Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
BackupFilenameParts	25	48	24	0.621621662.2%	Show methods

Class BackupFilenameParts

Class BackupFilenameParts	Line # 25	Total Statements 48	Complexity 24	TOTAL Coverage 0.621621662.2%
BackupFilenameParts()   BackupFilenameParts()	3939	1.01	1.01	0.0 0.00%
BackupFilenameParts(File,String,String,int)   BackupFilenameParts(File,String,String,int)	4444	1.01	1.01	1.0 1.0100%
BackupFilenameParts(String,String,String,int)   BackupFilenameParts(String,String,String,int)	5050	1.01	1.01	1.0 1.0100%
BackupFilenameParts(String,String,String,int,boolean)   BackupFilenameParts(String,String,String,int,boolean)	5656	29.029	15.015	0.7111111 0.711111171.1%
currentBackupFilenameParts(String,String,boolean) : BackupFilenameParts   currentBackupFilenameParts(String,String,boolean) : BackupFilenameParts	130130	10.010	3.03	0.0 0.00%
isBackupFile() : boolean   isBackupFile() : boolean	153153	1.01	1.01	1.0 1.0100%
indexNum() : int   indexNum() : int	158158	1.01	1.01	1.0 1.0100%
getBackupFilename(int,String,String,int) : String   getBackupFilename(int,String,String,int) : String	163163	4.04	1.01	1.0 1.0100%

 

