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#!/usr/bin/env python
# Copyright 2001 by Brad Chapman. All rights reserved.
# Revisions copyright 2011-2013 by Peter Cock. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
"""Test the Location code located in SeqFeature.py
This checks to be sure fuzzy and non-fuzzy representations of locations
are working properly.
"""
from __future__ import print_function
from Bio import SeqFeature
# --- test fuzzy representations
print("Testing fuzzy representations...")
# check the positions alone
exact_pos = SeqFeature.ExactPosition(5)
within_pos_s = SeqFeature.WithinPosition(10, left=10, right=13)
within_pos_e = SeqFeature.WithinPosition(13, left=10, right=13)
between_pos_e = SeqFeature.BetweenPosition(24, left=20, right=24)
before_pos = SeqFeature.BeforePosition(15)
after_pos = SeqFeature.AfterPosition(40)
print("Exact: %s" % exact_pos)
print("Within (as start, %i): %s" % (int(within_pos_s), within_pos_s))
print("Within (as end, %i): %s" % (int(within_pos_e), within_pos_e))
print("Between (as end, %i): %s" % (int(between_pos_e), between_pos_e))
print("Before: %s" % before_pos)
print("After: %s" % after_pos)
# put these into Locations
location1 = SeqFeature.FeatureLocation(exact_pos, within_pos_e)
location2 = SeqFeature.FeatureLocation(before_pos, between_pos_e)
location3 = SeqFeature.FeatureLocation(within_pos_s, after_pos)
for location in [location1, location2, location3]:
print("Location: %s" % location)
print(" Start: %s" % location.start)
print(" End : %s" % location.end)
# --- test non-fuzzy represenations
print("Testing non-fuzzy representations...")
for location in [location1, location2, location3]:
print("Location: %s" % location)
print(" Non-Fuzzy Start: %s" % location.nofuzzy_start)
print(" Non-Fuzzy End: %s" % location.nofuzzy_end)
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