Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
ColourMenuHelperTest	52	102	16	1.0100%	Show methods

Class ColourMenuHelperTest

Class ColourMenuHelperTest	Line # 52	Total Statements 102	Complexity 16	TOTAL Coverage 1.0100%
setUp() : void   setUp() : void	5757	1.01	1.01	1.0 1.0100%
testAddMenuItems_peptide() : void   testAddMenuItems_peptide() : void	6363	31.031	5.05	1.0 1.0100%
testAddMenuItems_nucleotide() : void   testAddMenuItems_nucleotide() : void	128128	33.033	5.05	1.0 1.0100%
testAddMenuItems_simpleOnly() : void   testAddMenuItems_simpleOnly() : void	205205	16.016	3.03	1.0 1.0100%
testAddMenuItems_forAlignFrame() : void   testAddMenuItems_forAlignFrame() : void	243243	21.021	2.02	1.0 1.0100%

 

Contributing tests

Contributing tests

Select all

	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		/*
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.gui;
22
23		import static org.testng.Assert.assertEquals;
24		import static org.testng.Assert.assertFalse;
25		import static org.testng.Assert.assertSame;
26		import static org.testng.Assert.assertTrue;
27
28		import jalview.bin.Cache;
29		import jalview.datamodel.Alignment;
30		import jalview.datamodel.AlignmentI;
31		import jalview.datamodel.Sequence;
32		import jalview.datamodel.SequenceI;
33		import jalview.schemes.ClustalxColourScheme;
34		import jalview.schemes.ColourSchemeI;
35		import jalview.schemes.ColourSchemes;
36		import jalview.schemes.NucleotideColourScheme;
37		import jalview.schemes.PIDColourScheme;
38		import jalview.schemes.ResidueColourScheme;
39		import jalview.util.MessageManager;
40
41		import java.util.Enumeration;
42		import java.util.Iterator;
43
44		import javax.swing.AbstractButton;
45		import javax.swing.ButtonGroup;
46		import javax.swing.JMenu;
47		import javax.swing.JMenuItem;
48
49		import org.testng.annotations.BeforeClass;
50		import org.testng.annotations.Test;
51
		100% Uncovered Elements: 0 (129) Complexity: 16 Complexity Density: 0.16
52		public class ColourMenuHelperTest
53		{
54		/**
55		* Use a properties file with a user-defined colour scheme
56		*/
		100% Uncovered Elements: 0 (1) Complexity: 1 Complexity Density: 1
57	1	@BeforeClass(alwaysRun = true)...
58		public void setUp()
59		{
60	1	Cache.loadProperties("test/jalview/io/testProps.jvprops");
61		}
62
		100% Uncovered Elements: 0 (39) Complexity: 5 Complexity Density: 0.16 1PASS
63	1	@Test(groups = "Functional")...
64		public void testAddMenuItems_peptide()
65		{
66	1	SequenceI s1 = new Sequence("s1", "KFRQSILM");
67	1	AlignmentI al = new Alignment(new SequenceI[] { s1 });
68	1	JMenu menu = new JMenu();
69
70	1	ButtonGroup bg = ColourMenuHelper.addMenuItems(menu, null, al, false);
71	1	Enumeration<AbstractButton> bgElements = bg.getElements();
72
73		/*
74		* first entry is 'No Colour' option
75		*/
76	1	JMenuItem item = menu.getItem(0);
77	1	assertEquals(item.getName(), ResidueColourScheme.NONE);
78	1	assertEquals(item.getText(), MessageManager.getString("label.none"));
79	1	AbstractButton bgItem = bgElements.nextElement();
80	1	assertSame(bgItem, item);
81
82		/*
83		* check that each registered colour scheme is in the menu,
84		* and in the button group;
85		* nucleotide-only schemes should be disabled menu items
86		*/
