uses jalviewfilechooser

[jalview.git] / src / jalview / gui / AlignmentPanel.java

diff --git a/src/jalview/gui/AlignmentPanel.java b/src/jalview/gui/AlignmentPanel.java
index 296bb80..da68ab9 100755 (executable)
--- a/src/jalview/gui/AlignmentPanel.java
+++ b/src/jalview/gui/AlignmentPanel.java
@@ -383,7 +383,7 @@ public class AlignmentPanel extends GAlignmentPanel implements AdjustmentListene
     Color currentTextColor=null;\r
     for(int i=startSeq; i<endSeq; i++)\r
     {\r
-      if (av.alignment.findGroup(av.getAlignment().getSequenceAt(i))==null)\r
+      if (av.getSelectionGroup()!=null && av.getSelectionGroup().sequences.contains(av.getAlignment().getSequenceAt(i)))\r
       {\r
         currentColor = Color.gray;\r
         currentTextColor = Color.black;\r
@@ -488,14 +488,14 @@ public class AlignmentPanel extends GAlignmentPanel implements AdjustmentListene
       catch (Exception ex)\r
       {}\r
 \r
-      javax.swing.JFileChooser chooser = new javax.swing.JFileChooser(jalview.bin.Cache.getProperty(\r
+      jalview.io.JalviewFileChooser chooser = new jalview.io.JalviewFileChooser(jalview.bin.Cache.getProperty(\r
           "LAST_DIRECTORY"));\r
       chooser.setFileView(new jalview.io.JalviewFileView());\r
       chooser.setDialogTitle("Create JPG image from alignment");\r
       chooser.setToolTipText("Save");\r
 \r
       int value = chooser.showSaveDialog(this);\r
-      if (value == javax.swing.JFileChooser.APPROVE_OPTION)\r
+      if (value == jalview.io.JalviewFileChooser.APPROVE_OPTION)\r
       {\r
 \r
         FileOutputStream out = new FileOutputStream(chooser.getSelectedFile());\r