/*\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
int width;\r
int lastid = -1;\r
boolean mouseDragging = false;\r
+ java.util.Vector links = new java.util.Vector();\r
\r
public IdPanel(AlignViewport av, AlignmentPanel parent)\r
{\r
add(idCanvas, BorderLayout.CENTER);\r
idCanvas.addMouseListener(this);\r
idCanvas.addMouseMotionListener(this);\r
+\r
+ String label, url;\r
+ if (av.applet != null)\r
+ {\r
+ for (int i = 1; i < 10; i++)\r
+ {\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/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(false);\r
}\r
\r
public void mouseClicked(MouseEvent e)\r
{\r
- if (e.getClickCount() == 2)\r
+ if (e.getClickCount() < 2)\r
{\r
- int y = e.getY();\r
- if (av.getWrapAlignment())\r
- {\r
- y -= 2 * av.charHeight;\r
- }\r
-\r
- int seq = av.getIndex(y);\r
- String id = av.getAlignment().getSequenceAt(seq).getName();\r
+ return;\r
+ }\r
\r
- try\r
- {\r
- jalview.bin.JalviewLite.showURL(\r
- "http://srs.ebi.ac.uk/srs7bin/cgi-bin/wgetz?-e+[swall-id:" + id +\r
- "]+-vn+2");\r
- }\r
- catch (Exception ex)\r
- {\r
- ex.printStackTrace();\r
- }\r
+ //DEFAULT LINK IS FIRST IN THE LINK LIST\r
+ int seq = alignPanel.seqPanel.findSeq(e);\r
+ String id = av.getAlignment().getSequenceAt(seq).getName();\r
+ if (id.indexOf("|") > -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
+\r
+ int index = url.indexOf("$SEQUENCE_ID$");\r
+ url = url.substring(0, index) + id + url.substring(index + 13);\r
+\r
+ try\r
+ {\r
+\r
+ alignPanel.alignFrame.showURL(url, target);\r
+ }\r
+ catch (Exception ex)\r
+ {\r
+ ex.printStackTrace();\r
+ }\r
}\r
\r
public void mouseEntered(MouseEvent e)\r
\r
public void mousePressed(MouseEvent e)\r
{\r
- if (e.getClickCount() == 2)\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, null);\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
- if (!e.isControlDown() && !e.isShiftDown() &&\r
- av.alignment.findGroup(av.alignment.getSequenceAt(seq)) != null)\r
- {\r
-\r
- SequenceGroup selection = new SequenceGroup();\r
- SequenceGroup sg = av.alignment.findGroup(av.alignment.getSequenceAt(seq));\r
- selection.setStartRes(0);\r
- selection.setEndRes(av.alignment.getWidth() - 1);\r
- for (int i = 0; i < sg.getSize(); i++)\r
- {\r
- selection.addSequence(sg.getSequenceAt(i), true);\r
- }\r
-\r
- av.setSelectionGroup(selection);\r
- return;\r
- }\r
-\r
- if (av.getSelectionGroup() == null ||\r
- (!e.isControlDown() && 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
- av.getSelectionGroup().setStartRes(0);\r
- av.getSelectionGroup().setEndRes(av.alignment.getWidth() - 1);\r
-\r
if (e.isShiftDown() && lastid != -1)\r
{\r
selectSeqs(lastid, seq);\r
selectSeq(seq);\r
}\r
\r
- alignPanel.repaint();\r
+ alignPanel.paintAlignment(false);\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);\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
git://source.jalview.org / jalview.git / blobdiff