gl-smartsort
A tiny Python package that canonicalizes GL Strings by smart sorting:
- recursively sorts within delimiter levels in precedence:
^,|,+,~,/ - orders blocks by gene/locus (left of
*) - orders alleles numerically (not lexically) within a locus (e.g.,
A*01:11beforeA*01:103) - strips suffixes for numeric comparison (e.g.,
01:01Ncompares as01:01)
This is a Python port of SmartSort.pm (2012-11-14).
Install (local)
From the project directory:
python -m pip install -U pip
python -m pip install -e .
Usage (Python)
from gl_smartsort import smart_sort
print(smart_sort("A*01:103+A*01:11"))
# A*01:11+A*01:103
Usage (CLI)
Sort a single GL string:
gl-smartsort "B*07:02^A*02:01"
Or sort from stdin (one per line):
cat gl.txt | gl-smartsort
Provenance
This package is a Python port of the original Perl implementation
SmartSort.pm (2012-11-14), authored by Martin J. Maiers. Both the original
Perl implementation and this Python port were written by the same author. The
implementation relies only on the Python standard library and incorporates no
third-party source code.
License
Licensed under the Apache License, Version 2.0 (Apache-2.0). See the LICENSE and NOTICE files for details.
Copyright 2012 Martin J. Maiers and National Marrow Donor Program (NMDP).
1 maintainer
Metadata
1 maintainer
Release files for gl-smartsort 0.1.2
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