2 * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
3 * Copyright (C) $$Year-Rel$$ The Jalview Authors
5 * This file is part of Jalview.
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.
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.
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.
21 package jalview.json.binding.biojson.v1;
23 import com.github.reinert.jjschema.Attributes;
25 public class AnnotationPojo
29 description = "Display character for the given annotation")
30 private String displayCharacter;
34 description = "Description for the annotation")
35 private String description;
39 enums = { "E", "H", "\u0000", ")", "(" },
40 description = "Determines what is rendered for the secondary </br>structure <ul><li>’E’ - indicates Beta Sheet/Strand <li>’H’ - indicates alpha helix </li><li> ‘\\u0000’ - indicates blank</li></ul></br>For RNA Helix (only shown when working with</br> nucleotide sequences): <ul><li> ‘(’ - indicates bases pair with columns upstream</br> (to right) </li><li> ’(’ - indicate region pairs with bases to the left</li></ul>")
41 private char secondaryStructure;
43 @Attributes(required = false, description = "Value of the annotation")
48 description = "Colour of the annotation position in hex string.")
49 private String colour;
51 public String getDisplayCharacter()
53 return displayCharacter;
56 public void setDisplayCharacter(String displayCharacter)
58 this.displayCharacter = displayCharacter;
61 public String getDescription()
66 public void setDescription(String description)
68 this.description = description;
71 public char getSecondaryStructure()
73 return secondaryStructure;
76 public void setSecondaryStructure(char secondaryStructure)
78 this.secondaryStructure = secondaryStructure;
81 public float getValue()
86 public void setValue(float value)
91 public String getColour()
96 public void setColour(String colour)