2 * Jalview - A Sequence Alignment Editor and Viewer
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3 * Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
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5 * This program is free software; you can redistribute it and/or
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6 * modify it under the terms of the GNU General Public License
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7 * as published by the Free Software Foundation; either version 2
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8 * of the License, or (at your option) any later version.
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10 * This program is distributed in the hope that it will be useful,
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11 * but WITHOUT ANY WARRANTY; without even the implied warranty of
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12 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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13 * GNU General Public License for more details.
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15 * You should have received a copy of the GNU General Public License
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16 * along with this program; if not, write to the Free Software
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17 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
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19 package jalview.datamodel;
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21 import jalview.analysis.*;
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23 import jalview.datamodel.*;
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25 import jalview.schemes.*;
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30 public class SuperGroup {
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32 boolean displayBoxes;
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33 boolean displayText;
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35 public ColourSchemeI cs;
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36 Vector sequenceGroups = new Vector();
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38 public SuperGroup() {
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39 groupName = "Super group";
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40 this.displayBoxes = true;
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41 this.displayText = true;
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42 this.colourText = false;
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46 public SuperGroup(String groupName, ColourSchemeI scheme,
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47 boolean displayBoxes, boolean displayText, boolean colourText) {
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48 this.groupName = groupName;
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49 this.displayBoxes = displayBoxes;
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50 this.displayText = displayText;
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51 this.colourText = colourText;
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55 public String getName() {
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59 public void setName(String name) {
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63 public void addGroup(SequenceGroup sg) {
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64 if (!sequenceGroups.contains(sg)) {
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65 sequenceGroups.addElement(sg);
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69 public void addOrRemove(SequenceGroup sg) {
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70 if (sequenceGroups.contains(sg)) {
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77 public void deleteGroup(SequenceGroup sg) {
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78 sequenceGroups.removeElement(sg);
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81 public void setSuperGroupProperties(SequenceGroup sg) {
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83 colourText = sg.colourText;
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84 displayText = sg.displayText;
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85 displayBoxes = sg.displayBoxes;
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87 for (int i = 0; i < sequenceGroups.size(); i++) {
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88 SequenceGroup temp = (SequenceGroup) sequenceGroups.elementAt(i);
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90 temp.colourText = sg.colourText;
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91 temp.displayText = sg.displayText;
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92 temp.displayBoxes = sg.displayBoxes;
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96 public int getSize() {
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97 return sequenceGroups.size();
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100 public SequenceGroup getGroupeAt(int i) {
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101 return (SequenceGroup) sequenceGroups.elementAt(i);
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