/*\r
* Jalview - A Sequence Alignment Editor and Viewer\r
- * Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
+ * Copyright (C) 2007 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
*\r
* This program is free software; you can redistribute it and/or\r
* modify it under the terms of the GNU General Public License\r
idCanvas.addMouseMotionListener(this);\r
\r
String label, url;\r
- if(parent.alignFrame.applet!=null)\r
+ if (av.applet != null)\r
{\r
for (int i = 1; i < 10; i++)\r
{\r
- label = parent.alignFrame.applet.getParameter("linkLabel_" + i);\r
- url = parent.alignFrame.applet.getParameter("linkURL_" + i);\r
+ label = av.applet.getParameter("linkLabel_" + i);\r
+ url = av.applet.getParameter("linkURL_" + i);\r
\r
if (label != null && url != null)\r
+ {\r
links.addElement(label + "|" + url);\r
+ }\r
\r
}\r
}\r
if (links.size() < 1)\r
{\r
links = new java.util.Vector();\r
- links.addElement("SRS|http://srs.ebi.ac.uk/srs7bin/cgi-bin/wgetz?-e+[uniprot-all:$SEQUENCE_ID$]+-vn+2");\r
+ links.addElement("SRS|http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-newId+(([uniprot-all:$SEQUENCE_ID$]))+-view+SwissEntry");\r
}\r
}\r
\r
+ Tooltip tooltip;\r
public void mouseMoved(MouseEvent e)\r
- {}\r
-\r
- public void mouseDragged(MouseEvent e)\r
{\r
- mouseDragging = true;\r
+ int seq = alignPanel.seqPanel.findSeq(e);\r
\r
- int y = e.getY();\r
- if (av.getWrapAlignment())\r
+ SequenceI sequence = av.getAlignment().getSequenceAt(seq);\r
+\r
+ if (sequence.getDescription() == null)\r
{\r
- y -= 2 * av.charHeight;\r
+ if (tooltip != null)\r
+ {\r
+ tooltip.setVisible(false);\r
+ }\r
+ tooltip = null;\r
+ return;\r
}\r
- int seq = av.getIndex(y);\r
\r
- if (seq < 0)\r
+ if (tooltip == null)\r
{\r
- return;\r
+ tooltip = new Tooltip(\r
+ sequence.getDisplayId(true)\r
+ + "\n" + sequence.getDescription(), idCanvas);\r
+ }\r
+ else\r
+ {\r
+ tooltip.setTip(sequence.getDisplayId(true)\r
+ + "\n" + sequence.getDescription());\r
}\r
+ }\r
+\r
+ public void mouseDragged(MouseEvent e)\r
+ {\r
+ mouseDragging = true;\r
+\r
+ int seq = Math.max(0, alignPanel.seqPanel.findSeq(e));\r
\r
if (seq < lastid)\r
{\r
}\r
\r
lastid = seq;\r
- alignPanel.repaint();\r
+ alignPanel.paintAlignment(true);\r
}\r
\r
public void mouseClicked(MouseEvent e)\r
{\r
if (e.getClickCount() < 2)\r
- return;\r
-\r
- int y = e.getY();\r
-\r
- if (av.getWrapAlignment())\r
{\r
- y -= (2 * av.charHeight);\r
+ return;\r
}\r
\r
//DEFAULT LINK IS FIRST IN THE LINK LIST\r
- int seq = av.getIndex(y);\r
+ int seq = alignPanel.seqPanel.findSeq(e);\r
String id = av.getAlignment().getSequenceAt(seq).getName();\r
if (id.indexOf("|") > -1)\r
- id = id.substring(id.lastIndexOf("|") + 1);\r
+ {\r
+ id = id.substring(id.lastIndexOf("|") + 1);\r
+ }\r
\r
String target = links.elementAt(0).toString();\r
target = target.substring(0, target.indexOf("|"));\r
String url = links.elementAt(0).toString();\r
- url = url.substring(url.indexOf("|")+1);\r
+ url = url.substring(url.indexOf("|") + 1);\r
\r
int index = url.indexOf("$SEQUENCE_ID$");\r
- url = url.substring(0, index)+ id + url.substring(index+13);\r
+ url = url.substring(0, index) + id + url.substring(index + 13);\r
\r
try\r
{\r
\r
public void mousePressed(MouseEvent e)\r
{\r
- if (e.getClickCount() >1 )\r
+ if (e.getClickCount() > 1)\r
{\r
return;\r
}\r
y -= 2 * av.charHeight;\r
}\r
\r
- int seq = av.getIndex(y);\r
- if (seq == -1)\r
- {\r
- return;\r
- }\r
+ int seq = alignPanel.seqPanel.findSeq(e);\r
\r
if ( (e.getModifiers() & InputEvent.BUTTON3_MASK) ==\r
InputEvent.BUTTON3_MASK)\r
{\r
- APopupMenu popup = new APopupMenu(alignPanel, (Sequence) av.getAlignment().getSequenceAt(seq), links);\r
+ APopupMenu popup = new APopupMenu(alignPanel,\r
+ (Sequence) av.getAlignment().\r
+ getSequenceAt(seq), links);\r
this.add(popup);\r
popup.show(this, e.getX(), e.getY());\r
return;\r
}\r
\r
-\r
- if ((av.getSelectionGroup() == null) ||\r
- ((!e.isControlDown() && !e.isShiftDown()) && av.getSelectionGroup() != null))\r
+ if ( (av.getSelectionGroup() == null) ||\r
+ ( (!e.isControlDown() && !e.isShiftDown()) && av.getSelectionGroup() != null))\r
{\r
av.setSelectionGroup(new SequenceGroup());\r
av.getSelectionGroup().setStartRes(0);\r
av.getSelectionGroup().setEndRes(av.alignment.getWidth() - 1);\r
}\r
\r
-\r
if (e.isShiftDown() && lastid != -1)\r
{\r
selectSeqs(lastid, seq);\r
selectSeq(seq);\r
}\r
\r
- alignPanel.repaint();\r
+ alignPanel.paintAlignment(true);\r
}\r
\r
void selectSeq(int seq)\r
{\r
\r
lastid = start;\r
+\r
+ if (end >= av.getAlignment().getHeight())\r
+ {\r
+ end = av.getAlignment().getHeight() - 1;\r
+ }\r
+\r
if (end < start)\r
{\r
int tmp = start;\r
scrollThread.running = false;\r
}\r
\r
- if(av.getSelectionGroup()!=null)\r
+ if (av.getSelectionGroup() != null)\r
+ {\r
av.getSelectionGroup().recalcConservation();\r
+ }\r
\r
mouseDragging = false;\r
- PaintRefresher.Refresh(this, av.alignment);\r
+ PaintRefresher.Refresh(this, av.getSequenceSetId());\r
}\r
\r
public void highlightSearchResults(java.util.Vector found)\r
{\r
selectSeqs(lastid - 1, seq);\r
}\r
- else if (seq > lastid)\r
+ else if (seq > lastid && seq < av.alignment.getHeight())\r
{\r
selectSeqs(lastid + 1, seq);\r
}\r
running = false;\r
}\r
\r
- alignPanel.repaint();\r
+ alignPanel.paintAlignment(true);\r
try\r
{\r
Thread.sleep(100);\r