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1181 lines
36 KiB
Python
1181 lines
36 KiB
Python
from __future__ import division, absolute_import, print_function
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import os
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import sys
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import types
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import re
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import warnings
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from numpy.core.numerictypes import issubclass_, issubsctype, issubdtype
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from numpy.core.overrides import set_module
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from numpy.core import ndarray, ufunc, asarray
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import numpy as np
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# getargspec and formatargspec were removed in Python 3.6
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from numpy.compat import getargspec, formatargspec
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__all__ = [
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'issubclass_', 'issubsctype', 'issubdtype', 'deprecate',
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'deprecate_with_doc', 'get_include', 'info', 'source', 'who',
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'lookfor', 'byte_bounds', 'safe_eval'
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]
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def get_include():
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"""
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Return the directory that contains the NumPy \\*.h header files.
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Extension modules that need to compile against NumPy should use this
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function to locate the appropriate include directory.
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Notes
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-----
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When using ``distutils``, for example in ``setup.py``.
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::
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import numpy as np
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...
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Extension('extension_name', ...
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include_dirs=[np.get_include()])
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...
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"""
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import numpy
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if numpy.show_config is None:
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# running from numpy source directory
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d = os.path.join(os.path.dirname(numpy.__file__), 'core', 'include')
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else:
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# using installed numpy core headers
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import numpy.core as core
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d = os.path.join(os.path.dirname(core.__file__), 'include')
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return d
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def _set_function_name(func, name):
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func.__name__ = name
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return func
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class _Deprecate(object):
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"""
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Decorator class to deprecate old functions.
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Refer to `deprecate` for details.
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See Also
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--------
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deprecate
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"""
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def __init__(self, old_name=None, new_name=None, message=None):
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self.old_name = old_name
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self.new_name = new_name
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self.message = message
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def __call__(self, func, *args, **kwargs):
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"""
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Decorator call. Refer to ``decorate``.
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"""
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old_name = self.old_name
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new_name = self.new_name
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message = self.message
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if old_name is None:
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try:
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old_name = func.__name__
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except AttributeError:
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old_name = func.__name__
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if new_name is None:
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depdoc = "`%s` is deprecated!" % old_name
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else:
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depdoc = "`%s` is deprecated, use `%s` instead!" % \
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(old_name, new_name)
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if message is not None:
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depdoc += "\n" + message
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def newfunc(*args,**kwds):
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"""`arrayrange` is deprecated, use `arange` instead!"""
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warnings.warn(depdoc, DeprecationWarning, stacklevel=2)
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return func(*args, **kwds)
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newfunc = _set_function_name(newfunc, old_name)
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doc = func.__doc__
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if doc is None:
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doc = depdoc
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else:
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lines = doc.expandtabs().split('\n')
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indent = _get_indent(lines[1:])
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if lines[0].lstrip():
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# Indent the original first line to let inspect.cleandoc()
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# dedent the docstring despite the deprecation notice.
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doc = indent * ' ' + doc
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else:
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# Remove the same leading blank lines as cleandoc() would.
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skip = len(lines[0]) + 1
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for line in lines[1:]:
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if len(line) > indent:
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break
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skip += len(line) + 1
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doc = doc[skip:]
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doc = '\n\n'.join([depdoc, doc])
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newfunc.__doc__ = doc
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try:
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d = func.__dict__
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except AttributeError:
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pass
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else:
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newfunc.__dict__.update(d)
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return newfunc
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def _get_indent(lines):
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"""
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Determines the leading whitespace that could be removed from all the lines.
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"""
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indent = sys.maxsize
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for line in lines:
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content = len(line.lstrip())
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if content:
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indent = min(indent, len(line) - content)
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if indent == sys.maxsize:
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indent = 0
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return indent
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def deprecate(*args, **kwargs):
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"""
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Issues a DeprecationWarning, adds warning to `old_name`'s
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docstring, rebinds ``old_name.__name__`` and returns the new
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function object.
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This function may also be used as a decorator.
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Parameters
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----------
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func : function
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The function to be deprecated.
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old_name : str, optional
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The name of the function to be deprecated. Default is None, in
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which case the name of `func` is used.
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new_name : str, optional
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The new name for the function. Default is None, in which case the
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deprecation message is that `old_name` is deprecated. If given, the
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deprecation message is that `old_name` is deprecated and `new_name`
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should be used instead.
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message : str, optional
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Additional explanation of the deprecation. Displayed in the
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docstring after the warning.
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Returns
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-------
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old_func : function
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The deprecated function.
