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Coverage Report

  1. Project Clover database Wed Nov 13 2024 16:21:17 GMT
  2. Package jalview.schemes

File RNAInteractionColourScheme.java

 

Coverage histogram

../../img/srcFileCovDistChart4.png
48% of files have more coverage

Code metrics

0
9
6
1
80
45
7
0.78
1.5
6
1.17

Classes

Class Line # Actions
RNAInteractionColourScheme 29 9 7
0.440%
 

Contributing tests

This file is covered by 3 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.schemes;
22   
23    import jalview.api.AlignViewportI;
24    import jalview.datamodel.AnnotatedCollectionI;
25    import jalview.datamodel.SequenceI;
26   
27    import java.awt.Color;
28   
 
29    public class RNAInteractionColourScheme extends ResidueColourScheme
30    {
 
31  8 toggle public RNAInteractionColourScheme()
32    {
33  8 super();
34    }
35   
 
36  0 toggle @Override
37    public Color findColour(char c)
38    {
39    // FIXME this is just a copy of NucleotideColourScheme
40  0 return colors[ResidueProperties.nucleotideIndex[c]];
41    }
42   
 
43  0 toggle @Override
44    public Color findColour(char c, int j, SequenceI seq)
45    {
46    // FIXME this is just a copy of NucleotideColourScheme
47  0 Color currentColour = Color.white;
48  0 try
49    {
50  0 currentColour = colors[ResidueProperties.nucleotideIndex[c]];
51    } catch (Exception ex)
52    {
53    }
54   
55  0 return currentColour;
56    }
57   
 
58  3 toggle @Override
59    public boolean isNucleotideSpecific()
60    {
61  3 return true;
62    }
63   
 
64  2 toggle @Override
65    public String getSchemeName()
66    {
67  2 return "RNA Interaction type";
68    }
69   
70    /**
71    * Returns a new instance of this colour scheme with which the given data may
72    * be coloured
73    */
 
74  0 toggle @Override
75    public ColourSchemeI getInstance(AlignViewportI view,
76    AnnotatedCollectionI coll)
77    {
78  0 return new RNAInteractionColourScheme();
79    }
80    }