Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
ColourMenuHelperTest	32	102	16	1.0100%	Show methods

Class ColourMenuHelperTest

Class ColourMenuHelperTest	Line # 32	Total Statements 102	Complexity 16	TOTAL Coverage 1.0100%
setUp() : void   setUp() : void	3737	1.01	1.01	1.0 1.0100%
testAddMenuItems_peptide() : void   testAddMenuItems_peptide() : void	4343	31.031	5.05	1.0 1.0100%
testAddMenuItems_nucleotide() : void   testAddMenuItems_nucleotide() : void	108108	33.033	5.05	1.0 1.0100%
testAddMenuItems_simpleOnly() : void   testAddMenuItems_simpleOnly() : void	185185	16.016	3.03	1.0 1.0100%
testAddMenuItems_forAlignFrame() : void   testAddMenuItems_forAlignFrame() : void	223223	21.021	2.02	1.0 1.0100%

 

Contributing tests

Contributing tests

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	Test contribution	Test	Result	Actions
	0.3255814	jalview.gui.ColourMenuHelperTest.testAddMenuItems_nucleotidejalview.gui.ColourMenuHelperTest.testAddMenuItems_nucleotide	1PASS
	0.31007752	jalview.gui.ColourMenuHelperTest.testAddMenuItems_peptidejalview.gui.ColourMenuHelperTest.testAddMenuItems_peptide	1PASS
	0.18604651	jalview.gui.ColourMenuHelperTest.testAddMenuItems_forAlignFramejalview.gui.ColourMenuHelperTest.testAddMenuItems_forAlignFrame	1PASS
	0.1627907	jalview.gui.ColourMenuHelperTest.testAddMenuItems_simpleOnlyjalview.gui.ColourMenuHelperTest.testAddMenuItems_simpleOnly	1PASS

 