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Examples
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--------
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Note that ``olduint`` returns a value after printing Deprecation
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Warning:
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>>> olduint = np.deprecate(np.uint)
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DeprecationWarning: `uint64` is deprecated! # may vary
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>>> olduint(6)
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6
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"""
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# Deprecate may be run as a function or as a decorator
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# If run as a function, we initialise the decorator class
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# and execute its __call__ method.
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if args:
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fn = args[0]
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args = args[1:]
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return _Deprecate(*args, **kwargs)(fn)
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else:
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return _Deprecate(*args, **kwargs)
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deprecate_with_doc = lambda msg: _Deprecate(message=msg)
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#--------------------------------------------
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# Determine if two arrays can share memory
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#--------------------------------------------
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def byte_bounds(a):
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"""
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Returns pointers to the end-points of an array.
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Parameters
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----------
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a : ndarray
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Input array. It must conform to the Python-side of the array
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interface.
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Returns
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-------
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(low, high) : tuple of 2 integers
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The first integer is the first byte of the array, the second
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integer is just past the last byte of the array. If `a` is not
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contiguous it will not use every byte between the (`low`, `high`)
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values.
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Examples
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--------
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>>> I = np.eye(2, dtype='f'); I.dtype
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dtype('float32')
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>>> low, high = np.byte_bounds(I)
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>>> high - low == I.size*I.itemsize
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True
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>>> I = np.eye(2); I.dtype
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dtype('float64')
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>>> low, high = np.byte_bounds(I)
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>>> high - low == I.size*I.itemsize
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True
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"""
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ai = a.__array_interface__
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a_data = ai['data'][0]
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astrides = ai['strides']
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ashape = ai['shape']
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bytes_a = asarray(a).dtype.itemsize
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a_low = a_high = a_data
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if astrides is None:
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# contiguous case
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a_high += a.size * bytes_a
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else:
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for shape, stride in zip(ashape, astrides):
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if stride < 0:
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a_low += (shape-1)*stride
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else:
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a_high += (shape-1)*stride
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a_high += bytes_a
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return a_low, a_high
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#-----------------------------------------------------------------------------
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# Function for output and information on the variables used.
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#-----------------------------------------------------------------------------
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def who(vardict=None):
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"""
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Print the NumPy arrays in the given dictionary.
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If there is no dictionary passed in or `vardict` is None then returns
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NumPy arrays in the globals() dictionary (all NumPy arrays in the
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namespace).
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Parameters
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----------
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vardict : dict, optional
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A dictionary possibly containing ndarrays. Default is globals().
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Returns
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-------
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out : None
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Returns 'None'.
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Notes
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-----
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Prints out the name, shape, bytes and type of all of the ndarrays
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present in `vardict`.
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Examples
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--------
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>>> a = np.arange(10)
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>>> b = np.ones(20)
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>>> np.who()
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Name Shape Bytes Type
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===========================================================
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a 10 80 int64
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b 20 160 float64
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Upper bound on total bytes = 240
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>>> d = {'x': np.arange(2.0), 'y': np.arange(3.0), 'txt': 'Some str',
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... 'idx':5}
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>>> np.who(d)
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Name Shape Bytes Type
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===========================================================
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x 2 16 float64
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y 3 24 float64
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Upper bound on total bytes = 40
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"""
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if vardict is None:
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frame = sys._getframe().f_back
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vardict = frame.f_globals
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sta = []
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cache = {}
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for name in vardict.keys():
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if isinstance(vardict[name], ndarray):
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var = vardict[name]
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idv = id(var)
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if idv in cache.keys():
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namestr = name + " (%s)" % cache[idv]
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original = 0
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else:
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cache[idv] = name
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namestr = name
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original = 1
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shapestr = " x ".join(map(str, var.shape))
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bytestr = str(var.nbytes)
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sta.append([namestr, shapestr, bytestr, var.dtype.name,
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original])
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maxname = 0
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maxshape = 0
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maxbyte = 0
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totalbytes = 0
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for k in range(len(sta)):
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val = sta[k]
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if maxname < len(val[0]):
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maxname = len(val[0])
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if maxshape < len(val[1]):
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maxshape = len(val[1])
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if maxbyte < len(val[2]):
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maxbyte = len(val[2])
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if val[4]:
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totalbytes += int(val[2])
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if len(sta) > 0:
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sp1 = max(10, maxname)
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sp2 = max(10, maxshape)
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sp3 = max(10, maxbyte)
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prval = "Name %s Shape %s Bytes %s Type" % (sp1*' ', sp2*' ', sp3*' ')
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print(prval + "\n" + "="*(len(prval)+5) + "\n")
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for k in range(len(sta)):
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val = sta[k]
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print("%s %s %s %s %s %s %s" % (val[0], ' '*(sp1-len(val[0])+4),
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val[1], ' '*(sp2-len(val[1])+5),
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val[2], ' '*(sp3-len(val[2])+5),
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val[3]))
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print("\nUpper bound on total bytes = %d" % totalbytes)
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return
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#-----------------------------------------------------------------------------
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# NOTE: pydoc defines a help function which works similarly to this
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# except it uses a pager to take over the screen.