87	1	Iterator<ColourSchemeI> colourSchemes = ColourSchemes.getInstance()
88		.getColourSchemes().iterator();
89	1	final int items = menu.getItemCount();
90	21	for (int i = 1; i < items; i++)
91		{
92	20	item = menu.getItem(i);
93	20	bgItem = bgElements.nextElement();
94	20	assertSame(bgItem, item);
95	20	ColourSchemeI cs = colourSchemes.next();
96	20	String name = cs.getSchemeName();
97	20	assertEquals(item.getName(), name);
98	20	boolean enabled = item.isEnabled();
99	20	assertEquals(enabled, cs.isApplicableTo(al));
100	20	if (cs instanceof NucleotideColourScheme) // nucleotide only
101		{
102	1	assertFalse(enabled);
103		}
104	20	if (cs instanceof ClustalxColourScheme) // peptide only
105		{
106	1	assertTrue(enabled);
107		}
108	20	if (cs instanceof PIDColourScheme) // nucleotide or peptide
109		{
110	1	assertTrue(enabled);
111		}
112
113		/*
114		* check i18n for display name
115		*/
116	20	String label = MessageManager.getStringOrReturn("label.colourScheme_",
117		name);
118	20	assertEquals(item.getText(), label);
119		}
120
121		/*
122		* check nothing left over
123		*/
124	1	assertFalse(colourSchemes.hasNext());
125	1	assertFalse(bgElements.hasMoreElements());
126		}
127
		100% Uncovered Elements: 0 (41) Complexity: 5 Complexity Density: 0.15 1PASS
128	1	@Test(groups = "Functional")...
129		public void testAddMenuItems_nucleotide()
130		{
131	1	SequenceI s1 = new Sequence("s1", "GAATAATCCATAACAG");
132	1	AlignmentI al = new Alignment(new SequenceI[] { s1 });
133	1	JMenu menu = new JMenu();
134	1	AlignFrame af = new AlignFrame(al, 500, 500);
135
136		/*
137		* menu for SequenceGroup excludes 'User Defined Colour'
138		*/
139	1	PopupMenu popup = new PopupMenu(af.alignPanel, s1, null);
140	1	ButtonGroup bg = ColourMenuHelper.addMenuItems(menu, popup, al, false);
141	1	Enumeration<AbstractButton> bgElements = bg.getElements();
142
143		/*
144		* first entry is 'No Colour' option
145		*/
146	1	JMenuItem item = menu.getItem(0);
147	1	assertEquals(item.getName(), ResidueColourScheme.NONE);
148	1	assertEquals(item.getText(), MessageManager.getString("label.none"));
149	1	AbstractButton bgItem = bgElements.nextElement();
150	1	assertSame(bgItem, item);
151
152		/*
153		* check that each registered colour scheme is in the menu,
154		* and in the button group;
155		* nucleotide-only schemes should be disabled menu items
156		*/
157	1	Iterator<ColourSchemeI> colourSchemes = ColourSchemes.getInstance()
158		.getColourSchemes().iterator();
159	1	final int items = menu.getItemCount();
160	21	for (int i = 1; i < items; i++)
161		{
162	20	item = menu.getItem(i);
163	20	bgItem = bgElements.nextElement();
164	20	assertSame(bgItem, item);
165	20	ColourSchemeI cs = colourSchemes.next();
166	20	String name = cs.getSchemeName();
167	20	assertEquals(item.getName(), name);
168	20	boolean enabled = item.isEnabled();
169	20	assertEquals(enabled, cs.isApplicableTo(al));
170	20	if (cs instanceof NucleotideColourScheme) // nucleotide only
171		{
172	1	assertTrue(enabled);
173		}
174	20	if (cs instanceof ClustalxColourScheme) // peptide only
175		{
176	1	assertFalse(enabled);
177		}
178	20	if (cs instanceof PIDColourScheme) // nucleotide or peptide
179		{
180	1	assertTrue(enabled);
181		}
182
183		/*
184		* check i18n for display name
185		*/
