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JAL-1705 javadoc added only
[jalview.git]
/
src
/
jalview
/
appletgui
/
AlignViewport.java
diff --git
a/src/jalview/appletgui/AlignViewport.java
b/src/jalview/appletgui/AlignViewport.java
index
e4e3e17
..
7ef2d59
100644
(file)
--- a/
src/jalview/appletgui/AlignViewport.java
+++ b/
src/jalview/appletgui/AlignViewport.java
@@
-187,8
+187,13
@@
public class AlignViewport extends AlignmentViewport implements
if (applet != null)
{
if (applet != null)
{
- String colour = applet.getParameter("defaultColour");
-
+ String colour = al.isNucleotide() ? applet
+ .getParameter("defaultColourNuc") : applet
+ .getParameter("defaultColourProt");
+ if (colour == null)
+ {
+ colour = applet.getParameter("defaultColour");
+ }
if (colour == null)
{
colour = applet.getParameter("userDefinedColour");
if (colour == null)
{
colour = applet.getParameter("userDefinedColour");
@@
-287,7
+292,6
@@
public class AlignViewport extends AlignmentViewport implements
return font;
}
return font;
}
-
public void resetSeqLimits(int height)
{
setEndSeq(height / getCharHeight());
public void resetSeqLimits(int height)
{
setEndSeq(height / getCharHeight());
@@
-303,7
+307,6
@@
public class AlignViewport extends AlignmentViewport implements
return currentTree;
}
return currentTree;
}
-
boolean centreColumnLabels;
public boolean getCentreColumnLabels()
boolean centreColumnLabels;
public boolean getCentreColumnLabels()
@@
-325,8
+328,8
@@
public class AlignViewport extends AlignmentViewport implements
public void sendSelection()
{
getStructureSelectionManager().sendSelection(
public void sendSelection()
{
getStructureSelectionManager().sendSelection(
- new SequenceGroup(getSelectionGroup()),
- new ColumnSelection(getColumnSelection()), this);
+ new SequenceGroup(getSelectionGroup()),
+ new ColumnSelection(getColumnSelection()), this);
}
/**
}
/**
@@
-467,5
+470,4
@@
public class AlignViewport extends AlignmentViewport implements
}
}
}
}
-
}
}