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# combine name and arguments and split to multiple lines of width
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# characters. End lines on a comma and begin argument list indented with
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# the rest of the arguments.
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def _split_line(name, arguments, width):
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firstwidth = len(name)
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k = firstwidth
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newstr = name
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sepstr = ", "
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arglist = arguments.split(sepstr)
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for argument in arglist:
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if k == firstwidth:
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addstr = ""
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else:
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addstr = sepstr
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k = k + len(argument) + len(addstr)
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if k > width:
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k = firstwidth + 1 + len(argument)
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newstr = newstr + ",\n" + " "*(firstwidth+2) + argument
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else:
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newstr = newstr + addstr + argument
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return newstr
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_namedict = None
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_dictlist = None
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# Traverse all module directories underneath globals
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# to see if something is defined
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def _makenamedict(module='numpy'):
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module = __import__(module, globals(), locals(), [])
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thedict = {module.__name__:module.__dict__}
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dictlist = [module.__name__]
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totraverse = [module.__dict__]
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while True:
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if len(totraverse) == 0:
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break
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thisdict = totraverse.pop(0)
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for x in thisdict.keys():
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if isinstance(thisdict[x], types.ModuleType):
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modname = thisdict[x].__name__
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if modname not in dictlist:
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moddict = thisdict[x].__dict__
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dictlist.append(modname)
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totraverse.append(moddict)
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thedict[modname] = moddict
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return thedict, dictlist
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def _info(obj, output=sys.stdout):
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"""Provide information about ndarray obj.
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Parameters
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----------
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obj : ndarray
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Must be ndarray, not checked.
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output
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Where printed output goes.
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Notes
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-----
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Copied over from the numarray module prior to its removal.
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Adapted somewhat as only numpy is an option now.
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Called by info.
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"""
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extra = ""
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tic = ""
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bp = lambda x: x
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cls = getattr(obj, '__class__', type(obj))
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nm = getattr(cls, '__name__', cls)
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strides = obj.strides
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endian = obj.dtype.byteorder
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print("class: ", nm, file=output)
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print("shape: ", obj.shape, file=output)
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print("strides: ", strides, file=output)
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print("itemsize: ", obj.itemsize, file=output)
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print("aligned: ", bp(obj.flags.aligned), file=output)
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print("contiguous: ", bp(obj.flags.contiguous), file=output)
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print("fortran: ", obj.flags.fortran, file=output)
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print(
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"data pointer: %s%s" % (hex(obj.ctypes._as_parameter_.value), extra),
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file=output
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)
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print("byteorder: ", end=' ', file=output)
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if endian in ['|', '=']:
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print("%s%s%s" % (tic, sys.byteorder, tic), file=output)
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byteswap = False
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elif endian == '>':
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print("%sbig%s" % (tic, tic), file=output)
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byteswap = sys.byteorder != "big"
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else:
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print("%slittle%s" % (tic, tic), file=output)
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byteswap = sys.byteorder != "little"
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print("byteswap: ", bp(byteswap), file=output)
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print("type: %s" % obj.dtype, file=output)
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|
|
|
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@set_module('numpy')
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def info(object=None, maxwidth=76, output=sys.stdout, toplevel='numpy'):
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"""
|
|
Get help information for a function, class, or module.
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|
|
Parameters
|
|
----------
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object : object or str, optional
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Input object or name to get information about. If `object` is a
|
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numpy object, its docstring is given. If it is a string, available
|
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modules are searched for matching objects. If None, information
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about `info` itself is returned.
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maxwidth : int, optional
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Printing width.
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output : file like object, optional
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|
File like object that the output is written to, default is
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``stdout``. The object has to be opened in 'w' or 'a' mode.
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toplevel : str, optional
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|
Start search at this level.
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|
|
|
See Also
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|
--------
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source, lookfor
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|
|
Notes
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-----
|
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When used interactively with an object, ``np.info(obj)`` is equivalent
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to ``help(obj)`` on the Python prompt or ``obj?`` on the IPython
|
|
prompt.
|
|
|
|
Examples
|
|
--------
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>>> np.info(np.polyval) # doctest: +SKIP
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polyval(p, x)
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|
Evaluate the polynomial p at x.
|
|
...
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When using a string for `object` it is possible to get multiple results.
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>>> np.info('fft') # doctest: +SKIP
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*** Found in numpy ***
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Core FFT routines
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...
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*** Found in numpy.fft ***
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fft(a, n=None, axis=-1)
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...
