From 57c55d0f84cf08e76cc0dded113a9dc7ecab35b2 Mon Sep 17 00:00:00 2001
From: "Jeroen F.J. Laros" <jlaros@fixedpoint.nl>
Date: Sun, 19 Apr 2015 14:03:19 +0200
Subject: [PATCH] PEP8.
---
tests/test_describe.py | 77 ++++++++++++++++++++++++++----------------
1 file changed, 47 insertions(+), 30 deletions(-)
diff --git a/tests/test_describe.py b/tests/test_describe.py
index c65e57a5..484d824d 100644
--- a/tests/test_describe.py
+++ b/tests/test_describe.py
@@ -18,12 +18,11 @@ class TestDescribe(MutalyzerTest):
"""
Test the mutalyzer.describe module.
"""
-
def _single_variant(self, sample, expected):
"""
General single variant test.
"""
- reference = "ACGTCGATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT"
+ reference = 'ACGTCGATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT'
result = describe.describe_dna(reference, sample)
assert result[0].type == expected[0]
@@ -35,6 +34,7 @@ class TestDescribe(MutalyzerTest):
assert result[0].inserted[0].sequence == expected[6]
assert unicode(result[0]) == expected[7]
+
def test1(self):
"""
Test 1.
@@ -44,6 +44,7 @@ class TestDescribe(MutalyzerTest):
'ATGATTTGATCAGATACATGTGATACCGGTAGTTAGGACAA')
assert unicode(result) == '[5_6insTT;17del;26A>C;35dup]'
+
def test2(self):
"""
Test 2.
@@ -53,6 +54,7 @@ class TestDescribe(MutalyzerTest):
'TAAGCACCAGGAGTCCATGAAGAAGCTGGATCCTCCCATGGAATCCCCTACTCTACTGTG')
assert unicode(result) == '[26A>C;30C>A;35G>C]'
+
def test3(self):
"""
Test 3.
@@ -62,6 +64,7 @@ class TestDescribe(MutalyzerTest):
'TAAGCACCAGGAGTCCATGAAGAAGCCATGTCCTGCCATGGAATCCCCTACTCTA')
assert unicode(result) == '[26_29inv;30C>G]'
+
def test4(self):
"""
Test 4.
@@ -71,100 +74,114 @@ class TestDescribe(MutalyzerTest):
'TAAGCACCAGGAGTCCATGAAGAAGCCATGTCCTGCCATGAATCCCCTACTCTA')
assert unicode(result) == '[26_29inv;30C>G;41del]'
+
def test5(self):
"""
Test 5.
"""
- self._single_variant("ACGTCGATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT",
- ("none", 0, 0, 0, 0, "", "", "="))
+ self._single_variant('ACGTCGATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT',
+ ('none', 0, 0, 0, 0, '', '', '='))
+
def test6(self):
"""
Test 6.
"""
- self._single_variant("ACGTCGGTTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT",
- ("subst", 7, 7, 7, 7, "A", "G", "7A>G"))
+ self._single_variant('ACGTCGGTTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT',
+ ('subst', 7, 7, 7, 7, 'A', 'G', '7A>G'))
+
def test7(self):
"""
Test 7.
"""
- self._single_variant("ACGTCGTTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT",
- ("del", 7, 7, 6, 7, "A", "", "7del"))
+ self._single_variant('ACGTCGTTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT',
+ ('del', 7, 7, 6, 7, 'A', '', '7del'))
+
def test8(self):
"""
Test 8.
"""
- self._single_variant("ACGTCGTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT",
- ("del", 7, 8, 6, 7, "AT", "", "7_8del"))
+ self._single_variant('ACGTCGTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT',
+ ('del', 7, 8, 6, 7, 'AT', '', '7_8del'))
+
def test9(self):
"""
Test 9.
"""
- self._single_variant("ACGTCGCATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT",
- ("ins", 6, 7, 7, 7, "", "C", "6_7insC"))
+ self._single_variant('ACGTCGCATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT',
+ ('ins', 6, 7, 7, 7, '', 'C', '6_7insC'))
+
def test10(self):
"""
Test 10.
"""
- self._single_variant("ACGTCGCCATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT",
- ("ins", 6, 7, 7, 8, "", "CC", "6_7insCC"))
+ self._single_variant('ACGTCGCCATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT',
+ ('ins', 6, 7, 7, 8, '', 'CC', '6_7insCC'))
+
def test11(self):
"""
Test 11.
"""
- self._single_variant("ACGTCGAATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT",
- ("dup", 7, 7, 8, 8, "", "A", "7dup"))
+ self._single_variant('ACGTCGAATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT',
+ ('dup', 7, 7, 8, 8, '', 'A', '7dup'))
+
def test12(self):
"""
Test 12.
"""
- self._single_variant("ACGTCGAGATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT",
- ("dup", 6, 7, 8, 9, "", "GA", "6_7dup"))
+ self._single_variant('ACGTCGAGATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT',
+ ('dup', 6, 7, 8, 9, '', 'GA', '6_7dup'))
+
def test13(self):
"""
Test 13.
"""
- self._single_variant("ACGTCGACGATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT",
- ("dup", 5, 7, 8, 10, "", "CGA", "5_7dup"))
+ self._single_variant('ACGTCGACGATTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT',
+ ('dup', 5, 7, 8, 10, '', 'CGA', '5_7dup'))
+
def test14(self):
"""
Test 14.
"""
- self._single_variant("ACGTCGCGAATCTAGCTTCGGGGGATAGATAGAGATATAGAGAT",
- ("inv", 7, 11, 7, 11, "ATTCG", "CGAAT", "7_11inv"))
+ self._single_variant('ACGTCGCGAATCTAGCTTCGGGGGATAGATAGAGATATAGAGAT',
+ ('inv', 7, 11, 7, 11, 'ATTCG', 'CGAAT', '7_11inv'))
+
def test15(self):
"""
Test 15.
"""
- self._single_variant("ACGTCGCCTTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT",
- ("delins", 7, 7, 7, 8, "A", "CC", "7delinsCC"))
+ self._single_variant('ACGTCGCCTTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT',
+ ('delins', 7, 7, 7, 8, 'A', 'CC', '7delinsCC'))
+
def test16(self):
"""
Test 16.
"""
- self._single_variant("ACGTCGATTCGCTAGCTTCGTTTTGATAGATAGAGATATAGAGAT",
- ("delins", 21, 23, 21, 24, "GGG", "TTTT", "21_23delinsTTTT"))
+ self._single_variant('ACGTCGATTCGCTAGCTTCGTTTTGATAGATAGAGATATAGAGAT',
+ ('delins', 21, 23, 21, 24, 'GGG', 'TTTT', '21_23delinsTTTT'))
+
def test17(self):
"""
Test 17.
"""
- self._single_variant("ACGTCTCTTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT",
- ("inv", 6, 7, 6, 7, "GA", "TC", "6_7inv"))
+ self._single_variant('ACGTCTCTTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT',
+ ('inv', 6, 7, 6, 7, 'GA', 'TC', '6_7inv'))
+
def test18(self):
"""
Test 18.
"""
- self._single_variant("ACGTCGTCTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT",
- ("delins", 7, 8, 7, 8, "AT", "TC", "7_8delinsTC"))
+ self._single_variant('ACGTCGTCTCGCTAGCTTCGGGGGATAGATAGAGATATAGAGAT',
+ ('delins', 7, 8, 7, 8, 'AT', 'TC', '7_8delinsTC'))
--
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