Hashtable seqRefIds;
/**
+ * This maintains a list of viewports, the key being the
+ * seqSetId. Important to set historyItem and redoList
+ * for multiple views
+ */
+ Hashtable viewportsAdded;
+
+ /**
* DOCUMENT ME!
*
* @param file DOCUMENT ME!
jalview.gui.AlignFrame af = null;
seqRefIds = new Hashtable();
+ viewportsAdded = new Hashtable();
+
Vector gatherToThisFrame= new Vector();
try
JalviewModelSequence jms = object.getJalviewModelSequence();
- Viewport[] views = jms.getViewport();
- Viewport view = views[0]; // DEAL WITH MULTIPLE VIEWPORTS LATER
+ Viewport view = jms.getViewport(0);
//////////////////////////////////
//LOAD SEQUENCES
}
}
-
- // af.changeColour() );
/////////////////////////
//LOAD GROUPS
if (jms.getJGroupCount() > 0)
af.viewport.gatherViewsHere = view.getGatheredViews();
if (view.getSequenceSetId() != null)
- PaintRefresher.Register(af.alignPanel, view.getSequenceSetId());
+ {
+ jalview.gui.AlignViewport av =
+ (jalview.gui.AlignViewport)
+ viewportsAdded.get(view.getSequenceSetId());
+ if(av!=null)
+ {
+ af.viewport.historyList = av.historyList;
+ af.viewport.redoList = av.redoList;
+ }
+ else
+ {
+ viewportsAdded.put(view.getSequenceSetId(), af.viewport);
+ }
+
+ PaintRefresher.Register(af.alignPanel, view.getSequenceSetId());
+ }
if(hiddenSeqs!=null)
{
for(int s=0; s<JSEQ.length; s++)
af.viewport.setStartSeq(view.getStartSeq());
af.viewport.setShowAnnotation(view.getShowAnnotation());
af.viewport.setAbovePIDThreshold(view.getPidSelected());
- af.abovePIDThreshold.setSelected(view.getPidSelected());
+
af.viewport.setColourText(view.getShowColourText());
- af.colourTextMenuItem.setSelected(view.getShowColourText());
- af.viewport.setConservationSelected(view.getConservationSelected());
- af.conservationMenuItem.setSelected(view.getConservationSelected());
+ af.viewport.setConservationSelected(view.getConservationSelected());
af.viewport.setShowJVSuffix(view.getShowFullId());
- af.seqLimits.setSelected(view.getShowFullId());
-
af.viewport.setFont(new java.awt.Font(view.getFontName(),
view.getFontStyle(), view.getFontSize()));
af.alignPanel.fontChanged();
-
af.viewport.setRenderGaps(view.getRenderGaps());
- af.renderGapsMenuItem.setSelected(view.getRenderGaps());
-
af.viewport.setWrapAlignment(view.getWrapAlignment());
- af.wrapMenuItem.setSelected(view.getWrapAlignment());
-
af.alignPanel.setWrapAlignment(view.getWrapAlignment());
-
- af.annotationPanelMenuItem.setState(view.getShowAnnotation());
af.viewport.setShowAnnotation(view.getShowAnnotation());
af.alignPanel.setAnnotationVisible(view.getShowAnnotation());
af.viewport.setShowBoxes(view.getShowBoxes());
- af.viewBoxesMenuItem.setSelected(view.getShowBoxes());
+
af.viewport.setShowText(view.getShowText());
- af.viewTextMenuItem.setSelected(view.getShowText());
+
ColourSchemeI cs = null;
}
}
- af.setColourSelected(view.getBgColour());
+
af.viewport.setGlobalColourScheme(cs);
af.viewport.setColourAppliesToAllGroups(false);
- af.changeColour(cs);
+
if (view.getConservationSelected() && cs!=null)
{
cs.setConservationInc(view.getConsThreshold());
}
+ af.changeColour(cs);
+
af.viewport.setColourAppliesToAllGroups(true);
+
+
if (view.getShowSequenceFeatures())
{
af.viewport.showSequenceFeatures = true;
- af.showSeqFeatures.setSelected(true);
}
if(jms.getFeatureSettings()!=null)
}
}
+ af.setMenusFromViewport(af.viewport);
+
Desktop.addInternalFrame(af, view.getTitle(),
view.getWidth(), view.getHeight());
af.viewport.setStartSeq(view.getStartSeq());\r
af.viewport.setShowAnnotation(view.getShowAnnotation());\r
af.viewport.setAbovePIDThreshold(view.getPidSelected());\r
- af.abovePIDThreshold.setSelected(view.getPidSelected());\r
af.viewport.setColourText(view.getShowColourText());\r
- af.colourTextMenuItem.setSelected(view.getShowColourText());\r
af.viewport.setConservationSelected(view.getConservationSelected());\r
- af.conservationMenuItem.setSelected(view.getConservationSelected());\r
-\r
af.viewport.setShowJVSuffix(view.getShowFullId());\r
- af.seqLimits.setSelected(view.getShowFullId());\r
-\r
af.viewport.setFont(new java.awt.Font(view.getFontName(),\r
view.getFontStyle(), view.getFontSize()));\r
af.alignPanel.fontChanged();\r
\r
af.viewport.setRenderGaps(view.getRenderGaps());\r
- af.renderGapsMenuItem.setSelected(view.getRenderGaps());\r
-\r
af.viewport.setWrapAlignment(view.getWrapAlignment());\r
- af.wrapMenuItem.setSelected(view.getWrapAlignment());\r
-\r
-\r
af.alignPanel.setWrapAlignment(view.getWrapAlignment());\r
-\r
- af.annotationPanelMenuItem.setState(view.getShowAnnotation());\r
af.viewport.setShowAnnotation(view.getShowAnnotation());\r
af.alignPanel.setAnnotationVisible(view.getShowAnnotation());\r
-\r
-\r
af.viewport.setShowBoxes(view.getShowBoxes());\r
- af.viewBoxesMenuItem.setSelected(view.getShowBoxes());\r
af.viewport.setShowText(view.getShowText());\r
- af.viewTextMenuItem.setSelected(view.getShowText());\r
\r
ColourSchemeI cs = null;\r
\r
}\r
}\r
\r
- af.setColourSelected(view.getBgColour());\r
af.viewport.setGlobalColourScheme(cs);\r
af.viewport.setColourAppliesToAllGroups(false);\r
af.changeColour(cs);\r
}\r
\r
af.viewport.setColourAppliesToAllGroups(true);\r
+ af.viewport.showSequenceFeatures = view.getShowSequenceFeatures();\r
\r
- if (view.getShowSequenceFeatures())\r
- {\r
- af.viewport.showSequenceFeatures = true;\r
- af.showSeqFeatures.setSelected(true);\r
- }\r
\r
if(jms.getFeatureSettings()!=null)\r
{\r
af.alignPanel.seqPanel.seqCanvas.getFeatureRenderer().renderOrder = renderOrder;\r
}\r
\r
+ af.setMenusFromViewport(af.viewport);\r
\r
Desktop.addInternalFrame(af, view.getTitle(),\r
view.getWidth(), view.getHeight());\r