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|
*** Repeat reference found in numpy.fft.fftpack ***
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*** Total of 3 references found. ***
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"""
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|
global _namedict, _dictlist
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# Local import to speed up numpy's import time.
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|
import pydoc
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import inspect
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|
|
if (hasattr(object, '_ppimport_importer') or
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hasattr(object, '_ppimport_module')):
|
|
object = object._ppimport_module
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|
elif hasattr(object, '_ppimport_attr'):
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object = object._ppimport_attr
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|
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if object is None:
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info(info)
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elif isinstance(object, ndarray):
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_info(object, output=output)
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elif isinstance(object, str):
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if _namedict is None:
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_namedict, _dictlist = _makenamedict(toplevel)
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numfound = 0
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objlist = []
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for namestr in _dictlist:
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try:
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obj = _namedict[namestr][object]
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if id(obj) in objlist:
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print("\n "
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"*** Repeat reference found in %s *** " % namestr,
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file=output
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)
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else:
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objlist.append(id(obj))
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print(" *** Found in %s ***" % namestr, file=output)
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info(obj)
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print("-"*maxwidth, file=output)
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|
numfound += 1
|
|
except KeyError:
|
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pass
|
|
if numfound == 0:
|
|
print("Help for %s not found." % object, file=output)
|
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else:
|
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print("\n "
|
|
"*** Total of %d references found. ***" % numfound,
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file=output
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)
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|
|
|
elif inspect.isfunction(object):
|
|
name = object.__name__
|
|
arguments = formatargspec(*getargspec(object))
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|
|
|
if len(name+arguments) > maxwidth:
|
|
argstr = _split_line(name, arguments, maxwidth)
|
|
else:
|
|
argstr = name + arguments
|
|
|
|
print(" " + argstr + "\n", file=output)
|
|
print(inspect.getdoc(object), file=output)
|
|
|
|
elif inspect.isclass(object):
|
|
name = object.__name__
|
|
arguments = "()"
|
|
try:
|
|
if hasattr(object, '__init__'):
|
|
arguments = formatargspec(
|
|
*getargspec(object.__init__.__func__)
|
|
)
|
|
arglist = arguments.split(', ')
|
|
if len(arglist) > 1:
|
|
arglist[1] = "("+arglist[1]
|
|
arguments = ", ".join(arglist[1:])
|
|
except Exception:
|
|
pass
|
|
|
|
if len(name+arguments) > maxwidth:
|
|
argstr = _split_line(name, arguments, maxwidth)
|
|
else:
|
|
argstr = name + arguments
|
|
|
|
print(" " + argstr + "\n", file=output)
|
|
doc1 = inspect.getdoc(object)
|
|
if doc1 is None:
|
|
if hasattr(object, '__init__'):
|
|
print(inspect.getdoc(object.__init__), file=output)
|
|
else:
|
|
print(inspect.getdoc(object), file=output)
|
|
|
|
methods = pydoc.allmethods(object)
|
|
if methods != []:
|
|
print("\n\nMethods:\n", file=output)
|
|
for meth in methods:
|
|
if meth[0] == '_':
|
|
continue
|
|
thisobj = getattr(object, meth, None)
|
|
if thisobj is not None:
|
|
methstr, other = pydoc.splitdoc(
|
|
inspect.getdoc(thisobj) or "None"
|
|
)
|
|
print(" %s -- %s" % (meth, methstr), file=output)
|
|
|
|
elif (sys.version_info[0] < 3
|
|
and isinstance(object, types.InstanceType)):
|
|
# check for __call__ method
|
|
# types.InstanceType is the type of the instances of oldstyle classes
|
|
print("Instance of class: ", object.__class__.__name__, file=output)
|
|
print(file=output)
|
|
if hasattr(object, '__call__'):
|
|
arguments = formatargspec(
|
|
*getargspec(object.__call__.__func__)
|
|
)
|
|
arglist = arguments.split(', ')
|
|
if len(arglist) > 1:
|
|
arglist[1] = "("+arglist[1]
|
|
arguments = ", ".join(arglist[1:])
|
|
else:
|
|
arguments = "()"
|
|
|
|
if hasattr(object, 'name'):
|
|
name = "%s" % object.name
|
|
else:
|
|
name = "<name>"
|
|
if len(name+arguments) > maxwidth:
|
|
argstr = _split_line(name, arguments, maxwidth)
|
|
else:
|
|
argstr = name + arguments
|
|
|
|
print(" " + argstr + "\n", file=output)
|
|
doc = inspect.getdoc(object.__call__)
|
|
if doc is not None:
|
|
print(inspect.getdoc(object.__call__), file=output)
|
|
print(inspect.getdoc(object), file=output)
|
|
|
|
else:
|
|
print(inspect.getdoc(object), file=output)
|
|
|
|
elif inspect.ismethod(object):
|
|
name = object.__name__
|
|
arguments = formatargspec(
|
|
*getargspec(object.__func__)
|
|
)
|
|
arglist = arguments.split(', ')
|
|
if len(arglist) > 1:
|
|
arglist[1] = "("+arglist[1]
|
|
arguments = ", ".join(arglist[1:])
|
|
else:
|
|
arguments = "()"
|
|
|
|
if len(name+arguments) > maxwidth:
|
|
argstr = _split_line(name, arguments, maxwidth)
|
|
else:
|
|
argstr = name + arguments
|
|
|
|
print(" " + argstr + "\n", file=output)
|
|
print(inspect.getdoc(object), file=output)
|
|
|
|
elif hasattr(object, '__doc__'):
|
|
print(inspect.getdoc(object), file=output)
|
|
|
|
|
|
@set_module('numpy')
|
|
def source(object, output=sys.stdout):
|
|
"""
|
|
Print or write to a file the source code for a NumPy object.
