affinegap

A Cython implementation of the affine gap penalty string distance also known as the Smith–Waterman algorithm

Part of the Dedupe.io cloud service and open source toolset for de-duplicating and finding fuzzy matches in your data.

To install

pip install affinegap

To use

import affinegap
d1 = affinegap.affineGapDistance('foo', 'bar')
d2 = affinegap.affineGapDistance('foo', 'bar',
                                 matchWeight = 1,
                                 mismatchWeight = 11,
                                 gapWeight = 10,
                                 spaceWeight = 7,
                                 abbreviation_scale = .125)
d3 = affinegap.normalizedAffineGapDistance('foo', 'bar')

To get set up for development

git clone https://github.com/dedupeio/affinegap.git
cd affinegap
pip install -r requirements.txt
cython affinegap/*.pyx
python setup.py develop
pytest

Team

• Forest Gregg, Dedupeio

Errors and Bugs

If something is not behaving intuitively, it is a bug and should be reported. Report it here by creating an issue: https://github.com/dedupeio/affinegap/issues

Help us fix the problem as quickly as possible by following Mozilla's guidelines for reporting bugs.

Patches and Pull Requests

Your patches are welcome. Here's our suggested workflow:

• Fork the project.
• Make your feature addition or bug fix.
• Send us a pull request with a description of your work. Bonus points for topic branches!

Copyright and Attribution

Copyright (c) 2016 Forest Gregg and Dedupeio. Released under the MIT License.