# Copyright 2018-2020 by Christopher C. Little.
# This file is part of Abydos.
#
# Abydos is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# Abydos is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with Abydos. If not, see <http://www.gnu.org/licenses/>.
"""abydos.distance._gini_ii.
Gini II correlation
"""
from sys import float_info
from ._token_distance import _TokenDistance
__all__ = ['GiniII']
_epsilon = float_info.epsilon
[docs]class GiniII(_TokenDistance):
r"""Gini II distance.
For two sets X and Y and a population N, Gini II correlation
:cite:`Gini:1915`, using the formula from :cite:`Goodman:1959`, is
.. math::
corr_{GiniII}(X, Y) =
\frac{\frac{|X \cap Y| + |(N \setminus X) \setminus Y|}{|N|} -
(\frac{|X| \cdot |Y|}{|N|} +
\frac{|N \setminus Y| \cdot |N \setminus X|}{|N|})}
{1 - |\frac{|Y \setminus X| - |X \setminus Y|}{|N|}|
- (\frac{|X| \cdot |Y|}{|N|} +
\frac{|N \setminus Y| \cdot |N \setminus X|}{|N|})}
In :ref:`2x2 confusion table terms <confusion_table>`, where a+b+c+d=n,
after each term has been converted to a proportion by dividing by n, this
is
.. math::
corr_{GiniII} =
\frac{(a+d) - ((a+b)(a+c) + (b+d)(c+d))}
{1 - |b-c| - ((a+b)(a+c) + (b+d)(c+d))}
.. versionadded:: 0.4.0
"""
def __init__(
self,
alphabet=None,
tokenizer=None,
intersection_type='crisp',
normalizer='proportional',
**kwargs
):
"""Initialize GiniII instance.
Parameters
----------
alphabet : Counter, collection, int, or None
This represents the alphabet of possible tokens.
See :ref:`alphabet <alphabet>` description in
:py:class:`_TokenDistance` for details.
tokenizer : _Tokenizer
A tokenizer instance from the :py:mod:`abydos.tokenizer` package
intersection_type : str
Specifies the intersection type, and set type as a result:
See :ref:`intersection_type <intersection_type>` description in
:py:class:`_TokenDistance` for details.
normalizer : str
Specifies the normalization type. See :ref:`normalizer <alphabet>`
description in :py:class:`_TokenDistance` for details.
**kwargs
Arbitrary keyword arguments
Other Parameters
----------------
qval : int
The length of each q-gram. Using this parameter and tokenizer=None
will cause the instance to use the QGram tokenizer with this
q value.
metric : _Distance
A string distance measure class for use in the ``soft`` and
``fuzzy`` variants.
threshold : float
A threshold value, similarities above which are counted as
members of the intersection for the ``fuzzy`` variant.
.. versionadded:: 0.4.0
"""
super(GiniII, self).__init__(
alphabet=alphabet,
tokenizer=tokenizer,
intersection_type=intersection_type,
normalizer=normalizer,
**kwargs
)
[docs] def corr(self, src, tar):
"""Return the Gini II correlation of two strings.
Parameters
----------
src : str
Source string (or QGrams/Counter objects) for comparison
tar : str
Target string (or QGrams/Counter objects) for comparison
Returns
-------
float
Gini II correlation
Examples
--------
>>> cmp = GiniII()
>>> cmp.corr('cat', 'hat')
0.49722814498933254
>>> cmp.corr('Niall', 'Neil')
0.4240703425535771
>>> cmp.corr('aluminum', 'Catalan')
0.15701415701415936
>>> cmp.corr('ATCG', 'TAGC')
-0.006418485237489576
.. versionadded:: 0.4.0
"""
self._tokenize(src, tar)
a = self._intersection_card()
b = self._src_only_card()
c = self._tar_only_card()
d = self._total_complement_card()
return ((a + d) - ((a + b) * (a + c) + (c + d) * (b + d))) / (
(
1
+ _epsilon
- abs(b - c)
- ((a + b) * (a + c) + (c + d) * (b + d))
)
)
[docs] def sim(self, src, tar):
"""Return the normalized Gini II similarity of two strings.
Parameters
----------
src : str
Source string (or QGrams/Counter objects) for comparison
tar : str
Target string (or QGrams/Counter objects) for comparison
Returns
-------
float
Normalized Gini II similarity
Examples
--------
>>> cmp = GiniII()
>>> cmp.sim('cat', 'hat')
0.7486140724946663
>>> cmp.sim('Niall', 'Neil')
0.7120351712767885
>>> cmp.sim('aluminum', 'Catalan')
0.5785070785070797
>>> cmp.sim('ATCG', 'TAGC')
0.4967907573812552
.. versionadded:: 0.4.0
"""
return (1.0 + self.corr(src, tar)) / 2.0
if __name__ == '__main__':
import doctest
doctest.testmod()