|
|
|
|
The source code is only returned for objects written in Python. Many
|
|
functions and classes are defined in C and will therefore not return
|
|
useful information.
|
|
|
|
Parameters
|
|
----------
|
|
object : numpy object
|
|
Input object. This can be any object (function, class, module,
|
|
...).
|
|
output : file object, optional
|
|
If `output` not supplied then source code is printed to screen
|
|
(sys.stdout). File object must be created with either write 'w' or
|
|
append 'a' modes.
|
|
|
|
See Also
|
|
--------
|
|
lookfor, info
|
|
|
|
Examples
|
|
--------
|
|
>>> np.source(np.interp) #doctest: +SKIP
|
|
In file: /usr/lib/python2.6/dist-packages/numpy/lib/function_base.py
|
|
def interp(x, xp, fp, left=None, right=None):
|
|
\"\"\".... (full docstring printed)\"\"\"
|
|
if isinstance(x, (float, int, number)):
|
|
return compiled_interp([x], xp, fp, left, right).item()
|
|
else:
|
|
return compiled_interp(x, xp, fp, left, right)
|
|
|
|
The source code is only returned for objects written in Python.
|
|
|
|
>>> np.source(np.array) #doctest: +SKIP
|
|
Not available for this object.
|
|
|
|
"""
|
|
# Local import to speed up numpy's import time.
|
|
import inspect
|
|
try:
|
|
print("In file: %s\n" % inspect.getsourcefile(object), file=output)
|
|
print(inspect.getsource(object), file=output)
|
|
except Exception:
|
|
print("Not available for this object.", file=output)
|
|
|
|
|
|
# Cache for lookfor: {id(module): {name: (docstring, kind, index), ...}...}
|
|
# where kind: "func", "class", "module", "object"
|
|
# and index: index in breadth-first namespace traversal
|
|
_lookfor_caches = {}
|
|
|
|
# regexp whose match indicates that the string may contain a function
|
|
# signature
|
|
_function_signature_re = re.compile(r"[a-z0-9_]+\(.*[,=].*\)", re.I)
|
|
|
|
|
|
@set_module('numpy')
|
|
def lookfor(what, module=None, import_modules=True, regenerate=False,
|
|
output=None):
|
|
"""
|
|
Do a keyword search on docstrings.
|
|
|
|
A list of objects that matched the search is displayed,
|
|
sorted by relevance. All given keywords need to be found in the
|
|
docstring for it to be returned as a result, but the order does
|
|
not matter.
|
|
|
|
Parameters
|
|
----------
|
|
what : str
|
|
String containing words to look for.
|
|
module : str or list, optional
|
|
Name of module(s) whose docstrings to go through.
|
|
import_modules : bool, optional
|
|
Whether to import sub-modules in packages. Default is True.
|
|
regenerate : bool, optional
|
|
Whether to re-generate the docstring cache. Default is False.
|
|
output : file-like, optional
|
|
File-like object to write the output to. If omitted, use a pager.
|
|
|
|
See Also
|
|
--------
|
|
source, info
|
|
|
|
Notes
|
|
-----
|
|
Relevance is determined only roughly, by checking if the keywords occur
|
|
in the function name, at the start of a docstring, etc.
|
|
|
|
Examples
|
|
--------
|
|
>>> np.lookfor('binary representation') # doctest: +SKIP
|
|
Search results for 'binary representation'
|
|
------------------------------------------
|
|
numpy.binary_repr
|
|
Return the binary representation of the input number as a string.
|
|
numpy.core.setup_common.long_double_representation
|
|
Given a binary dump as given by GNU od -b, look for long double
|
|
numpy.base_repr
|
|
Return a string representation of a number in the given base system.
