Classes

Class	Line #	Total Statements	Complexity	Uncovered Elements	TOTAL Coverage	Actions
GStructureViewer	41	66	21	26	0.697674469.8%	Show methods

Class GStructureViewer

Class GStructureViewer	Line # 41	Total Statements 66	Complexity 21	Uncovered Elements 26	TOTAL Coverage 0.697674469.8%
GStructureViewer()   GStructureViewer()	7777	3.03	2.02	1.01	0.6666667 0.666666766.7%
actionPerformed(ActionEvent) : void   actionPerformed(ActionEvent) : void	105105	1.01	1.01	1.01	0.0 0.00%
actionPerformed(ActionEvent) : void   actionPerformed(ActionEvent) : void	116116	1.01	1.01	1.01	0.0 0.00%
actionPerformed(ActionEvent) : void   actionPerformed(ActionEvent) : void	127127	1.01	1.01	1.01	0.0 0.00%
actionPerformed(ActionEvent) : void   actionPerformed(ActionEvent) : void	138138	1.01	1.01	1.01	0.0 0.00%
actionPerformed(ActionEvent) : void   actionPerformed(ActionEvent) : void	155155	1.01	1.01	1.01	0.0 0.00%
actionPerformed(ActionEvent) : void   actionPerformed(ActionEvent) : void	168168	1.01	1.01	1.01	0.0 0.00%
actionPerformed(ActionEvent) : void   actionPerformed(ActionEvent) : void	179179	1.01	1.01	1.01	0.0 0.00%
jbInit() : void   jbInit() : void	8888	56.056	1.01	0.00	1.0 1.0100%
fitToWindow_actionPerformed() : void   fitToWindow_actionPerformed() : void	212212	0.00	1.01	0.00	-1.0 -1.0 -
highlightSelection_actionPerformed() : void   highlightSelection_actionPerformed() : void	216216	0.00	1.01	0.00	-1.0 -1.0 -
viewerColour_actionPerformed(ActionEvent) : void   viewerColour_actionPerformed(ActionEvent) : void	220220	0.00	1.01	0.00	-1.0 -1.0 -
pdbFile_actionPerformed(ActionEvent) : void   pdbFile_actionPerformed(ActionEvent) : void	227227	0.00	1.01	0.00	-1.0 -1.0 -
makePDBImage(TYPE) : void   makePDBImage(TYPE) : void	232232	0.00	1.01	0.00	-1.0 -1.0 -
viewMapping_actionPerformed(ActionEvent) : void   viewMapping_actionPerformed(ActionEvent) : void	237237	0.00	1.01	0.00	-1.0 -1.0 -
seqColour_actionPerformed(ActionEvent) : void   seqColour_actionPerformed(ActionEvent) : void	242242	0.00	1.01	0.00	-1.0 -1.0 -
chainColour_actionPerformed(ActionEvent) : void   chainColour_actionPerformed(ActionEvent) : void	247247	0.00	1.01	0.00	-1.0 -1.0 -
chargeColour_actionPerformed(ActionEvent) : void   chargeColour_actionPerformed(ActionEvent) : void	252252	0.00	1.01	0.00	-1.0 -1.0 -
background_actionPerformed(ActionEvent) : void   background_actionPerformed(ActionEvent) : void	257257	0.00	1.01	0.00	-1.0 -1.0 -
showHelp_actionPerformed(ActionEvent) : void   showHelp_actionPerformed(ActionEvent) : void	262262	0.00	1.01	0.00	-1.0 -1.0 -

 

