Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
JalviewColourScheme	26	4	3	0.00%	Show methods

Class JalviewColourScheme

Class JalviewColourScheme	Line # 26	Total Statements 4	Complexity 3	TOTAL Coverage 0.00%
JalviewColourScheme(String,Class<? extends ColourSchemeI>)   JalviewColourScheme(String,Class<? extends ColourSchemeI>)	6666	2.02	1.01	0.0 0.00%
getSchemeClass() : Class<? extends ColourSchemeI>   getSchemeClass() : Class<? extends ColourSchemeI>	7777	1.01	1.01	0.0 0.00%
toString() : String   toString() : String	8888	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.schemes;
22
23		/**
24		* An enum with the colour schemes supported by Jalview.
25		*/
		0% Uncovered Elements: 7 (7) Complexity: 3 Complexity Density: 0.75
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		Flower("gecos-flower", FlowerColourScheme.class),
38		Blossom("gecos-blossom", BlossomColourScheme.class),
39		Sunset("gecos-sunset", SunsetColourScheme.class),
40		Ocean("gecos-ocean", OceanColourScheme.class),
41		Hydrophobic("Hydrophobic", HydrophobicColourScheme.class),
42		Helix("Helix Propensity", HelixColourScheme.class),
43		Strand("Strand Propensity", StrandColourScheme.class),
44		Turn("Turn Propensity", TurnColourScheme.class),
45		Buried("Buried Index", BuriedColourScheme.class),
46		Nucleotide("Nucleotide", NucleotideColourScheme.class),
47		NucleotideAmbiguity("Nucleotide Ambiguity",
48		NucleotideAmbiguityColourScheme.class),
49		PurinePyrimidine("Purine/Pyrimidine", PurinePyrimidineColourScheme.class),
50		RNAHelices("RNA Helices", RNAHelicesColour.class),
51		TCoffee("T-Coffee Scores", TCoffeeColourScheme.class),
52		IdColour("Sequence ID", IdColourScheme.class),;
53		// RNAInteraction("RNA Interaction type", RNAInteractionColourScheme.class)
54
55		private String name;
56
57		private Class<? extends ColourSchemeI> myClass;
58
59		/**
60		* Constructor given the name of the colour scheme (as used in Jalview
61		* parameters). Note this is not necessarily the same as the 'display name'
62		* used in menu options (as this may be language-dependent).
63		*
64		* @param s
65		*/
		0% Uncovered Elements: 2 (2) Complexity: 1 Complexity Density: 0.5
66	0	JalviewColourScheme(String s, Class<? extends ColourSchemeI> cl)...
67		{
68	0	name = s;
69	0	myClass = cl;
70		}
71
72		/**
73		* Returns the class of the colour scheme
74		*
75		* @return
76		*/
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
77	0	public Class<? extends ColourSchemeI> getSchemeClass()...
78		{
79	0	return myClass;
80		}
81
82		/**
83		* Returns the 'official' name of this colour scheme. This is the name that
84		* identifies the colour scheme as a start-up parameter for the Jalview
85		* application or applet. Note that it may not be the name shown in menu
86		* options, as these may be internationalised.
87		*/
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
88	0	@Override...
89		public String toString()
90		{
91	0	return name;
92		}
93		}