Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
ShiftListTest	34	49	4	1.0100%	Show methods

Class ShiftListTest

Class ShiftListTest	Line # 34	Total Statements 49	Complexity 4	TOTAL Coverage 1.0100%
setUpJvOptionPane() : void   setUpJvOptionPane() : void	3737	2.02	1.01	1.0 1.0100%
testParseMap() : void   testParseMap() : void	4444	9.09	1.01	1.0 1.0100%
testaddShiftOperations() : void   testaddShiftOperations() : void	6363	11.011	1.01	1.0 1.0100%
testaddExtendShiftOperations() : void   testaddExtendShiftOperations() : void	7777	27.027	1.01	1.0 1.0100%

 

Contributing tests

Contributing tests

Select all

	Test contribution	Test	Result	Actions
	0.5283019	jalview.util.ShiftListTest.testaddExtendShiftOperationsjalview.util.ShiftListTest.testaddExtendShiftOperations	1PASS
	0.2264151	jalview.util.ShiftListTest.testaddShiftOperationsjalview.util.ShiftListTest.testaddShiftOperations	1PASS
	0.18867925	jalview.util.ShiftListTest.testParseMapjalview.util.ShiftListTest.testParseMap	1PASS

 

Source view

1		/*
2		* Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
3		* Copyright (C) $$Year-Rel$$ The Jalview Authors
4		*
5		* This file is part of Jalview.
6		*
7		* Jalview is free software: you can redistribute it and/or
8		* modify it under the terms of the GNU General Public License
9		* as published by the Free Software Foundation, either version 3
10		* of the License, or (at your option) any later version.
11		*
12		* Jalview is distributed in the hope that it will be useful, but
13		* WITHOUT ANY WARRANTY; without even the implied warranty
14		* of MERCHANTABILITY or FITNESS FOR A PARTICULAR
15		* PURPOSE. See the GNU General Public License for more details.
16		*
17		* You should have received a copy of the GNU General Public License
18		* along with Jalview. If not, see <http://www.gnu.org/licenses/>.
19		* The Jalview Authors are detailed in the 'AUTHORS' file.
20		*/
21		package jalview.util;
22
23		import static org.testng.AssertJUnit.assertEquals;
24		import static org.testng.AssertJUnit.assertNull;
25
26		import jalview.gui.JvOptionPane;
27
28		import java.util.Arrays;
29		import java.util.List;
30
31		import org.testng.annotations.BeforeClass;
32		import org.testng.annotations.Test;
33
		100% Uncovered Elements: 0 (53) Complexity: 4 Complexity Density: 0.08
34		public class ShiftListTest
35		{
36
		100% Uncovered Elements: 0 (2) Complexity: 1 Complexity Density: 0.5
37	1	@BeforeClass(alwaysRun = true)...
38		public void setUpJvOptionPane()
39		{
40	1	JvOptionPane.setInteractiveMode(false);
41	1	JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
42		}
43
		100% Uncovered Elements: 0 (9) Complexity: 1 Complexity Density: 0.11 1PASS
44	1	@Test(groups = { "Functional" })...
45		public void testParseMap()
46		{
47	1	assertNull(ShiftList.parseMap(null));
48	1	assertNull(ShiftList.parseMap(new int[] {}));
49
50		/*
51		* Gap map showing residues in aligned positions 2,3,6,8,9,10,12
52		*/
53	1	int[] gm = new int[] { 2, 3, 6, 8, 9, 10, 12 };
54	1	List<int[]> shifts = ShiftList.parseMap(gm).getShifts();
55	1	assertEquals(4, shifts.size());
56
57		// TODO are these results (which pass) correct??
58	1	assertEquals("[0, 2]", Arrays.toString(shifts.get(0)));
59	1	assertEquals("[4, 2]", Arrays.toString(shifts.get(1)));
60	1	assertEquals("[7, 1]", Arrays.toString(shifts.get(2)));
61	1	assertEquals("[11, 1]", Arrays.toString(shifts.get(3)));
62		}
		100% Uncovered Elements: 0 (11) Complexity: 1 Complexity Density: 0.09 1PASS
63	1	@Test(groups = { "Functional" })...
64		public void testaddShiftOperations() {
65	1	ShiftList sl = new ShiftList();
66	1	assertEquals(0,sl.shift(0));
67	1	sl.addShift(0, 0);
68	1	assertEquals(0,sl.shift(0));
69	1	sl.addShift(0, 1);
70	1	assertEquals(1,sl.shift(0));
71	1	assertEquals(2,sl.shift(1));
72	1	sl.addShift(2, 2);
73	1	assertEquals(1,sl.shift(0));
74	1	assertEquals(2,sl.shift(1)); // (0+1)
75	1	assertEquals(5,sl.shift(2)); // (0+1)(2+2): 1+2+2->5
76		}
		100% Uncovered Elements: 0 (27) Complexity: 1 Complexity Density: 0.04 1PASS
77	1	@Test(groups = { "Functional" })...
78		public void testaddExtendShiftOperations() {
79	1	ShiftList sl = new ShiftList();
80	1	assertEquals(0,sl.shift(0));
81	1	sl.extendShift(0, 0);
82	1	assertEquals(0,sl.shift(0));
83	1	sl.extendShift(0, 1);
84	1	assertEquals(1,sl.shift(0));
85	1	assertEquals(2,sl.shift(1));
86	1	sl.extendShift(2, 2);
87	1	assertEquals(1,sl.shift(0));
88	1	assertEquals(2,sl.shift(1)); // (0+1)
89	1	assertEquals(5,sl.shift(2)); // (0+1)(2+2): 1+2+2->5
90
91		// now check extend really does
92	1	sl.extendShift(2, 1);
93	1	assertEquals(1,sl.shift(0));
94	1	assertEquals(2,sl.shift(1)); // (0+1)
95	1	assertEquals(5,sl.shift(2)); // (0+1)(2+2): 1+2+2->5
96
97	1	sl.extendShift(2, 3);
98	1	assertEquals(1,sl.shift(0));
99	1	assertEquals(2,sl.shift(1)); // (0+1)
100	1	assertEquals(6,sl.shift(2)); // (0+1)(2+2): 1+2+2->5
101
102		// and two interssecting shifts
103	1	sl = new ShiftList();
104	1	sl.extendShift(0, 5);
105	1	sl.extendShift(5, 3);
106	1	sl.extendShift(1, 6);
107	1	sl.extendShift(3, 1);
108	1	sl.extendShift(1, 7);
109
110	1	List<int[]> shifts = sl.getShifts();
111	1	assertEquals(4,shifts.size());
112		}
113		}