X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FIdPanel.java;h=38912fddc6e9f67e13e51db923fc7a43f628f597;hb=153dd62dc91da13ae732600e6ea55ddbe15eab39;hp=ff175aa3a885a003c1d34eece767b871a8bb413b;hpb=5f0327b9a1f7adedb23e9188aef61e98dd14a1c2;p=jalview.git
diff --git a/src/jalview/gui/IdPanel.java b/src/jalview/gui/IdPanel.java
index ff175aa..38912fd 100755
--- a/src/jalview/gui/IdPanel.java
+++ b/src/jalview/gui/IdPanel.java
@@ -1,144 +1,518 @@
-package jalview.gui;
-
-import java.awt.*;
-import java.awt.event.*;
-
-import jalview.datamodel.*;
-
-import javax.swing.*;
-
-public class IdPanel extends JPanel implements MouseListener, MouseMotionListener {
-
- protected IdCanvas idCanvas;
- protected AlignViewport av;
- protected AlignmentPanel alignPanel;
-
- protected int offy;
- public int width;
- public int lastid;
-
- SequenceGroup selectedSequenceGroup;
-
- public IdPanel(AlignViewport av, AlignmentPanel parent)
- {
- this.av = av;
- alignPanel = parent;
- idCanvas = new IdCanvas(av);
- setLayout(new BorderLayout());
- add(idCanvas, BorderLayout.CENTER);
- addMouseListener(this);
- addMouseMotionListener(this);
- }
-
- public void mouseMoved(MouseEvent e) {}
-
- public void selectSeqs(int start, int end) {
- if (end < start)
- {
- int tmp = start;
- start = end;
- end = tmp;
- }
-
- for (int i = start; i <= end; i++)
- {
- SequenceI pickedSeq = av.getAlignment().getSequenceAt(i);
- if (av.getSelection().contains(pickedSeq))
- {
- av.getSelection().removeElement(pickedSeq);
- selectedSequenceGroup.deleteSequence(pickedSeq);
- }
- else
- {
- av.getSelection().addElement(pickedSeq);
- if(selectedSequenceGroup==null)
- {
- selectedSequenceGroup = new SequenceGroup();
- av.setRubberbandGroup( selectedSequenceGroup );
- // av.alignment.addGroup( selectedSequenceGroup );
- selectedSequenceGroup.setStartRes(0);
- selectedSequenceGroup.setEndRes( pickedSeq.getSequence().length());
- }
-
- selectedSequenceGroup.addSequence( pickedSeq );
- }
-
- }
-
- alignPanel.seqPanel.seqCanvas.paintFlag=true;
- alignPanel.repaint();
- repaint();
-
- }
-
- public void mouseDragged(MouseEvent e) {
- int y = e.getY();
- int seq = av.getIndex(y);
-
- if (seq < lastid)
- selectSeqs(lastid - 1, seq);
- else if (seq > lastid)
- selectSeqs(lastid + 1, seq);
-
- lastid = seq;
-
- return;
- }
-
- public void mouseClicked(MouseEvent e)
- {
- if (e.getClickCount() == 2)
- {
- int seq = av.getIndex(e.getY());
- String id = av.getAlignment().getSequenceAt(seq).getName();
-
- try{
- jalview.util.BrowserLauncher.openURL(
- "http://srs.ebi.ac.uk/srs7bin/cgi-bin/wgetz?-e+[swall-id:" + id +
- "]+-vn+2");
- }catch(Exception ex){ex.printStackTrace();}
- }
-
- }
- public void mouseEntered(MouseEvent e) { }
- public void mouseExited (MouseEvent e) { }
-
- public void mousePressed(MouseEvent e) {
- if (e.getClickCount() == 2)
- return;
-
- int y = e.getY();
- int seq = av.getIndex(y);
-
- selectedSequenceGroup = av.getRubberbandGroup();
- if (selectedSequenceGroup == null)
- {
- selectedSequenceGroup = new SequenceGroup();
- av.setRubberbandGroup(selectedSequenceGroup);
- }
-
- selectedSequenceGroup.setStartRes(0);
- selectedSequenceGroup.setEndRes(av.getAlignment().getWidth() - 1);
-
- if (seq != -1)
- selectSeqs(seq, seq);
-
- lastid = seq;
-
- if( javax.swing.SwingUtilities.isRightMouseButton(e))
- {
- jalview.gui.PopupMenu pop = new jalview.gui.PopupMenu(alignPanel, av.getAlignment().getSequenceAt(seq) );
- pop.show(this, e.getX(), y);
- }
-
-
- return;
- }
-
- public void mouseReleased(MouseEvent e)
- {
- lastid = -1;
- PaintRefresher.Refresh(this);
- selectedSequenceGroup = null;
- }
-}
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
+ * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview 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 3 of the License, or (at your option) any later version.