Source view

1		package jalview.gui;
2
3		import static org.testng.Assert.assertEquals;
4		import static org.testng.Assert.assertFalse;
5		import static org.testng.Assert.assertSame;
6		import static org.testng.Assert.assertTrue;
7
8		import jalview.bin.Cache;
9		import jalview.datamodel.Alignment;
10		import jalview.datamodel.AlignmentI;
11		import jalview.datamodel.Sequence;
12		import jalview.datamodel.SequenceI;
13		import jalview.schemes.ClustalxColourScheme;
14		import jalview.schemes.ColourSchemeI;
15		import jalview.schemes.ColourSchemes;
16		import jalview.schemes.NucleotideColourScheme;
17		import jalview.schemes.PIDColourScheme;
18		import jalview.schemes.ResidueColourScheme;
19		import jalview.util.MessageManager;
20
21		import java.util.Enumeration;
22		import java.util.Iterator;
23
24		import javax.swing.AbstractButton;
25		import javax.swing.ButtonGroup;
26		import javax.swing.JMenu;
27		import javax.swing.JMenuItem;
28
29		import org.testng.annotations.BeforeClass;
30		import org.testng.annotations.Test;
31
		100% Uncovered Elements: 0 (129) Complexity: 16 Complexity Density: 0.16
32		public class ColourMenuHelperTest
33		{
34		/**
35		* Use a properties file with a user-defined colour scheme
36		*/
		100% Uncovered Elements: 0 (1) Complexity: 1 Complexity Density: 1
37	1	@BeforeClass(alwaysRun = true)...
38		public void setUp()
39		{
40	1	Cache.loadProperties("test/jalview/io/testProps.jvprops");
41		}
42
		100% Uncovered Elements: 0 (39) Complexity: 5 Complexity Density: 0.16 1PASS
43	1	@Test(groups = "Functional")...
44		public void testAddMenuItems_peptide()
45		{
46	1	SequenceI s1 = new Sequence("s1", "KFRQSILM");
47	1	AlignmentI al = new Alignment(new SequenceI[] { s1 });
48	1	JMenu menu = new JMenu();
49
50	1	ButtonGroup bg = ColourMenuHelper.addMenuItems(menu, null, al, false);
51	1	Enumeration<AbstractButton> bgElements = bg.getElements();
52
53		/*
54		* first entry is 'No Colour' option
55		*/
56	1	JMenuItem item = menu.getItem(0);
57	1	assertEquals(item.getName(), ResidueColourScheme.NONE);
58	1	assertEquals(item.getText(), MessageManager.getString("label.none"));
59	1	AbstractButton bgItem = bgElements.nextElement();
60	1	assertSame(bgItem, item);
61
62		/*
63		* check that each registered colour scheme is in the menu,
64		* and in the button group;
65		* nucleotide-only schemes should be disabled menu items
66		*/
67	1	Iterator<ColourSchemeI> colourSchemes = ColourSchemes.getInstance()
68		.getColourSchemes().iterator();
69	1	final int items = menu.getItemCount();
70	16	for (int i = 1; i < items; i++)
71		{
72	15	item = menu.getItem(i);
73	15	bgItem = bgElements.nextElement();
74	15	assertSame(bgItem, item);
75	15	ColourSchemeI cs = colourSchemes.next();
76	15	String name = cs.getSchemeName();
77	15	assertEquals(item.getName(), name);
78	15	boolean enabled = item.isEnabled();
79	15	assertEquals(enabled, cs.isApplicableTo(al));
80	15	if (cs instanceof NucleotideColourScheme) // nucleotide only
81		{
82	1	assertFalse(enabled);
83		}
84	15	if (cs instanceof ClustalxColourScheme) // peptide only
85		{
86	1	assertTrue(enabled);
87		}
88	15	if (cs instanceof PIDColourScheme) // nucleotide or peptide
89		{
90	1	assertTrue(enabled);
91		}
92
93		/*
94		* check i18n for display name
95		*/
96	15	String label = MessageManager.getStringOrReturn("label.colourScheme_",
97		name);
98	15	assertEquals(item.getText(), label);
99		}
100
101		/*
102		* check nothing left over
103		*/
104	1	assertFalse(colourSchemes.hasNext());
105	1	assertFalse(bgElements.hasMoreElements());
106		}
107
		100% Uncovered Elements: 0 (41) Complexity: 5 Complexity Density: 0.15 1PASS
108	1	@Test(groups = "Functional")...
109		public void testAddMenuItems_nucleotide()
110		{
111	1	SequenceI s1 = new Sequence("s1", "GAATAATCCATAACAG");
112	1	AlignmentI al = new Alignment(new SequenceI[] { s1 });
113	1	JMenu menu = new JMenu();
114	1	AlignFrame af = new AlignFrame(al, 500, 500);
115
116		/*
117		* menu for SequenceGroup excludes 'User Defined Colour'
118		*/
119	1	PopupMenu popup = new PopupMenu(af.alignPanel, s1, null);
120	1	ButtonGroup bg = ColourMenuHelper.addMenuItems(menu, popup, al, false);
121	1	Enumeration<AbstractButton> bgElements = bg.getElements();
122
123		/*
124		* first entry is 'No Colour' option
125		*/
126	1	JMenuItem item = menu.getItem(0);
127	1	assertEquals(item.getName(), ResidueColourScheme.NONE);
128	1	assertEquals(item.getText(), MessageManager.getString("label.none"));
