X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FPaintRefresher.java;h=772488025cdebebabab929e1a9ddb549ab9bd818;hb=17e77c3f2949a0729322b4a8d907f3f34b6a9914;hp=322466b7ed3ac3051b21956ca87ed90b87a5e391;hpb=3e3378e2ccfea39a2b161600c5a2029716acd1b7;p=jalview.git diff --git a/src/jalview/appletgui/PaintRefresher.java b/src/jalview/appletgui/PaintRefresher.java index 322466b..7724880 100755 --- a/src/jalview/appletgui/PaintRefresher.java +++ b/src/jalview/appletgui/PaintRefresher.java @@ -1,199 +1,262 @@ -/* - * Jalview - A Sequence Alignment Editor and Viewer - * Copyright (C) 2006 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle - * - * This program is free software; you can redistribute it and/or - * modify it under the terms of the GNU General Public License - * as published by the Free Software Foundation; either version 2 - * of the License, or (at your option) any later version. - * - * This program is distributed in the hope that it will be useful, - * but WITHOUT ANY WARRANTY; without even the implied warranty of - * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the - * GNU General Public License for more details. - * - * You should have received a copy of the GNU General Public License - * along with this program; if not, write to the Free Software - * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA - */ -package jalview.appletgui; - -import jalview.datamodel.*; - -import java.awt.*; - -import java.util.*; - - -/** - * DOCUMENT ME! - * - * @author $author$ - * @version $Revision$ - */ -public class PaintRefresher -{ - static Hashtable components; - - /** - * DOCUMENT ME! - * - * @param comp DOCUMENT ME! - * @param al DOCUMENT ME! - */ - public static void Register(Component comp, String seqSetId) - { - if (components == null) - components = new Hashtable(); - - if (components.containsKey(seqSetId)) - { - Vector comps = (Vector) components.get(seqSetId); - if(!comps.contains(comp)) - { - comps.addElement(comp); - } - } - else - { - Vector vcoms = new Vector(); - vcoms.addElement(comp); - components.put(seqSetId, vcoms); - } - } - - public static void RemoveComponent(Component comp) - { - if (components == null) - return; - - Enumeration en = components.keys(); - while(en.hasMoreElements()) - { - String id = en.nextElement().toString(); - Vector comps = (Vector) components.get(id); - comps.removeElement(comp); - if(comps.size()==0) - { - components.remove(id); - } - } - } - - public static void Refresh(Component source, String id) - { - Refresh( source, id, false, false); - } - - public static void Refresh(Component source, - String id, - boolean alignmentChanged, - boolean validateSequences) - { - if (components == null) - return; - - Component comp; - Vector comps = (Vector) components.get(id); - - if(comps==null) - { - return; - } - - Enumeration e = comps.elements(); - while (e.hasMoreElements()) - { - comp = (Component) e.nextElement(); - - if(comp==source) - { - continue; - } - - if (!comp.isValid()) - { - comps.removeElement(comp); - } - else if(validateSequences - && comp instanceof AlignmentPanel - && source instanceof AlignmentPanel ) - { - validateSequences( ((AlignmentPanel)source).av.alignment, - ((AlignmentPanel)comp).av.alignment); - } - - if(comp instanceof AlignmentPanel && alignmentChanged) - { - ((AlignmentPanel)comp).alignmentChanged(); - } - - comp.repaint(); - } - } - - static void validateSequences(AlignmentI source, AlignmentI comp) - { - SequenceI[] a1; - if(source.getHiddenSequences().getSize()>0) - a1 = source.getHiddenSequences().getFullAlignment().getSequencesArray(); - else - a1 = source.getSequencesArray(); - - SequenceI[] a2; - if (comp.getHiddenSequences().getSize() > 0) - a2 = comp.getHiddenSequences().getFullAlignment().getSequencesArray(); - else - a2 = comp.getSequencesArray(); - - int i, iSize=a1.length, j, jSize=a2.length; - boolean exists = false; - for(i=0; i 0) - a2 = comp.getHiddenSequences().getFullAlignment().getSequencesArray(); - else - a2 = comp.getSequencesArray(); - } - } - - iSize=a1.length; - jSize=a2.length; - - for(j=0; j. + * The Jalview Authors are detailed in the 'AUTHORS' file. + */ +package jalview.appletgui; + +import