+ *
+ * Jalview 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 Jalview. If not, see .
+ */
+package jalview.gui;
+
+import java.awt.*;
+import java.awt.event.*;
+import java.util.Vector;
+
+import javax.swing.*;
+
+import jalview.datamodel.*;
+import jalview.util.UrlLink;
+
+/**
+ * DOCUMENT ME!
+ *
+ * @author $author$
+ * @version $Revision$
+ */
+public class IdPanel extends JPanel implements MouseListener,
+ MouseMotionListener, MouseWheelListener
+{
+ protected IdCanvas idCanvas;
+
+ protected AlignViewport av;
+
+ protected AlignmentPanel alignPanel;
+
+ ScrollThread scrollThread = null;
+
+ String linkImageURL;
+
+ int offy;
+
+ // int width;
+ int lastid = -1;
+
+ boolean mouseDragging = false;
+
+ /**
+ * Creates a new IdPanel object.
+ *
+ * @param av
+ * DOCUMENT ME!
+ * @param parent
+ * DOCUMENT ME!
+ */
+ public IdPanel(AlignViewport av, AlignmentPanel parent)
+ {
+ this.av = av;
+ alignPanel = parent;
+ idCanvas = new IdCanvas(av);
+ linkImageURL = getClass().getResource("/images/link.gif").toString();
+ setLayout(new BorderLayout());
+ add(idCanvas, BorderLayout.CENTER);
+ addMouseListener(this);
+ addMouseMotionListener(this);
+ addMouseWheelListener(this);
+ ToolTipManager.sharedInstance().registerComponent(this);
+ }
+
+ /**
+ * DOCUMENT ME!
+ *
+ * @param e
+ * DOCUMENT ME!
+ */
+ public void mouseMoved(MouseEvent e)
+ {
+ SeqPanel sp = alignPanel.seqPanel;
+ int seq = Math.max(0, sp.findSeq(e));
+ String tmp;
+ if (seq > -1 && seq < av.alignment.getHeight())
+ {
+ SequenceI sequence = av.alignment.getSequenceAt(seq);
+ StringBuffer tip = new StringBuffer();
+ tip.append("");
+
+ int maxWidth = 0;
+ if (sequence.getDescription() != null)
+ {
+ tmp = sequence.getDescription();
+ tip.append("
" + tmp);
+ maxWidth = Math.max(maxWidth, tmp.length());
+ }
+
+ DBRefEntry[] dbrefs = sequence.getDatasetSequence().getDBRef();
+ if (av.isShowDbRefs() && dbrefs != null)
+ {
+ for (int i = 0; i < dbrefs.length; i++)
+ {
+ tip.append("
");
+ tmp = dbrefs[i].getSource() + " " + dbrefs[i].getAccessionId();
+ tip.append(tmp);
+ maxWidth = Math.max(maxWidth, tmp.length());
+ }
+ }
+
+ // ADD NON POSITIONAL SEQUENCE INFO
+ SequenceFeature[] features = sequence.getDatasetSequence()
+ .getSequenceFeatures();
+ SequenceFeature[] tfeat = new SequenceFeature[1];
+ if (av.isShowNpFeats() && features != null)
+ {
+ for (int i = 0; i < features.length; i++)
+ {
+ if (features[i].begin == 0 && features[i].end == 0)
+ {
+ int sz = -tip.length();
+ tfeat[0] = features[i];
+ sp.appendFeatures(tip, linkImageURL, 0, tfeat,
+ sp.seqCanvas.fr.minmax);
+ sz += tip.length();
+ maxWidth = Math.max(maxWidth, sz);
+ }
+ }
+ }
+
+ if (maxWidth > 60)
+ {
+ tip.insert(0, "");
+ }
+
+ tip.append("