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import unittest
import gfapy
class TestUnitOrientedLine(unittest.TestCase):
def test_init(self):
a = gfapy.OrientedLine("a","+")
# no validation on creation: (invalid orientation)
gfapy.OrientedLine("a","*")
# no validation on creation: (invalid line name)
gfapy.OrientedLine("a\ta","+")
b = gfapy.OrientedLine("a+")
self.assertEqual(a, b)
c = gfapy.OrientedLine(["a","+"])
self.assertEqual(a, c)
self.assertRaises(IndexError, gfapy.OrientedLine, [])
self.assertRaises(IndexError, gfapy.OrientedLine, ["a"])
# nothing raised, if too many args are provided (further are ignored)
gfapy.OrientedLine(["a", "+", 1])
def test_properties(self):
a = gfapy.OrientedLine("a", "+")
self.assertEqual("a", a.line)
self.assertEqual("+", a.orient)
self.assertEqual("a", a.name)
s = gfapy.Line("S\tb\t*\txx:Z:1.0")
a.line = s
self.assertEqual(s, a.line)
self.assertEqual("b", a.name)
self.assertEqual("+", a.orient)
a.orient = "-"
self.assertEqual(s, a.line)
self.assertEqual("-", a.orient)
def test_validate(self):
gfapy.OrientedLine("a","+").validate()
gfapy.OrientedLine(gfapy.Line("S\tb\t*\txx:Z:1.0"),
"-").validate()
self.assertRaises(gfapy.ValueError,
gfapy.OrientedLine("a","*").validate)
self.assertRaises(gfapy.TypeError,
gfapy.OrientedLine([],"+").validate)
self.assertRaises(gfapy.FormatError,
gfapy.OrientedLine("a\ta","+").validate)
def test_inverted(self):
os = gfapy.OrientedLine("a", "+")
inv_os = os.inverted()
self.assertEqual("a", inv_os.line)
self.assertEqual("+", os.orient)
self.assertEqual("-", inv_os.orient)
s = gfapy.Line("S\tb\t*\txx:Z:1.0")
os = gfapy.OrientedLine(s, "-")
inv_os = os.inverted()
self.assertEqual(s, inv_os.line)
self.assertEqual("-", os.orient)
self.assertEqual("+", inv_os.orient)
os = gfapy.OrientedLine("a", "*")
self.assertRaises(gfapy.ValueError, os.invert)
def test_str(self):
self.assertEqual("a-", str(gfapy.OrientedLine("a","-")))
s = gfapy.Line("S\tb\t*\txx:Z:1.0")
self.assertEqual("b+", str(gfapy.OrientedLine(s,"+")))
def test_equal(self):
a = gfapy.OrientedLine("a", "+")
b = gfapy.OrientedLine(gfapy.Line("S\ta\t*"), "+")
c = gfapy.OrientedLine("a", "-")
self.assertEqual(a, b)
self.assertNotEqual(a, c)
# line itself is not checked for equiv, only name:
b2 = gfapy.OrientedLine(gfapy.Line("S\ta\tCACAC"), "+")
self.assertEqual(b, b2)
# equivalence to string:
self.assertEqual("a+", a)
self.assertEqual("a+", b)
self.assertEqual(a, "a+")
self.assertEqual(b, "a+")
# equivalence to list:
self.assertEqual(a, ["a", "+"])
self.assertEqual(b, ["a", "+"])
self.assertEqual(["a", "+"], a)
self.assertEqual(["a", "+"], b)
def test_block(self):
a = gfapy.OrientedLine("a", "+")
a._block()
with self.assertRaises(gfapy.RuntimeError):
a.line = "b"
a._unblock()
a.line = "b"
def test_delegate_methods(self):
ol = gfapy.OrientedLine(gfapy.Line("S\ta\tCACAC"), "+")
self.assertEqual("CACAC", ol.sequence)
self.assertEqual("CACAC", ol.field_to_s("sequence"))
ol.set("xx", 1)
self.assertEqual("xx:i:1", ol.field_to_s("xx", True))
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