Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
PfamSeed	29	6	5	0.636363663.6%	Show methods

Class PfamSeed

Class PfamSeed	Line # 29	Total Statements 6	Complexity 5	TOTAL Coverage 0.636363663.6%
PfamSeed()   PfamSeed()	3131	2.02	1.01	1.0 1.0100%
getDbName() : String   getDbName() : String	4242	1.01	1.01	1.0 1.0100%
getDbSource() : String   getDbSource() : String	4848	1.01	1.01	1.0 1.0100%
getTestQuery() : String   getTestQuery() : String	5454	1.01	1.01	0.0 0.00%
getTier() : int   getTier() : int	6060	1.01	1.01	0.0 0.00%

 

Contributing tests

Contributing tests

Select all

	Test contribution	Test	Result	Actions
	0.6363636	jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest	1PASS
	0.6363636	jalview.io.CrossRef2xmlTests.openCrossrefsForEnsemblTwicejalview.io.CrossRef2xmlTests.openCrossrefsForEnsemblTwice	1PASS
	0.6363636	jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest	1PASS
	0.6363636	jalview.gui.AnnotationLabelsTest2.testIdWidthChangesjalview.gui.AnnotationLabelsTest2.testIdWidthChanges	1PASS
	0.6363636	jalview.ws.seqfetcher.DbRefFetcherTest.testStandardProtDbsjalview.ws.seqfetcher.DbRefFetcherTest.testStandardProtDbs	1PASS
	0.6363636	jalview.ws.SequenceFetcherTest.testNoDuplicatesInFetchDbRefsjalview.ws.SequenceFetcherTest.testNoDuplicatesInFetchDbRefs	1PASS
	0.27272728	jalview.ws.dbsources.PfamSeedTest.testGetURLjalview.ws.dbsources.PfamSeedTest.testGetURL	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.ws.dbsources;
22
23		/**
24		* flyweight class specifying retrieval of Seed alignments from PFAM
25		*
26		* @author JimP
27		*
28		*/
		63.6% Uncovered Elements: 4 (11) Complexity: 5 Complexity Density: 0.83
29		public class PfamSeed extends Pfam
30		{
		100% Uncovered Elements: 0 (2) Complexity: 1 Complexity Density: 0.5
31	18	public PfamSeed()...
32		{
33	18	super();
34	18	alignmentType = SEED;
35		}
36
37		/*
38		* (non-Javadoc)
39		*
40		* @see jalview.ws.seqfetcher.DbSourceProxy#getDbName()
41		*/
		100% Uncovered Elements: 0 (1) Complexity: 1 Complexity Density: 1
42	16	@Override...
43		public String getDbName()
44		{
45	16	return "PFAM (Seed)";
46		}
47
		100% Uncovered Elements: 0 (1) Complexity: 1 Complexity Density: 1
48	32	@Override...
49		public String getDbSource()
50		{
51	32	return jalview.datamodel.DBRefSource.PFAM; // archetype source
52		}
53
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
54	0	@Override...
55		public String getTestQuery()
56		{
57	0	return "PF03760";
58		}
59
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
60	0	@Override...
61		public int getTier()
62		{
63	0	return 0;
64		}
65		}