|
|
...
|
|
|
|
"""
|
|
import pydoc
|
|
|
|
# Cache
|
|
cache = _lookfor_generate_cache(module, import_modules, regenerate)
|
|
|
|
# Search
|
|
# XXX: maybe using a real stemming search engine would be better?
|
|
found = []
|
|
whats = str(what).lower().split()
|
|
if not whats:
|
|
return
|
|
|
|
for name, (docstring, kind, index) in cache.items():
|
|
if kind in ('module', 'object'):
|
|
# don't show modules or objects
|
|
continue
|
|
ok = True
|
|
doc = docstring.lower()
|
|
for w in whats:
|
|
if w not in doc:
|
|
ok = False
|
|
break
|
|
if ok:
|
|
found.append(name)
|
|
|
|
# Relevance sort
|
|
# XXX: this is full Harrison-Stetson heuristics now,
|
|
# XXX: it probably could be improved
|
|
|
|
kind_relevance = {'func': 1000, 'class': 1000,
|
|
'module': -1000, 'object': -1000}
|
|
|
|
def relevance(name, docstr, kind, index):
|
|
r = 0
|
|
# do the keywords occur within the start of the docstring?
|
|
first_doc = "\n".join(docstr.lower().strip().split("\n")[:3])
|
|
r += sum([200 for w in whats if w in first_doc])
|
|
# do the keywords occur in the function name?
|
|
r += sum([30 for w in whats if w in name])
|
|
# is the full name long?
|
|
r += -len(name) * 5
|
|
# is the object of bad type?
|
|
r += kind_relevance.get(kind, -1000)
|
|
# is the object deep in namespace hierarchy?
|
|
r += -name.count('.') * 10
|
|
r += max(-index / 100, -100)
|
|
return r
|
|
|
|
def relevance_value(a):
|
|
return relevance(a, *cache[a])
|
|
found.sort(key=relevance_value)
|
|
|
|
# Pretty-print
|
|
s = "Search results for '%s'" % (' '.join(whats))
|
|
help_text = [s, "-"*len(s)]
|
|
for name in found[::-1]:
|
|
doc, kind, ix = cache[name]
|
|
|
|
doclines = [line.strip() for line in doc.strip().split("\n")
|
|
if line.strip()]
|
|
|
|
# find a suitable short description
|
|
try:
|
|
first_doc = doclines[0].strip()
|
|
if _function_signature_re.search(first_doc):
|
|
first_doc = doclines[1].strip()
|
|
except IndexError:
|
|
first_doc = ""
|
|
help_text.append("%s\n %s" % (name, first_doc))
|
|
|
|
if not found:
|
|
help_text.append("Nothing found.")
|
|
|
|
# Output
|
|
if output is not None:
|
|
output.write("\n".join(help_text))
|
|
elif len(help_text) > 10:
|
|
pager = pydoc.getpager()
|
|
pager("\n".join(help_text))
|
|
else:
|
|
print("\n".join(help_text))
|
|
|
|
def _lookfor_generate_cache(module, import_modules, regenerate):
|
|
"""
|
|
Generate docstring cache for given module.
|
|
|
|
Parameters
|
|
----------
|
|
module : str, None, module
|
|
Module for which to generate docstring cache
|
|
import_modules : bool
|
|
Whether to import sub-modules in packages.
|
|
regenerate : bool
|
|
Re-generate the docstring cache
|
|
|
|
Returns
|
|
-------
|
|
cache : dict {obj_full_name: (docstring, kind, index), ...}
|
|
Docstring cache for the module, either cached one (regenerate=False)
|
|
or newly generated.
|
|
|
|
"""
|
|
global _lookfor_caches
|
|
# Local import to speed up numpy's import time.
|
|
import inspect
|
|
|
|
if sys.version_info[0] >= 3:
