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jalviewX

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

File JalviewColourScheme.java

 

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Code metrics

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Classes

Class Line # Actions
JalviewColourScheme 26 4 3 0
1.0100%
 

Contributing tests

This file is covered by 82 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    /**
24    * An enum with the colour schemes supported by Jalview.
25    */
 
26    public enum JalviewColourScheme
27    {
28    /*
29    * the order of declaration is the default order in which
30    * items are added to Colour menus
31    */
32    Clustal("Clustal", ClustalxColourScheme.class),
33    Blosum62("Blosum62", Blosum62ColourScheme.class),
34    PID("% Identity", PIDColourScheme.class),
35    Zappo("Zappo", ZappoColourScheme.class),
36    Taylor("Taylor", TaylorColourScheme.class),
37    Hydrophobic("Hydrophobic", HydrophobicColourScheme.class),
38    Helix("Helix Propensity", HelixColourScheme.class),
39    Strand("Strand Propensity", StrandColourScheme.class),
40    Turn("Turn Propensity", TurnColourScheme.class),
41    Buried("Buried Index", BuriedColourScheme.class),
42    Nucleotide("Nucleotide", NucleotideColourScheme.class),
43    PurinePyrimidine("Purine/Pyrimidine", PurinePyrimidineColourScheme.class),
44    RNAHelices("RNA Helices", RNAHelicesColour.class),
45    TCoffee("T-Coffee Scores", TCoffeeColourScheme.class);
46    // RNAInteraction("RNA Interaction type", RNAInteractionColourScheme.class)
47   
48    private String name;
49   
50    private Class<? extends ColourSchemeI> myClass;
51   
52    /**
53    * Constructor given the name of the colour scheme (as used in Jalview
54    * parameters). Note this is not necessarily the same as the 'display name'
55    * used in menu options (as this may be language-dependent).
56    *
57    * @param s
58    */
 
59  14 toggle JalviewColourScheme(String s, Class<? extends ColourSchemeI> cl)
60    {
61  14 name = s;
62  14 myClass = cl;
63    }
64   
65    /**
66    * Returns the class of the colour scheme
67    *
68    * @return
69    */
 
70  42 toggle public Class<? extends ColourSchemeI> getSchemeClass()
71    {
72  42 return myClass;
73    }
74   
75    /**
76    * Returns the 'official' name of this colour scheme. This is the name that
77    * identifies the colour scheme as a start-up parameter for the Jalview
78    * application or applet. Note that it may not be the name shown in menu
79    * options, as these may be internationalised.
80    */
 
81  3038 toggle @Override
82    public String toString()
83    {
84  3038 return name;
85    }
86    }
  • 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.