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Python selection.parse_selection函数代码示例

原作者: [db:作者] 来自: [db:来源] 收藏 邀请

本文整理汇总了Python中mdtraj.core.selection.parse_selection函数的典型用法代码示例。如果您正苦于以下问题：Python parse_selection函数的具体用法？Python parse_selection怎么用？Python parse_selection使用的例子？那么恭喜您, 这里精选的函数代码示例或许可以为您提供帮助。



在下文中一共展示了parse_selection函数的20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，您的评价将有助于我们的系统推荐出更棒的Python代码示例。

示例1: test_bool

def test_bool():
    sp = parse_selection("protein or water")
    eq(sp.source, "(atom.residue.is_protein or atom.residue.is_water)")

    sp = parse_selection("protein or water or all")
    eq(sp.source,
       "(atom.residue.is_protein or atom.residue.is_water or True)")
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:7，代码来源:test_selection.py


示例2: test_nested_bool

def test_nested_bool():
    sp = parse_selection("nothing and water or all")
    eq(sp.source,
       "((False and atom.residue.is_water) or True)")

    sp = parse_selection("nothing and (water or all)")
    eq(sp.source,
       "(False and (atom.residue.is_water or True))")
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:8，代码来源:test_selection.py


示例3: test_unary_2

def test_unary_2():
    sp = parse_selection('all')
    for a in tt.atoms:
        assert sp.expr(a)

    sp = parse_selection('none')
    for a in tt.atoms:
        assert not sp.expr(a)
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:8，代码来源:test_selection.py


示例4: test_not

def test_not():
    sp = parse_selection("not protein")
    eq(sp.source, "(not atom.residue.is_protein)")

    sp = parse_selection("not not protein")
    eq(sp.source, "(not (not atom.residue.is_protein))")

    sp = parse_selection('!protein')
    eq(sp.source, "(not atom.residue.is_protein)")
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:9，代码来源:test_selection.py


示例5: test_range

def test_range():
    eq(parse_selection('resSeq 1 to 10').astnode, pnode('1 <= atom.residue.resSeq <= 10'))

    sp = parse_selection('resSeq 5 to 6')
    for a in tt.atoms:
        assert sp.expr(a)
    sp = parse_selection('resSeq 7 to 8')
    for a in tt.atoms:
        assert not sp.expr(a)
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:9，代码来源:test_selection.py


示例6: test_values

def test_values():
    sp = parse_selection("resid 4")
    eq(sp.source, "(atom.residue.index == 4)")

    sp = parse_selection("resid > 4")
    eq(sp.source, "(atom.residue.index > 4)")

    sp = parse_selection("resid gt 4")
    eq(sp.source, "(atom.residue.index > 4)")

    sp = parse_selection("resid 5 to 8")
    eq(sp.source, "(5 <= atom.residue.index <= 8)")
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:12，代码来源:test_selection.py


示例7: test_binary_1

def test_binary_1():
    sp = parse_selection('resname "ALA"')
    assert sp.expr(tt.atom(0))
    assert sp.expr(tt.atom(1))

    sp = parse_selection('mass > 2')
    assert sp.expr(tt.atom(0))
    assert not sp.expr(tt.atom(1))
    assert sp.expr(tt.atom(2))

    sp = parse_selection('name ne O')
    assert sp.expr(tt.atom(0))
    assert not sp.expr(tt.atom(2))
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:13，代码来源:test_selection.py


示例8: test_quotes

def test_quotes():
    should_be = "((atom.name == 'CA') and (atom.residue.name == 'ALA'))"

    sp = parse_selection("name CA and resname ALA")
    eq(sp.source, should_be)
    assert sp.expr(tt.atom(0))

    sp = parse_selection('name "CA" and resname ALA')
    eq(sp.source, should_be)
    assert sp.expr(tt.atom(0))

    sp = parse_selection("name 'CA' and resname ALA")
    eq(sp.source, should_be)
    assert sp.expr(tt.atom(0))
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:14，代码来源:test_selection.py


示例9: test_unary_1

def test_unary_1():
    eq(parse_selection('all').astnode, pnode('True'))
    eq(parse_selection('everything').astnode, pnode('True'))
    eq(parse_selection('none').astnode, pnode('False'))
    eq(parse_selection('nothing').astnode, pnode('False'))
    # eq(parse_selection('nucleic').astnode, pnode('atom.residue.is_nucleic'))
    # eq(parse_selection('is_nucleic').astnode, pnode('atom.residue.is_nucleic'))
    eq(parse_selection('protein').astnode, pnode('atom.residue.is_protein'))
    eq(parse_selection('is_protein').astnode, pnode('atom.residue.is_protein'))
    eq(parse_selection('water').astnode, pnode('atom.residue.is_water'))
    eq(parse_selection('is_water').astnode, pnode('atom.residue.is_water'))
    eq(parse_selection('waters').astnode, pnode('atom.residue.is_water'))
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:12，代码来源:test_selection.py


示例10: select

    def select(self, selection_string):
        """Execute a selection against the topology

        Parameters
        ----------
        selection_string : str
            An expression in the MDTraj atom selection DSL

        Examples
        --------
        >>> topology.select('name O and water')
        array([1, 3, 5, 10, ...])

        Returns
        -------
        indices : np.ndarray, dtype=int, ndim=1
            Array of the indices of the atoms matching the selection expression.