186	20	String label = MessageManager.getStringOrReturn("label.colourScheme_",
187		name);
188	20	assertEquals(item.getText(), label);
189		}
190
191		/*
192		* check nothing left over
193		*/
194	1	assertFalse(colourSchemes.hasNext());
195	1	assertFalse(bgElements.hasMoreElements());
196		}
197
198		/**
199		* 'Simple only' mode constructs colour menu for structures
200		* <ul>
201		* <li>no 'No Colour' option</li>
202		* <li>only simple colour schemes (colour per residue)</li>
203		* </ul>
204		*/
		100% Uncovered Elements: 0 (20) Complexity: 3 Complexity Density: 0.19 1PASS
205	1	@Test(groups = "Functional")...
206		public void testAddMenuItems_simpleOnly()
207		{
208	1	SequenceI s1 = new Sequence("s1", "KFRQSILM");
209	1	AlignmentI al = new Alignment(new SequenceI[] { s1 });
210	1	JMenu menu = new JMenu();
211
212	1	ButtonGroup bg = ColourMenuHelper.addMenuItems(menu, null, al, true);
213	1	Enumeration<AbstractButton> bgElements = bg.getElements();
214
215		/*
216		* check that only 'simple' colour schemes are included
217		*/
218	1	Iterator<ColourSchemeI> colourSchemes = ColourSchemes.getInstance()
219		.getColourSchemes().iterator();
220	1	int i = 0;
221	21	while (colourSchemes.hasNext())
222		{
223	20	ColourSchemeI cs = colourSchemes.next();
224	20	if (!cs.isSimple())
225		{
226	6	continue;
227		}
228	14	JMenuItem item = menu.getItem(i++);
229	14	AbstractButton bgItem = bgElements.nextElement();
230	14	assertSame(bgItem, item);
231		}
232
233		/*
234		* check nothing left over
235		*/
236	1	assertEquals(i, menu.getItemCount());
237	1	assertFalse(bgElements.hasMoreElements());
238		}
239
240		/*
241		* menu for AlignFrame includes 'User Defined Colour'
242		*/
		100% Uncovered Elements: 0 (23) Complexity: 2 Complexity Density: 0.1 1PASS
243	1	@Test(groups = "Functional")...
244		public void testAddMenuItems_forAlignFrame()
245		{
246	1	SequenceI s1 = new Sequence("s1", "KFRQSILM");
247	1	AlignmentI al = new Alignment(new SequenceI[] { s1 });
248	1	AlignFrame af = new AlignFrame(al, 500, 500);
249	1	JMenu menu = new JMenu();
250
251	1	ButtonGroup bg = ColourMenuHelper.addMenuItems(menu, af, al, false);
252	1	Enumeration<AbstractButton> bgElements = bg.getElements();
253
254		/*
255		* check that each registered colour scheme is in the menu,
256		* (skipping over No Colour which is the first menu item),
257		* and in the button group
258		*/
259	1	bgElements.nextElement(); // skip No Colour
260	1	Iterator<ColourSchemeI> colourSchemes = ColourSchemes.getInstance()
261		.getColourSchemes().iterator();
262	1	final int items = menu.getItemCount();
263	21	for (int i = 1; i < items - 1; i++)
264		{
265	20	JMenuItem item = menu.getItem(i);
266	20	AbstractButton bgItem = bgElements.nextElement();
267	20	assertSame(bgItem, item);
268	20	ColourSchemeI cs = colourSchemes.next();
269	20	assertEquals(item.getName(), cs.getSchemeName());
270		}
271
272		/*
273		* check menu also has User Defined Colour
274		*/
275	1	assertFalse(colourSchemes.hasNext());
276	1	JMenuItem item = menu.getItem(items - 1);
277	1	AbstractButton bgItem = bgElements.nextElement();
278	1	assertSame(bgItem, item);
279	1	assertEquals(item.getName(), ResidueColourScheme.USER_DEFINED_MENU);
280	1	assertEquals(item.getText(),
281		MessageManager.getString("action.user_defined"));
282		}
283		}