|
|
# In Python3 stderr, stdout are text files.
|
|
from io import StringIO
|
|
else:
|
|
from StringIO import StringIO
|
|
|
|
if module is None:
|
|
module = "numpy"
|
|
|
|
if isinstance(module, str):
|
|
try:
|
|
__import__(module)
|
|
except ImportError:
|
|
return {}
|
|
module = sys.modules[module]
|
|
elif isinstance(module, list) or isinstance(module, tuple):
|
|
cache = {}
|
|
for mod in module:
|
|
cache.update(_lookfor_generate_cache(mod, import_modules,
|
|
regenerate))
|
|
return cache
|
|
|
|
if id(module) in _lookfor_caches and not regenerate:
|
|
return _lookfor_caches[id(module)]
|
|
|
|
# walk items and collect docstrings
|
|
cache = {}
|
|
_lookfor_caches[id(module)] = cache
|
|
seen = {}
|
|
index = 0
|
|
stack = [(module.__name__, module)]
|
|
while stack:
|
|
name, item = stack.pop(0)
|
|
if id(item) in seen:
|
|
continue
|
|
seen[id(item)] = True
|
|
|
|
index += 1
|
|
kind = "object"
|
|
|
|
if inspect.ismodule(item):
|
|
kind = "module"
|
|
try:
|
|
_all = item.__all__
|
|
except AttributeError:
|
|
_all = None
|
|
|
|
# import sub-packages
|
|
if import_modules and hasattr(item, '__path__'):
|
|
for pth in item.__path__:
|
|
for mod_path in os.listdir(pth):
|
|
this_py = os.path.join(pth, mod_path)
|
|
init_py = os.path.join(pth, mod_path, '__init__.py')
|
|
if (os.path.isfile(this_py) and
|
|
mod_path.endswith('.py')):
|
|
to_import = mod_path[:-3]
|
|
elif os.path.isfile(init_py):
|
|
to_import = mod_path
|
|
else:
|
|
continue
|
|
if to_import == '__init__':
|
|
continue
|
|
|
|
try:
|
|
old_stdout = sys.stdout
|
|
old_stderr = sys.stderr
|
|
try:
|
|
sys.stdout = StringIO()
|
|
sys.stderr = StringIO()
|
|
__import__("%s.%s" % (name, to_import))
|
|
finally:
|
|
sys.stdout = old_stdout
|
|
sys.stderr = old_stderr
|
|
# Catch SystemExit, too
|
|
except BaseException:
|
|
continue
|
|
|
|
for n, v in _getmembers(item):
|
|
try:
|
|
item_name = getattr(v, '__name__', "%s.%s" % (name, n))
|
|
mod_name = getattr(v, '__module__', None)
|
|
except NameError:
|
|
# ref. SWIG's global cvars
|
|
# NameError: Unknown C global variable
|
|
item_name = "%s.%s" % (name, n)
|
|
mod_name = None
|
|
if '.' not in item_name and mod_name:
|
|
item_name = "%s.%s" % (mod_name, item_name)
|
|
|
|
if not item_name.startswith(name + '.'):
|
|
# don't crawl "foreign" objects
|
|
if isinstance(v, ufunc):
|
|
# ... unless they are ufuncs
|
|
pass
|
|
else:
|
|
continue
|
|
elif not (inspect.ismodule(v) or _all is None or n in _all):
|
|
continue
|
|
stack.append(("%s.%s" % (name, n), v))
|
|
elif inspect.isclass(item):
|
|
kind = "class"
|
|
for n, v in _getmembers(item):
|
|
stack.append(("%s.%s" % (name, n), v))
|
|
elif hasattr(item, "__call__"):
|
|
kind = "func"
|
|
|
|
try:
|
|
doc = inspect.getdoc(item)
|
|
except NameError:
|
|
# ref SWIG's NameError: Unknown C global variable
|
|
doc = None
|
|
if doc is not None:
|
|
cache[name] = (doc, kind, index)
|
|
|
|
return cache
|
|
|
|
def _getmembers(item):
|
|
import inspect
|
|
try:
|
|
members = inspect.getmembers(item)
|
|
except Exception:
|
|
members = [(x, getattr(item, x)) for x in dir(item)
|
|
if hasattr(item, x)]
|
|
return members
|
|
|
|
#-----------------------------------------------------------------------------
|
|
|
|
# The following SafeEval class and company are adapted from Michael Spencer's
|
|
# ASPN Python Cookbook recipe: https://code.activestate.com/recipes/364469/
|
|
#
|
|
# Accordingly it is mostly Copyright 2006 by Michael Spencer.
|
|
# The recipe, like most of the other ASPN Python Cookbook recipes was made
|
|
# available under the Python license.
|
|
# https://en.wikipedia.org/wiki/Python_License
|
|
|
|
# It has been modified to:
|
|
# * handle unary -/+
|
|
# * support True/False/None
|
|
# * raise SyntaxError instead of a custom exception.
|
|
|
|
class SafeEval(object):
|
|
"""
|
|
Object to evaluate constant string expressions.
|
|
|
|
This includes strings with lists, dicts and tuples using the abstract
|
|
syntax tree created by ``compiler.parse``.
