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  1. Project Clover database Wed Oct 31 2018 15:13:58 GMT
  2. Package jalview.ext.ensembl

File EnsemblGenomes.java

 

Coverage histogram

../../../img/srcFileCovDistChart8.png
19% of files have more coverage

Code metrics

0
5
4
1
67
27
4
0.8
1.25
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1

Classes

Class Line # Actions
EnsemblGenomes 33 5 4 2
0.777777877.8%
 

Contributing tests

This file is covered by 78 tests. .

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.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    */
 
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    */
 
39  6 toggle public EnsemblGenomes()
40    {
41  6 super();
42  6 setDomain(Cache.getDefault(ENSEMBL_GENOMES_BASEURL,
43    DEFAULT_ENSEMBL_GENOMES_BASEURL));
44    }
45   
 
46  1108 toggle @Override
47    public String getDbName()
48    {
49  1108 return DBRefSource.ENSEMBLGENOMES;
50    }
51   
 
52  0 toggle @Override
53    public String getTestQuery()
54    {
55    /*
56    * Salmonella gene, Uniprot Q8Z9G6, EMBLCDS CAD01290
57    */
58  0 return "CAD01290";
59    }
60   
 
61  1114 toggle @Override
62    public String getDbSource()
63    {
64  1114 return DBRefSource.ENSEMBLGENOMES;
65    }
66   
67    }
  • Report generated by OpenClover v 4.2.1 on Wed Oct 31 2018 15:15:54 GMT using coverage data from Wed Oct 31 2018 15:15:47 GMT.
  • Clover free edition.