2', 'id3'], name='id')))
md.save(self.filepath)
with open(self.filepath, 'rb') as fh:
obs = fh.read(2)
self.assertEqual(obs, b'id')示例4: test_minimal
# 需要导入模块: from qiime2.metadata import Metadata [as 别名]
# 或者: from qiime2.metadata.Metadata import save [as 别名]
def test_minimal(self):
md = Metadata(pd.DataFrame({}, index=pd.Index(['my-id'], name='id')))
md.save(self.filepath)
with open(self.filepath, 'r') as fh:
obs = fh.read()
exp = (
"id\n"
"#q2:types\n"
"my-id\n"
)
self.assertEqual(obs, exp)示例5: test_single_id
# 需要导入模块: from qiime2.metadata import Metadata [as 别名]
# 或者: from qiime2.metadata.Metadata import save [as 别名]
def test_single_id(self):
md = Metadata(pd.DataFrame(
{'col1': ['foo'], 'col2': [4.002]},
index=pd.Index(['my-id'], name='featureid')))
md.save(self.filepath)
with open(self.filepath, 'r') as fh:
obs = fh.read()
exp = (
"featureid\tcol1\tcol2\n"
"#q2:types\tcategorical\tnumeric\n"
"my-id\tfoo\t4.002\n"
)
self.assertEqual(obs, exp)示例6: test_no_columns
# 需要导入模块: from qiime2.metadata import Metadata [as 别名]
# 或者: from qiime2.metadata.Metadata import save [as 别名]
def test_no_columns(self):
md = Metadata(pd.DataFrame(
{}, index=pd.Index(['foo', 'bar', 'baz'], name='id')))
md.save(self.filepath)
with open(self.filepath, 'r') as fh:
obs = fh.read()
exp = (
"id\n"
"#q2:types\n"
"foo\n"
"bar\n"
"baz\n"
)
self.assertEqual(obs, exp)示例7: test_single_column
# 需要导入模块: from qiime2.metadata import Metadata [as 别名]
# 或者: from qiime2.metadata.Metadata import save [as 别名]
def test_single_column(self):
md = Metadata(pd.DataFrame(
{'col1': ['42', '4.3', '4.4000']},
index=pd.Index(['foo', 'bar', 'baz'], name='id')))
md.save(self.filepath)
with open(self.filepath, 'r') as fh:
obs = fh.read()
exp = (
"id\tcol1\n"
"#q2:types\tcategorical\n"
"foo\t42\n"
"bar\t4.3\n"
"baz\t4.4000\n"
)
self.assertEqual(obs, exp)示例8: test_some_missing_data
# 需要导入模块: from qiime2.metadata import Metadata [as 别名]
# 或者: from qiime2.metadata.Metadata import save [as 别名]
def test_some_missing_data(self):
md = Metadata(
pd.DataFrame({'col1': [42.0, np.nan, -3.5],
'col2': ['a', np.nan, np.nan]},
index=pd.Index(['id1', 'id2', 'id3'], name='id')))
md.save(self.filepath)
with open(self.filepath, 'r') as fh:
obs = fh.read()
exp = (
"id\tcol1\tcol2\n"
"#q2:types\tnumeric\tcategorical\n"
"id1\t42\ta\n"
"id2\t\t\n"
"id3\t-3.5\t\n"
)
self.assertEqual(obs, exp)示例9: test_alternate_id_header
# 需要导入模块: from qiime2.metadata import Metadata [as 别名]
# 或者: from qiime2.metadata.Metadata import save [as 别名]
def test_alternate_id_header(self):
md = Metadata(pd.DataFrame(
{'col1': [1.0, 2.0, 3.0],
'col2': ['a', 'b', 'c'],
'col3': ['foo', 'bar', '42']},
index=pd.Index(['id1', 'id2', 'id3'], name='#SampleID')))
md.save(self.filepath)
with open(self.filepath, 'r') as fh:
obs = fh.read()
exp = (
"#SampleID\tcol1\tcol2\tcol3\n"
"#q2:types\tnumeric\tcategorical\tcategorical\n"
"id1\t1\ta\tfoo\n"
"id2\t2\tb\tbar\n"
"id3\t3\tc\t42\n"
)
self.assertEqual(obs, exp)示例10: test_all_missing_data
# 需要导入模块: from qiime2.metadata import Metadata [as 别名]
# 或者: from qiime2.metadata.Metadata import save [as 别名]
def test_all_missing_data(self):
# nan-only columns that are numeric or categorical.
md = Metadata(
pd.DataFrame({'col1': [np.nan, np.nan, np.nan],
'col2': np.array([np.nan, np.nan, np.nan],
dtype=object)},
index=pd.Index(['id1', 'id2', 'id3'], name='id')))
md.save(self.filepath)
with open(self.filepath, 'r') as fh:
obs = fh.read()
exp = (
"id\tcol1\tcol2\n"
"#q2:types\tnumeric\tcategorical\n"
"id1\t\t\n"
"id2\t\t\n"
"id3\t\t\n"
)
self.assertEqual(obs, exp)示例11: test_different_file_extension
# 需要导入模块: from qiime2.metadata import Metadata [as 别名]
# 或者: from qiime2.metadata.Metadata import save [as 别名]
def test_different_file_extension(self):
md = Metadata(pd.DataFrame(
{'col1': [1.0, 2.0, 3.0],
'col2': ['a', 'b', 'c'],
'col3': ['foo', 'bar', '42']},
index=pd.Index(['id1', 'id2', 'id3'], name='id')))
filepath = os.path.join(self.temp_dir, 'metadata.txt')
md.save(filepath)
with open(filepath, 'r') as fh:
obs = fh.read()
exp = (
"id\tcol1\tcol2\tcol3\n"
"#q2:types\tnumeric\tcategorical\tcategorical\n"
"id1\t1\ta\tfoo\n"
"id2\t2\tb\tbar\n"
"id3\t3\tc\t42\n"
)
self.assertEqual(obs, exp)示例12: test_unsorted_column_order
# 需要导入模块: from qiime2.metadata import Metadata [as 别名]
# 或者: from qiime2.metadata.Metadata import save [as 别名]
def test_unsorted_column_order(self):
index = pd.Index(['id1', 'id2', 'id3'], name='id')
columns = ['z', 'b', 'y']
data = [
[1.0, 'a', 'foo'],
[2.0, 'b', 'bar'],
[3.0, 'c', '42']
]
md = Metadata(pd.DataFrame(data, index=index, columns=columns))
md.save(self.filepath)
with open(self.filepath, 'r') as fh:
obs = fh.read()
exp = (
"id\tz\tb\ty\n"
"#q2:types\tnumeric\tcategorical\tcategorical\n"
"id1\t1\ta\tfoo\n"
"id2\t2\tb\tbar\n"
"id3\t3\tc\t42\n"
)
self.assertEqual(obs, exp)