view.setShowText(av.getShowText());\r
view.setWrapAlignment(av.getWrapAlignment());\r
\r
+ if(af.alignPanel.seqPanel.seqCanvas.getFeatureRenderer().featuresDisplayed!=null)\r
+ {\r
+ jalview.binding.FeatureSettings fs = new jalview.binding.FeatureSettings();\r
+\r
+ Enumeration e = af.alignPanel.seqPanel.seqCanvas.getFeatureRenderer().featureColours.keys();\r
+ while (e.hasMoreElements())\r
+ {\r
+ String type = e.nextElement().toString();\r
+ Setting setting = new Setting();\r
+ setting.setType(type);\r
+ setting.setColour(\r
+ af.alignPanel.seqPanel.seqCanvas.getFeatureRenderer().getColour(type).getRGB()\r
+ );\r
+ setting.setDisplay(\r
+ af.alignPanel.seqPanel.seqCanvas.getFeatureRenderer().featuresDisplayed.contains(type)\r
+ );\r
+\r
+ fs.addSetting(setting);\r
+\r
+ }\r
+ jms.setFeatureSettings(fs);\r
+\r
+ }\r
+\r
jms.addViewport(view);\r
\r
+\r
object.setJalviewModelSequence(jms);\r
object.getVamsasModel().addSequenceSet(vamsasSet);\r
\r
\r
AlignFrame af = new AlignFrame(al);\r
\r
+\r
// af.changeColour() );\r
/////////////////////////\r
//LOAD GROUPS\r
af.sequenceFeatures.setSelected(true);\r
}\r
\r
+ if(jms.getFeatureSettings()!=null)\r
+ {\r
+ af.alignPanel.seqPanel.seqCanvas.getFeatureRenderer().featuresDisplayed = new Vector();\r
+ // af.alignPanel.seqPanel.seqCanvas.getFeatureRenderer().featuresDisplayed!=null)\r
+ // jalview.binding.FeatureSettings fs = new jalview.binding.FeatureSettings();\r
+ for(int fs=0; fs<jms.getFeatureSettings().getSettingCount(); fs++)\r
+ {\r
+ Setting setting = jms.getFeatureSettings().getSetting(fs);\r
+\r
+ af.alignPanel.seqPanel.seqCanvas.getFeatureRenderer().setColour(setting.getType(),\r
+ new java.awt.Color(setting.getColour()));\r
+ if(setting.getDisplay())\r
+ af.alignPanel.seqPanel.seqCanvas.getFeatureRenderer().featuresDisplayed.addElement(setting.getType());\r
+ }\r
+ }\r
+\r
Desktop.addInternalFrame(af, view.getTitle(),\r
view.getWidth(), view.getHeight());\r
\r