Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
EnsemblGenomes	33	5	4	0.00%	Show methods

Class EnsemblGenomes

Class EnsemblGenomes	Line # 33	Total Statements 5	Complexity 4	TOTAL Coverage 0.00%
EnsemblGenomes()   EnsemblGenomes()	3939	2.02	1.01	0.0 0.00%
getDbName() : String   getDbName() : String	4646	1.01	1.01	0.0 0.00%
getTestQuery() : String   getTestQuery() : String	5252	1.01	1.01	0.0 0.00%
getDbSource() : String   getDbSource() : String	6161	1.01	1.01	0.0 0.00%

 

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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.ext.ensembl;
22
23		import jalview.bin.Cache;
24		import jalview.datamodel.DBRefSource;
25
26		/**
27		* A class to behave much like EnsemblGene but referencing the ensemblgenomes
28		* domain and data
29		*
30		* @author gmcarstairs
31		*
32		*/
		0% Uncovered Elements: 9 (9) Complexity: 4 Complexity Density: 0.8
33		public class EnsemblGenomes extends EnsemblGene
34		{
35		/**
36		* Constructor sets domain to rest.ensemblgenomes.org instead of the 'usual'
37		* rest.ensembl.org
38		*/
		0% Uncovered Elements: 2 (2) Complexity: 1 Complexity Density: 0.5
39	0	public EnsemblGenomes()...
40		{
41	0	super();
42	0	setDomain(Cache.getDefault(ENSEMBL_GENOMES_BASEURL,
43		DEFAULT_ENSEMBL_GENOMES_BASEURL));
44		}
45
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
46	0	@Override...
47		public String getDbName()
48		{
49	0	return DBRefSource.ENSEMBLGENOMES;
50		}
51
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
52	0	@Override...
53		public String getTestQuery()
54		{
55		/*
56		* Salmonella gene, Uniprot Q8Z9G6, EMBLCDS CAD01290
57		*/
58	0	return "CAD01290";
59		}
60
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
61	0	@Override...
62		public String getDbSource()
63		{
64	0	return DBRefSource.ENSEMBLGENOMES;
65		}
66
67		}