129	1	AbstractButton bgItem = bgElements.nextElement();
130	1	assertSame(bgItem, item);
131
132		/*
133		* check that each registered colour scheme is in the menu,
134		* and in the button group;
135		* nucleotide-only schemes should be disabled menu items
136		*/
137	1	Iterator<ColourSchemeI> colourSchemes = ColourSchemes.getInstance()
138		.getColourSchemes().iterator();
139	1	final int items = menu.getItemCount();
140	16	for (int i = 1; i < items; i++)
141		{
142	15	item = menu.getItem(i);
143	15	bgItem = bgElements.nextElement();
144	15	assertSame(bgItem, item);
145	15	ColourSchemeI cs = colourSchemes.next();
146	15	String name = cs.getSchemeName();
147	15	assertEquals(item.getName(), name);
148	15	boolean enabled = item.isEnabled();
149	15	assertEquals(enabled, cs.isApplicableTo(al));
150	15	if (cs instanceof NucleotideColourScheme) // nucleotide only
151		{
152	1	assertTrue(enabled);
153		}
154	15	if (cs instanceof ClustalxColourScheme) // peptide only
155		{
156	1	assertFalse(enabled);
157		}
158	15	if (cs instanceof PIDColourScheme) // nucleotide or peptide
159		{
160	1	assertTrue(enabled);
161		}
162
163		/*
164		* check i18n for display name
165		*/
166	15	String label = MessageManager.getStringOrReturn("label.colourScheme_",
167		name);
168	15	assertEquals(item.getText(), label);
169		}
170
171		/*
172		* check nothing left over
173		*/
174	1	assertFalse(colourSchemes.hasNext());
175	1	assertFalse(bgElements.hasMoreElements());
176		}
177
178		/**
179		* 'Simple only' mode constructs colour menu for structures
180		* <ul>
181		* <li>no 'No Colour' option</li>
182		* <li>only simple colour schemes (colour per residue)</li>
183		* </ul>
184		*/
		100% Uncovered Elements: 0 (20) Complexity: 3 Complexity Density: 0.19 1PASS
185	1	@Test(groups = "Functional")...
186		public void testAddMenuItems_simpleOnly()
187		{
188	1	SequenceI s1 = new Sequence("s1", "KFRQSILM");
189	1	AlignmentI al = new Alignment(new SequenceI[] { s1 });
190	1	JMenu menu = new JMenu();
191
192	1	ButtonGroup bg = ColourMenuHelper.addMenuItems(menu, null, al, true);
193	1	Enumeration<AbstractButton> bgElements = bg.getElements();
194
195		/*
196		* check that only 'simple' colour schemes are included
197		*/
198	1	Iterator<ColourSchemeI> colourSchemes = ColourSchemes.getInstance()
199		.getColourSchemes().iterator();
200	1	int i = 0;
201	16	while (colourSchemes.hasNext())
202		{
203	15	ColourSchemeI cs = colourSchemes.next();
204	15	if (!cs.isSimple())
205		{
206	6	continue;
207		}
208	9	JMenuItem item = menu.getItem(i++);
209	9	AbstractButton bgItem = bgElements.nextElement();
210	9	assertSame(bgItem, item);
211		}
212
213		/*
214		* check nothing left over
215		*/
216	1	assertEquals(i, menu.getItemCount());
217	1	assertFalse(bgElements.hasMoreElements());
218		}
219
220		/*
221		* menu for AlignFrame includes 'User Defined Colour'
222		*/
		100% Uncovered Elements: 0 (23) Complexity: 2 Complexity Density: 0.1 1PASS
223	1	@Test(groups = "Functional")...
224		public void testAddMenuItems_forAlignFrame()
225		{
226	1	SequenceI s1 = new Sequence("s1", "KFRQSILM");
227	1	AlignmentI al = new Alignment(new SequenceI[] { s1 });
228	1	AlignFrame af = new AlignFrame(al, 500, 500);
229	1	JMenu menu = new JMenu();
230
231	1	ButtonGroup bg = ColourMenuHelper.addMenuItems(menu, af, al, false);
232	1	Enumeration<AbstractButton> bgElements = bg.getElements();
233
234		/*
235		* check that each registered colour scheme is in the menu,
236		* (skipping over No Colour which is the first menu item),
237		* and in the button group
238		*/
239	1	bgElements.nextElement(); // skip No Colour
240	1	Iterator<ColourSchemeI> colourSchemes = ColourSchemes.getInstance()
241		.getColourSchemes().iterator();
242	1	final int items = menu.getItemCount();
243	16	for (int i = 1; i < items - 1; i++)
244		{
245	15	JMenuItem item = menu.getItem(i);
246	15	AbstractButton bgItem = bgElements.nextElement();
247	15	assertSame(bgItem, item);
248	15	ColourSchemeI cs = colourSchemes.next();
249	15	assertEquals(item.getName(), cs.getSchemeName());
250		}
251
252		/*
253		* check menu also has User Defined Colour
254		*/
255	1	assertFalse(colourSchemes.hasNext());
256	1	JMenuItem item = menu.getItem(items - 1);
257	1	AbstractButton bgItem = bgElements.nextElement();
258	1	assertSame(bgItem, item);
259	1	assertEquals(item.getName(), ResidueColourScheme.USER_DEFINED_MENU);
260	1	assertEquals(item.getText(),
261		MessageManager.getString("action.user_defined"));
262		}
263		}