Contributing tests

Contributing tests

Select all

	Test contribution	Test	Result	Actions
	0.6216216	jalview.io.BackupFilesTest.backupsEnabledNoRollMaxTestjalview.io.BackupFilesTest.backupsEnabledNoRollMaxTest	1PASS
	0.6216216	jalview.io.BackupFilesTest.backupsEnabledReverseRollMaxTestjalview.io.BackupFilesTest.backupsEnabledReverseRollMaxTest	1PASS
	0.6216216	jalview.io.BackupFilesTest.backupsEnabledRollMaxTestjalview.io.BackupFilesTest.backupsEnabledRollMaxTest	1PASS
	0.5540541	jalview.io.BackupFilesTest.noBackupsEnabledTestjalview.io.BackupFilesTest.noBackupsEnabledTest	1PASS
	0.36486486	jalview.project.Jalview2xmlTests.testSaveLoadFeatureColoursAndFiltersjalview.project.Jalview2xmlTests.testSaveLoadFeatureColoursAndFilters	1PASS
	0.36486486	jalview.project.Jalview2xmlTests.testRNAStructureRecoveryjalview.project.Jalview2xmlTests.testRNAStructureRecovery	1PASS
	0.36486486	jalview.project.Jalview2xmlTests.testTCoffeeScoresjalview.project.Jalview2xmlTests.testTCoffeeScores	1PASS
	0.36486486	jalview.io.AnnotatedPDBFileInputTest.testJalviewProjectRelocationAnnotationjalview.io.AnnotatedPDBFileInputTest.testJalviewProjectRelocationAnnotation	1PASS
	0.36486486	jalview.project.Jalview2xmlTests.testColourByAnnotScoresjalview.project.Jalview2xmlTests.testColourByAnnotScores	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.io;
22
23		import java.io.File;
24
		62.2% Uncovered Elements: 28 (74) Complexity: 24 Complexity Density: 0.5
25		public class BackupFilenameParts
26		{
27		private String base;
28
29		private String templateStart;
30
31		private int num;
32
33		private int digits;
34
35		private String templateEnd;
36
37		private boolean isBackupFile;
38
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
39	0	private BackupFilenameParts()...
40		{
41	0	this.isBackupFile = false;
42		}
43
		100% Uncovered Elements: 0 (1) Complexity: 1 Complexity Density: 1
44	145	public BackupFilenameParts(File file, String base, String template,...
45		int digits)
46		{
47	145	this(file.getName(), base, template, digits);
48		}
49
		100% Uncovered Elements: 0 (1) Complexity: 1 Complexity Density: 1
50	6237	public BackupFilenameParts(String filename, String base, String template,...
51		int suggesteddigits)
52		{
53	6237	this(filename, base, template, suggesteddigits, false);
54		}
55
		71.1% Uncovered Elements: 13 (45) Complexity: 15 Complexity Density: 0.52
56	6237	public BackupFilenameParts(String filename, String base, String template,...
57		int suggesteddigits, boolean extensionMatch)
58		{
59	6237	this.isBackupFile = false;
60
61	6237	int numcharstart = template.indexOf(BackupFiles.NUM_PLACEHOLDER);
62	6237	int digits = 0;
63	6237	String templateStart = template;
64	6237	String templateEnd = "";
65	6237	if (numcharstart > -1)
66		{
67	6237	templateStart = template.substring(0, numcharstart);
68	6237	templateEnd = template.substring(
69		numcharstart + BackupFiles.NUM_PLACEHOLDER.length());
70	6237	digits = suggesteddigits;
71		}
72
73	6237	String savedFilename = "";
74		// if extensionOnly is set then reset the filename to the last occurrence of the extension+templateStart and try the match
75	6237	if (extensionMatch)
76		{
77		// only trying to match from extension onwards
78
79	0	int extensioncharstart = filename
80		.lastIndexOf('.' + base + templateStart);
81	0	if (extensioncharstart == -1)
82		{
83	0	return;
84		}
85
86	0	savedFilename = filename.substring(0, extensioncharstart + 1); // include
87		// the "."
88	0	filename = filename.substring(extensioncharstart + 1);
89		}
90
91		// full filename match
92
93		// calculate minimum length of a backup filename
94	6237	int minlength = base.length() + template.length()
95		- BackupFiles.NUM_PLACEHOLDER.length() + digits;
96
97	6237	if (!(filename.startsWith(base + templateStart)
98		&& filename.endsWith(templateEnd)
99		&& filename.length() >= minlength))
100		{
101		// non-starter
102	5947	return;
103		}
104
105	290	int startLength = base.length() + templateStart.length();
106	290	int endLength = templateEnd.length();
107	290	String numString = numcharstart > -1
108		? filename.substring(startLength, filename.length() - endLength)
109		: "";
110
111	290	if (filename.length() >= startLength + digits + endLength
112		&& filename.startsWith(base + templateStart)
113		&& filename.endsWith(templateEnd)
114		// match exactly digits number of number-characters (numString
115		// should be all digits and at least the right length), or more than
116		// digits long with proviso it's not zero-leading.
117		&& (numString.matches("[0-9]{" + digits + "}")
118		|| numString.matches("[1-9][0-9]{" + digits + ",}")))
119		{
120	290	this.base = extensionMatch ? savedFilename + base : base;
121	290	this.templateStart = templateStart;
122	290	this.num = numString.length() > 0 ? Integer.parseInt(numString) : 0;
123	290	this.digits = digits;
124	290	this.templateEnd = templateEnd;
125	290	this.isBackupFile = true;
126		}
127
128		}
129
		0% Uncovered Elements: 12 (12) Complexity: 3 Complexity Density: 0.3
130	0	public static BackupFilenameParts currentBackupFilenameParts(...
131		String filename, String base, boolean extensionMatch)
132		{
133	0	BackupFilenameParts bfp = new BackupFilenameParts();
134	0	BackupFilesPresetEntry bfpe = BackupFilesPresetEntry
135		.getSavedBackupEntry();
136	0	String template = bfpe.suffix;
137	0	if (template == null)
138		{
139	0	return bfp;
140		}
141	0	int digits;
142	0	try
143		{
144	0	digits = bfpe.digits;
145		} catch (Exception e)
146		{
147	0	return bfp;
148		}
149	0	return new BackupFilenameParts(filename, base, template, digits,
150		extensionMatch);
151		}
152
		100% Uncovered Elements: 0 (1) Complexity: 1 Complexity Density: 1
153	6092	public boolean isBackupFile()...
154		{
155	6092	return this.isBackupFile;
156		}
157
		100% Uncovered Elements: 0 (1) Complexity: 1 Complexity Density: 1
158	145	public int indexNum()...
159		{
160	145	return this.num;
161		}
162
		100% Uncovered Elements: 0 (4) Complexity: 1 Complexity Density: 0.25
163	75	public static String getBackupFilename(int index, String base,...
164		String template, int digits)
165		{
166	75	String numString = String.format("%0" + digits + "d", index);
167	75	String backupSuffix = template.replaceFirst(BackupFiles.NUM_PLACEHOLDER,
168		numString);
169	75	String backupfilename = base + backupSuffix;
170	75	return backupfilename;
171		}
172		}