Contributing tests

Contributing tests

Select all

	Test contribution	Test	Result	Actions
	0.6976744	jalview.io.Jalview2xmlTests.testStoreAndRecoverExpandedviewsjalview.io.Jalview2xmlTests.testStoreAndRecoverExpandedviews	1PASS
	0.6976744	jalview.ext.jmol.JmolViewerTest.testSingleSeqViewJMoljalview.ext.jmol.JmolViewerTest.testSingleSeqViewJMol	1PASS
	0.6976744	jalview.io.Jalview2xmlTests.testStoreAndRecoverReferenceSeqSettingsjalview.io.Jalview2xmlTests.testStoreAndRecoverReferenceSeqSettings	1PASS
	0.6976744	jalview.ext.jmol.JmolViewerTest.testAddStrToSingleSeqViewJMoljalview.ext.jmol.JmolViewerTest.testAddStrToSingleSeqViewJMol	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.jbgui;
22
23		import jalview.api.structures.JalviewStructureDisplayI;
24		import jalview.gui.ColourMenuHelper.ColourChangeListener;
25		import jalview.util.ImageMaker.TYPE;
26		import jalview.util.MessageManager;
27
28		import java.awt.BorderLayout;
29		import java.awt.GridLayout;
30		import java.awt.event.ActionEvent;
31		import java.awt.event.ActionListener;
32
33		import javax.swing.JInternalFrame;
34		import javax.swing.JLabel;
35		import javax.swing.JMenu;
36		import javax.swing.JMenuBar;
37		import javax.swing.JMenuItem;
38		import javax.swing.JPanel;
39		import javax.swing.JRadioButtonMenuItem;
40
		69.8% Uncovered Elements: 26 (86) Complexity: 21 Complexity Density: 0.32
41		public abstract class GStructureViewer extends JInternalFrame
42		implements JalviewStructureDisplayI, ColourChangeListener
43		{
44		// private AAStructureBindingModel bindingModel;
45
46		protected JMenu savemenu;
47
48		protected JMenu viewMenu;
49
50		protected JMenu colourMenu;
51
52		protected JMenu chainMenu;
53
54		protected JMenu viewerActionMenu;
55
56		protected JMenuItem alignStructs;
57
58		protected JMenuItem fitToWindow;
59
60		protected JRadioButtonMenuItem seqColour;
61
62		protected JRadioButtonMenuItem chainColour;
63
64		protected JRadioButtonMenuItem chargeColour;
65
66		protected JRadioButtonMenuItem viewerColour;
67
68		protected JMenuItem helpItem;
69
70		protected JLabel statusBar;
71
72		protected JPanel statusPanel;
73
74		/**
75		* Constructor
76		*/
		66.7% Uncovered Elements: 1 (3) Complexity: 2 Complexity Density: 0.67
77	10	public GStructureViewer()...
78		{
79	10	try
80		{
81	10	jbInit();
82		} catch (Exception ex)
83		{
84	0	ex.printStackTrace();
85		}
86		}
87
		100% Uncovered Elements: 0 (56) Complexity: 1 Complexity Density: 0.02
88	10	private void jbInit() throws Exception...
89		{
90	10	JMenuBar menuBar = new JMenuBar();
91	10	this.setJMenuBar(menuBar);
92
93	10	JMenu fileMenu = new JMenu();
94	10	fileMenu.setText(MessageManager.getString("action.file"));
95
96	10	savemenu = new JMenu();
97	10	savemenu.setActionCommand(
98		MessageManager.getString("action.save_image"));
99	10	savemenu.setText(MessageManager.getString("action.save_as"));
100
101	10	JMenuItem pdbFile = new JMenuItem();
102	10	pdbFile.setText(MessageManager.getString("label.pdb_file"));
103	10	pdbFile.addActionListener(new ActionListener()
104		{
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
105	0	@Override...
106		public void actionPerformed(ActionEvent actionEvent)
107		{
108	0	pdbFile_actionPerformed(actionEvent);
109		}
110		});
111
112	10	JMenuItem png = new JMenuItem();
113	10	png.setText("PNG");
114	10	png.addActionListener(new ActionListener()
115		{
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
116	0	@Override...
117		public void actionPerformed(ActionEvent actionEvent)
118		{
119	0	makePDBImage(TYPE.PNG);
120		}
121		});
122
123	10	JMenuItem eps = new JMenuItem();
124	10	eps.setText("EPS");
125	10	eps.addActionListener(new ActionListener()
126		{
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
127	0	@Override...
128		public void actionPerformed(ActionEvent actionEvent)
129		{
130	0	makePDBImage(TYPE.EPS);
131		}
132		});
133
134	10	JMenuItem viewMapping = new JMenuItem();
135	10	viewMapping.setText(MessageManager.getString("label.view_mapping"));
136	10	viewMapping.addActionListener(new ActionListener()
137		{
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