|
|
|
|
.. deprecated:: 1.10.0
|
|
|
|
See Also
|
|
--------
|
|
safe_eval
|
|
|
|
"""
|
|
def __init__(self):
|
|
# 2014-10-15, 1.10
|
|
warnings.warn("SafeEval is deprecated in 1.10 and will be removed.",
|
|
DeprecationWarning, stacklevel=2)
|
|
|
|
def visit(self, node):
|
|
cls = node.__class__
|
|
meth = getattr(self, 'visit' + cls.__name__, self.default)
|
|
return meth(node)
|
|
|
|
def default(self, node):
|
|
raise SyntaxError("Unsupported source construct: %s"
|
|
% node.__class__)
|
|
|
|
def visitExpression(self, node):
|
|
return self.visit(node.body)
|
|
|
|
def visitNum(self, node):
|
|
return node.n
|
|
|
|
def visitStr(self, node):
|
|
return node.s
|
|
|
|
def visitBytes(self, node):
|
|
return node.s
|
|
|
|
def visitDict(self, node,**kw):
|
|
return dict([(self.visit(k), self.visit(v))
|
|
for k, v in zip(node.keys, node.values)])
|
|
|
|
def visitTuple(self, node):
|
|
return tuple([self.visit(i) for i in node.elts])
|
|
|
|
def visitList(self, node):
|
|
return [self.visit(i) for i in node.elts]
|
|
|
|
def visitUnaryOp(self, node):
|
|
import ast
|
|
if isinstance(node.op, ast.UAdd):
|
|
return +self.visit(node.operand)
|
|
elif isinstance(node.op, ast.USub):
|
|
return -self.visit(node.operand)
|
|
else:
|
|
raise SyntaxError("Unknown unary op: %r" % node.op)
|
|
|
|
def visitName(self, node):
|
|
if node.id == 'False':
|
|
return False
|
|
elif node.id == 'True':
|
|
return True
|
|
elif node.id == 'None':
|
|
return None
|
|
else:
|
|
raise SyntaxError("Unknown name: %s" % node.id)
|
|
|
|
def visitNameConstant(self, node):
|
|
return node.value
|
|
|
|
|
|
def safe_eval(source):
|
|
"""
|
|
Protected string evaluation.
|
|
|
|
Evaluate a string containing a Python literal expression without
|
|
allowing the execution of arbitrary non-literal code.
|
|
|
|
Parameters
|
|
----------
|
|
source : str
|
|
The string to evaluate.
|
|
|
|
Returns
|
|
-------
|
|
obj : object
|
|
The result of evaluating `source`.
|
|
|
|
Raises
|
|
------
|
|
SyntaxError
|
|
If the code has invalid Python syntax, or if it contains
|
|
non-literal code.
|
|
|
|
Examples
|
|
--------
|
|
>>> np.safe_eval('1')
|
|
1
|
|
>>> np.safe_eval('[1, 2, 3]')
|
|
[1, 2, 3]
|
|
>>> np.safe_eval('{"foo": ("bar", 10.0)}')
|
|
{'foo': ('bar', 10.0)}
|
|
|
|
>>> np.safe_eval('import os')
|
|
Traceback (most recent call last):
|
|
...
|
|
SyntaxError: invalid syntax
|
|
|
|
>>> np.safe_eval('open("/home/user/.ssh/id_dsa").read()')
|
|
Traceback (most recent call last):
|
|
...
|
|
ValueError: malformed node or string: <_ast.Call object at 0x...>
|
|
|
|
"""
|
|
# Local import to speed up numpy's import time.
|
|
import ast
|
|
return ast.literal_eval(source)
|
|
|
|
|
|
def _median_nancheck(data, result, axis, out):
|
|
"""
|
|
Utility function to check median result from data for NaN values at the end
|
|
and return NaN in that case. Input result can also be a MaskedArray.
|
|
|
|
Parameters
|
|
----------
|
|
data : array
|
|
Input data to median function
|
|
result : Array or MaskedArray
|
|
Result of median function
|
|
axis : {int, sequence of int, None}, optional
|
|
Axis or axes along which the median was computed.
|
|
out : ndarray, optional
|
|
Output array in which to place the result.
|
|
Returns
|
|
-------
|
|
median : scalar or ndarray
|
|
Median or NaN in axes which contained NaN in the input.
|
|
"""
|
|
if data.size == 0:
|
|
return result
|
|
data = np.moveaxis(data, axis, -1)
|
|
n = np.isnan(data[..., -1])
|
|
# masked NaN values are ok
|
|
if np.ma.isMaskedArray(n):
|
|
n = n.filled(False)
|
|
if result.ndim == 0:
|
|
if n == True:
|
|
if out is not None:
|
|
out[...] = data.dtype.type(np.nan)
|
|
result = out
|
|
else:
|
|
result = data.dtype.type(np.nan)
|
|
elif np.count_nonzero(n.ravel()) > 0:
|
|
result[n] = np.nan
|
|
return result
|
|
|
|
#-----------------------------------------------------------------------------
|