        See Also
        --------
        select_expression, mdtraj.core.selection.parse_selection
        """

        filter_func = parse_selection(selection_string).expr
        indices = np.array([a.index for a in self.atoms if filter_func(a)])
        return indices
开发者ID:cing，项目名称:mdtraj，代码行数:26，代码来源:topology.py


示例11: test_unary_3

def test_unary_3():
    sp = parse_selection('protein or water')

    for a in tt.atoms:
        assert sp.expr(a)

    sp = parse_selection('protein and water')
    for a in tt.atoms:
        assert not sp.expr(a)

    sp = parse_selection('not (protein and water)')
    for a in tt.atoms:
        assert sp.expr(a)

    sp = parse_selection('not not (protein and water)')
    for a in tt.atoms:
        assert not sp.expr(a)
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:17，代码来源:test_selection.py


示例12: test_raises2

def test_raises2():
    pytest.raises(ValueError, lambda: parse_selection('dog 5'))
    pytest.raises(ValueError, lambda: parse_selection('dog == 5'))
    pytest.raises(ValueError, lambda: parse_selection('dog frog'))
    pytest.raises(ValueError, lambda: parse_selection('not dog'))
    pytest.raises(ValueError, lambda: parse_selection('protein or dog'))
    pytest.raises(ValueError, lambda: parse_selection('dog 1 to 5'))
    pytest.raises(ValueError, lambda: parse_selection('dog'))
开发者ID:dr-nate，项目名称:mdtraj，代码行数:8，代码来源:test_selection.py


示例13: select_expression

    def select_expression(self, selection_string):
        """Translate a atom selection expression into a pure python expression.

        Parameters
        ----------
        selection_string : str
            An expression in the MDTraj atom selection DSL

        Examples
        --------
        >>> topology.select_expression('name O and water')
        "[atom.index for atom in topology.atoms if ((atom.name == 'O') and atom.residue.is_water)]")

        Returns
        -------
        python_string : str
            A string containing a pure python expression, equivalent to the
            selection expression.
        """
        condition = parse_selection(selection_string).source
        fmt_string = "[atom.index for atom in topology.atoms if {condition}]"
        return fmt_string.format(condition=condition)
开发者ID:cing，项目名称:mdtraj，代码行数:22，代码来源:topology.py


示例14: test_raises

def test_raises():
    pytest.raises(ValueError, lambda: parse_selection('or'))
    pytest.raises(ValueError, lambda: parse_selection('a <'))
开发者ID:dr-nate，项目名称:mdtraj，代码行数:3，代码来源:test_selection.py


示例15: test_in

def test_in():
    sp = parse_selection("resname ALA ASP GLU")
    eq(sp.source, "(atom.residue.name in ['ALA', 'ASP', 'GLU'])")

    sp = parse_selection("resid 100 101 102")
    eq(sp.source, "(atom.residue.index in [100, 101, 102])")
开发者ID:dr-nate，项目名称:mdtraj，代码行数:6，代码来源:test_selection.py


示例16: test_binary_2

def test_binary_2():
    sp = parse_selection('name O and mass > 2')
    assert sp.expr(tt.atom(2))
    assert not sp.expr(tt.atom(3))
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:4，代码来源:test_selection.py


示例17: test_simple

def test_simple():
    sp = parse_selection("protein")
    eq(sp.source, "atom.residue.is_protein")
    assert sp.expr(tt.atom(0))
    assert sp.expr(tt.atom(1))
    assert not sp.expr(tt.atom(2))
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:6，代码来源:test_selection.py


示例18: test_alias

def test_alias():
    sp = parse_selection("waters")
    eq(sp.source, "atom.residue.is_water")
    assert sp.expr(tt.atom(3))
    assert sp.expr(tt.atom(4))
    assert not sp.expr(tt.atom(0))
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:6，代码来源:test_selection.py


示例19: test_re

def test_re():
    sp = parse_selection("name =~ 'C.*'")
    eq(sp.source, "(re.match('C.*', atom.name) is not None)")

    sp = parse_selection("(name =~ 'C.*') and all")
    eq(sp.source, "((re.match('C.*', atom.name) is not None) and True)")
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:6，代码来源:test_selection.py


示例20: test_binary_selection_operator

def test_binary_selection_operator():
    eq(parse_selection('name < 1').astnode, pnode('atom.name < 1'))
    eq(parse_selection('name lt 1').astnode, pnode('atom.name < 1'))
    eq(parse_selection('name > 1').astnode, pnode('atom.name > 1'))
    eq(parse_selection('name gt 1').astnode, pnode('atom.name > 1'))
    eq(parse_selection('name == 1').astnode, pnode('atom.name == 1'))
    eq(parse_selection('name eq 1').astnode, pnode('atom.name == 1'))
    eq(parse_selection('name != 1').astnode, pnode('atom.name != 1'))
    eq(parse_selection('name ne 1').astnode, pnode('atom.name != 1'))
    eq(parse_selection('name >= 1').astnode, pnode('atom.name >= 1'))
    eq(parse_selection('name ge 1').astnode, pnode('atom.name >= 1'))
    eq(parse_selection('name <= 1').astnode, pnode('atom.name <= 1'))
    eq(parse_selection('name le 1').astnode, pnode('atom.name <= 1'))

    eq(parse_selection('1 == name').astnode, pnode('1 == atom.name'))
    eq(parse_selection('1 eq name').astnode, pnode('1 == atom.name'))
开发者ID:ChayaSt，项目名称:mdtraj，代码行数:16，代码来源:test_selection.py



注：本文中的mdtraj.core.selection.parse_selection函数示例由纯净天空整理自Github/MSDocs等源码及文档管理平台，相关代码片段筛选自各路编程大神贡献的开源项目，源码版权归原作者所有，传播和使用请参考对应项目的License；未经允许，请勿转载。

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