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.viewmodel.seqfeatures;
23 import jalview.schemes.GraduatedColor;
25 import java.util.Arrays;
26 import java.util.Hashtable;
27 import java.util.Iterator;
29 import java.util.concurrent.ConcurrentHashMap;
31 public class FeatureRendererSettings implements Cloneable
43 public FeatureRendererSettings(String[] renderOrder,
44 Hashtable featureGroups, Hashtable featureColours,
45 float transparency, Hashtable featureOrder)
48 this.renderOrder = Arrays.copyOf(renderOrder, renderOrder.length);
49 this.featureGroups = new ConcurrentHashMap(featureGroups);
50 this.featureColours = new ConcurrentHashMap(featureColours);
51 this.transparency = transparency;
52 this.featureOrder = new ConcurrentHashMap(featureOrder);
56 * create an independent instance of the feature renderer settings
60 public FeatureRendererSettings(
61 jalview.viewmodel.seqfeatures.FeatureRendererModel fr)
64 featureGroups = new ConcurrentHashMap();
65 featureColours = new ConcurrentHashMap();
66 featureOrder = new ConcurrentHashMap();
67 if (fr.renderOrder != null)
69 this.renderOrder = new String[fr.renderOrder.length];
70 System.arraycopy(fr.renderOrder, 0, renderOrder, 0,
71 fr.renderOrder.length);
73 if (fr.featureGroups != null)
75 this.featureGroups = new ConcurrentHashMap(fr.featureGroups);
77 if (fr.featureColours != null)
79 this.featureColours = new ConcurrentHashMap(fr.featureColours);
81 Iterator en = fr.featureColours.keySet().iterator();
84 Object next = en.next();
85 Object val = featureColours.get(next);
86 if (val instanceof GraduatedColor)
88 featureColours.put(next, new GraduatedColor((GraduatedColor) val));
91 this.transparency = fr.transparency;
92 if (fr.featureOrder != null)
94 this.featureOrder = new ConcurrentHashMap(fr.featureOrder);