jalview.datamodel.AlignmentI; +import jalview.datamodel.SequenceI; + +import java.awt.Component; +import java.util.Enumeration; +import java.util.Hashtable; +import java.util.List; +import java.util.Vector; + +/** + * DOCUMENT ME! + * + * @author $author$ + * @version $Revision$ + */ +public class PaintRefresher +{ + static Hashtable components; + + /** + * DOCUMENT ME! + * + * @param comp + * DOCUMENT ME! + * @param al + * DOCUMENT ME! + */ + public static void Register(Component comp, String seqSetId) + { + if (components == null) + { + components = new Hashtable(); + } + + if (components.containsKey(seqSetId)) + { + Vector comps = (Vector) components.get(seqSetId); + if (!comps.contains(comp)) + { + comps.addElement(comp); + } + } + else + { + Vector vcoms = new Vector(); + vcoms.addElement(comp); + components.put(seqSetId, vcoms); + } + } + + public static void RemoveComponent(Component comp) + { + if (components == null) + { + return; + } + + Enumeration en = components.keys(); + while (en.hasMoreElements()) + { + String id = en.nextElement().toString(); + Vector comps = (Vector) components.get(id); + comps.removeElement(comp); + if (comps.size() == 0) + { + components.remove(id); + } + } + } + + public static void Refresh(Component source, String id) + { + Refresh(source, id, false, false); + } + + public static void Refresh(Component source, String id, + boolean alignmentChanged, boolean validateSequences) + { + if (components == null) + { + return; + } + + Component comp; + Vector comps = (Vector) components.get(id); + + if (comps == null) + { + return; + } + + Enumeration e = comps.elements(); + while (e.hasMoreElements()) + { + comp = (Component) e.nextElement(); + + if (comp == source) + { + continue; + } + + if (!comp.isValid()) + { + comps.removeElement(comp); + } + else if (validateSequences && comp instanceof AlignmentPanel + && source instanceof AlignmentPanel) + { + validateSequences(((AlignmentPanel) source).av.getAlignment(), + ((AlignmentPanel) comp).av.getAlignment()); + } + + if (comp instanceof AlignmentPanel && alignmentChanged) + { + ((AlignmentPanel) comp).alignmentChanged(); + } + + comp.repaint(); + } + } + + static void validateSequences(AlignmentI source, AlignmentI comp) + { + SequenceI[] a1; + if (source.getHiddenSequences().getSize() > 0) + { + a1 = source.getHiddenSequences().getFullAlignment() + .getSequencesArray(); + } + else + { + a1 = source.getSequencesArray(); + } + + SequenceI[] a2; + if (comp.getHiddenSequences().getSize() > 0) + { + a2 = comp.getHiddenSequences().getFullAlignment().getSequencesArray(); + } + else + { + a2 = comp.getSequencesArray(); + } + + int i, iSize = a1.length, j, jSize = a2.length; + + if (iSize == jSize) + { + return; + } + + boolean exists = false; + for (i = 0; i < iSize; i++) + { + exists = false; + + for (j = 0; j < jSize; j++) + { + if (a2[j] == a1[i]) + { + exists = true; + break; + } + } + + if (!exists) + { + if (i < comp.getHeight()) + { + // TODO: the following does not trigger any recalculation of + // height/etc, or maintain the dataset + List alsq; + synchronized (alsq = comp.getSequences()) + { + alsq.add(i, a1[i]); + } + } + else + { + comp.addSequence(a1[i]); + } + + if (comp.getHiddenSequences().getSize() > 0) + { + a2 = comp.getHiddenSequences().getFullAlignment() + .getSequencesArray(); + } + else + { + a2 = comp.getSequencesArray(); + } + + jSize = a2.length; + } + } + + iSize = a1.length; + jSize = a2.length; + + for (j = 0; j < jSize; j++) + { + exists = false; + for (i = 0; i < iSize; i++) + { + if (a2[j] == a1[i]) + { + exists = true; + break; + } + } + + if (!exists) + { + comp.deleteSequence(a2[j]); + } + } + } + + public static AlignmentPanel[] getAssociatedPanels(String id) + { + Vector comps = (Vector) components.get(id); + Vector tmp = new Vector(); + int i, iSize = comps.size(); + for (i = 0; i < iSize; i++) + { + if (comps.elementAt(i) instanceof AlignmentPanel) + { + tmp.addElement(comps.elementAt(i)); + } + } + AlignmentPanel[] result = new AlignmentPanel[tmp.size()]; + for (int ix = 0; ix < result.length; ix++) + { + result[ix] = (AlignmentPanel) tmp.elementAt(ix); + } + + return result; + } + +}