138	0	@Override...
139		public void actionPerformed(ActionEvent actionEvent)
140		{
141	0	viewMapping_actionPerformed(actionEvent);
142		}
143		});
144
145	10	viewMenu = new JMenu();
146	10	viewMenu.setText(MessageManager.getString("action.view"));
147
148	10	chainMenu = new JMenu();
149	10	chainMenu.setText(MessageManager.getString("action.show_chain"));
150
151	10	fitToWindow = new JMenuItem();
152	10	fitToWindow.setText(MessageManager.getString("label.fit_to_window"));
153	10	fitToWindow.addActionListener(new ActionListener()
154		{
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
155	0	@Override...
156		public void actionPerformed(ActionEvent actionEvent)
157		{
158	0	fitToWindow_actionPerformed();
159		}
160		});
161
162	10	JMenu helpMenu = new JMenu();
163	10	helpMenu.setText(MessageManager.getString("action.help"));
164	10	helpItem = new JMenuItem();
165	10	helpItem.setText(MessageManager.getString("label.jmol_help"));
166	10	helpItem.addActionListener(new ActionListener()
167		{
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
168	0	@Override...
169		public void actionPerformed(ActionEvent actionEvent)
170		{
171	0	showHelp_actionPerformed(actionEvent);
172		}
173		});
174	10	alignStructs = new JMenuItem();
175	10	alignStructs.setText(
176		MessageManager.getString("label.superpose_structures"));
177	10	alignStructs.addActionListener(new ActionListener()
178		{
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
179	0	@Override...
180		public void actionPerformed(ActionEvent actionEvent)
181		{
182	0	alignStructs_actionPerformed(actionEvent);
183		}
184		});
185
186	10	viewerActionMenu = new JMenu(); // text set in sub-classes
187	10	viewerActionMenu.setVisible(false);
188	10	viewerActionMenu.add(alignStructs);
189	10	colourMenu = new JMenu();
190	10	colourMenu.setText(MessageManager.getString("label.colours"));
191	10	fileMenu.add(savemenu);
192	10	fileMenu.add(viewMapping);
193	10	savemenu.add(pdbFile);
194	10	savemenu.add(png);
195	10	savemenu.add(eps);
196	10	viewMenu.add(chainMenu);
197	10	helpMenu.add(helpItem);
198
199	10	menuBar.add(fileMenu);
200	10	menuBar.add(viewMenu);
201	10	menuBar.add(colourMenu);
202	10	menuBar.add(viewerActionMenu);
203	10	menuBar.add(helpMenu);
204
205	10	statusPanel = new JPanel();
206	10	statusPanel.setLayout(new GridLayout());
207	10	this.getContentPane().add(statusPanel, BorderLayout.SOUTH);
208	10	statusBar = new JLabel();
209	10	statusPanel.add(statusBar, null);
210		}
211
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
212	0	protected void fitToWindow_actionPerformed()...
213		{
214		}
215
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
216	0	protected void highlightSelection_actionPerformed()...
217		{
218		}
219
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
220	0	protected void viewerColour_actionPerformed(ActionEvent actionEvent)...
221		{
222		}
223
224		protected abstract String alignStructs_actionPerformed(
225		ActionEvent actionEvent);
226
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
227	0	public void pdbFile_actionPerformed(ActionEvent actionEvent)...
228		{
229
230		}
231
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
232	0	public void makePDBImage(TYPE imageType)...
233		{
234
235		}
236
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
237	0	public void viewMapping_actionPerformed(ActionEvent actionEvent)...
238		{
239
240		}
241
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
242	0	public void seqColour_actionPerformed(ActionEvent actionEvent)...
243		{
244
245		}
246
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
247	0	public void chainColour_actionPerformed(ActionEvent actionEvent)...
248		{
249
250		}
251
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
252	0	public void chargeColour_actionPerformed(ActionEvent actionEvent)...
253		{
254
255		}
256
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
257	0	public void background_actionPerformed(ActionEvent actionEvent)...
258		{
259
260		}
261
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
262	0	public void showHelp_actionPerformed(ActionEvent actionEvent)...
263		{
264
265		}
266		}